Tag: tRNA

KEGG REACTION: R03197

    REACTION: R03197 Help Entry R03197                      Reaction                                Name Uroporphyrinogen-III carboxy-lyase Definition Uroporphyrinogen III <=> Coproporphyrinogen III + 4 CO2 Equation Reaction class Enzyme Pathway rn01110   Biosynthesis of secondary metabolites rn01240   Biosynthesis of cofactors Module M00121   Heme biosynthesis, plants and bacteria, glutamate => heme M00868   Heme biosynthesis, animals and fungi, glycine =>…

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EXAM 2.docx – EXAM 2 1 In the Stringent Response bacterial rRNA tRNA and protein synthesis temporarily cease in response to depleted nutrients in the

EXAM 21.In the Stringent Response, bacterial rRNA, tRNA, and protein synthesis temporarilycease in response to depleted nutrients in the cell. The stringent response is initiated inthe cell due to:a.an excess of aminoacyl-tRNA that accumulates due to a block in translationb.accumulation of cyclic-AMP in the cellc.metabolite inhibition of isoenzyme function in…

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ASM1584570v1 – Genome – Assembly

##Genome-Annotation-Data-START##Annotation Date::05/22/2015 10:24:41Annotation Method::Best-placed reference protein set; GeneMarkS+Annotation Pipeline::NCBI Prokaryotic Genome Annotation PipelineAnnotation Provider::NCBIFeatures Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_regionAnnotation Software revision::2.10 (rev. 463717)Genes::5,665CDS::5,280Pseudo Genes::271CRISPR Arrays::4rRNAs::32 (5S, 16S, 23S)tRNAs::82ncRNA::1Frameshifted Genes::68##Genome-Annotation-Data-END## Read more here: Source link

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The Identification of Prognostic and Metastatic Alternative Splicing in Skin Cutaneous Melanoma

Skin cutaneous melanoma (SKCM) is a type of highly invasive cancer originated from melanocytes. It is reported that aberrant alternative splicing (AS) plays an important role in the neoplasia and metastasis of many types of cancer. Therefore, we investigated whether ASEs of pre-RNA have such an influence on the prognosis…

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Bioinformation Analysis Reveals IFIT1 as Potential Biomarkers in Centr

Introduction Tuberculosis (TB) is considered to be one of the top ten causes of death in the world, about a quarter of the world’s population is infected with M. tuberculosis.1 The World Health Organization (WHO) divides tuberculosis into pulmonary tuberculosis (PTB) and extra-pulmonary tuberculosis (EPTB). Although breakthroughs have been made…

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Escherichia coli K-12 substr. MG1655 GO:0042781

Escherichia coli K-12 substr. MG1655 Gene-Ontology-Terms Class: GO:0042781 – 3′-tRNA processing endoribonuclease activity Synonyms: 3′ tRNA processing endoribonuclease activity, 3′ tRNase activity, tRNA 3′ endonuclease activity Definition: Catalysis of the endonucleolytic cleavage of RNA, removing extra 3′ nucleotides from tRNA precursor, generating 3′ termini of tRNAs. A 3′-hydroxy group is…

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There are 4 types of RNA: mRNA, rRNA, sRNA, and tRNA.

Home There are 4 types of RNA: mRNA, rRNA, sRNA, and tRNA. There are 4 types of RNA: mRNA, rRNA, sRNA, and tRNA. This is a List of Available Answers Options : False True The best answer is A. False. Reported from teachers around the world. The correct answer to ❝There…

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Omics advanced 07 | transcriptome mRNA | miRNA | lncrna

A brief introduction mRNA,miRNA,lncRNA And circRNA Principle of genome sequencing 、 Routine analysis of Shengxin . Catalog Introduction to transcriptome sequencing mRNA|miRNA|lncRNA|circRNA Introduction to analysis mRNA Group miRNA Group lncRNA Group circRNA Group mRNA|miRNA|lncRNA|circRNA Correlation analysis Reference Introduction to transcriptome sequencing Transcriptome (Transcriptome) Is a single or group of cells…

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Valine tRNA levels and availability regulate complex I assembly in leukaemia

1. Rapino, F. et al. Codon-specific translation reprogramming promotes resistance to targeted therapy. Nature 558, 605–609 (2018). CAS  PubMed  Google Scholar  2. Goodarzi, H. et al. Modulated expression of specific tRNAs drives gene expression and cancer progression. Cell 165, 1416–1427 (2016). CAS  PubMed  PubMed Central  Google Scholar  3. Wolfe, A….

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What is RNAcentral? | RNAcentral

RNAcentral is a database of non-coding RNA sequences that aggregates ncRNA data from over 40 member resources known as Expert Databases.1 Non-coding RNAs Similar to mRNAs, non-coding RNAs (ncRNAs) are transcribed from DNA but are not translated into proteins. NcRNAs are found in all organisms and have a broad range…

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Phylogenomic analysis confirms polyphyly of Leptospermum and delineates five major clades that warrant generic recognition – Binks – – TAXON

Leptospermum is an ecologically and economically important genus with a long unresolved taxonomic issue concerning polyphyly, as indicated from early molecular analysis on two chloroplast regions. To resolve this, we used genome skimming to obtain high-copy chloroplast and nuclear ribosomal DNA for a comprehensive phylogenomic analysis of 110 accessions comprising…

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Chloroplast genome sequencing based on genome skimming for identification of Eriobotryae Folium | BMC Biotechnology

1. Jiang P, Shi FX, Li MR, Liu B, Wen J, Xiao HX, et al. Positive selection driving cytoplasmic genome evolution of the medicinally important ginseng plant genus Panax. Front Plant Sci. 2018;9:359. doi.org/10.3389/fpls.2018.00359. Article  PubMed  PubMed Central  Google Scholar  2. Takeshi T, Marouane B, Takuya I, Kazusato O, Kimiko…

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ASM648341v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::01/22/2018 18:06:09 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::4.3 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::7,178 CDS (total)::7,112 Genes (coding)::6,886 CDS (coding)::6,886 Genes (RNA)::66 rRNAs::1, 1, 1 (5S, 16S, 23S) complete rRNAs::1, 1, 1 (5S, 16S,…

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ASM296653v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::03/19/2021 18:16:01 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.1 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::1,877 CDSs (total)::1,821 Genes (coding)::1,767 CDSs (with protein)::1,767 Genes (RNA)::56 rRNAs::2, 2, 2 (5S, 16S, 23S) complete rRNAs::2, 2,…

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Complete mitochondrial genome sequencing of Oxycarenus laetus (Hemiptera: Lygaeidae) from two geographically distinct regions of India

Genome organization and structure of O. laetus The MiSeq data of BTI and CBE samples of O. laetus was submitted to the NCBI SRA database under the accession numbers SRR11024516 and SRR11024517, respectively. The study was done to understand whether there exists a different species of the genus Oxycarenus similar…

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MitoVisualize: A resource for analysis of variants in human mitochondrial RNAs and DNA

Abstract We present MitoVisualize, a new tool for analysis of the human mitochondrial DNA (mtDNA). MitoVisualize enables visualization of: (1) the position and effect of variants in mitochondrial transfer RNA (tRNA) and ribosomal RNA (rRNA) secondary structures alongside curated variant annotations, (2) data across RNA structures, such as to show…

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A rRNA Expansion Segment Recruits tRNA Synthetases in Yeast

The Polacek lab discovered that a specific rRNA expansion segment of the yeast ribosome recruits three tRNA synthetases. However, deletion of this segment did neither significantly alter ribosome biogenesis & translation nor the activity of these tRNA synthetases raising the possiblity that they perfom additional functions when associated with ribosomes…

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Determine if the following statement regarding amino acid activation is true or false: Two separate enzymes are required, one to form the aminoacyl adenylate and another to attach the amino acid to the rRNA.

Question: Determine if the following statement regarding amino acid activation is true or false: Two separate enzymes are required, one to form the aminoacyl adenylate and another to attach the amino acid to the rRNA. Amino Acid Activation: If amino acids do not attach with a correct molecule of transfer…

Continue Reading Determine if the following statement regarding amino acid activation is true or false: Two separate enzymes are required, one to form the aminoacyl adenylate and another to attach the amino acid to the rRNA.

ASM305757v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::03/22/2018 17:17:07 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::4.4 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::7,149 CDS (total)::7,038 Genes (coding)::6,810 CDS (coding)::6,810 Genes (RNA)::111 rRNAs::7, 7, 1 (5S, 16S, 23S) complete rRNAs::7 (5S) partial rRNAs::7, 1…

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ASM1969325v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::08/20/2021 18:57:55 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.2 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::6,139 CDSs (total)::6,048 Genes (coding)::5,966 CDSs (with protein)::5,966 Genes (RNA)::91 rRNAs::7, 6, 6 (5S, 16S, 23S) complete rRNAs::7, 6,…

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Escherichia coli K-12 substr. MG1655 tmRNA

Escherichia coli K-12 substr. MG1655 RNA Class: tmRNA Superclasses: a single-stranded RNA Instances: tmRNA Summary: The bacterial tmRNA is so-named for its dual tRNA-like and mRNA-like nature. tmRNA participates in a process mediating recovery from translation problems that result in proteins that are stalled on the ribosome. tmRNA adds a…

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rRNA Function, Location Production & Synthesis | Ribosomal RNA – Video & Lesson Transcript

What is Ribosomal RNA (rRNA)? All proteins made within the body go through the process of DNA transcription and translation. DNA transcription is the process of converting DNA into RNA. During the process of translation, the transcribed RNA is used as a genetic blueprint to convert the information into proteins,…

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NC 002528 | Virtual Laboratory Wiki

LOCUS NC_002528 640681 bp DNA circular BCT 07-JUN-2007 DEFINITION Buchnera aphidicola str. APS (Acyrthosiphon pisum), complete genome. ACCESSION NC_002528 VERSION NC_002528.1 GI:15616630 KEYWORDS . SOURCE Buchnera aphidicola str. APS (Acyrthosiphon pisum) ORGANISM Buchnera aphidicola str. APS (Acyrthosiphon pisum) Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacteriales; Enterobacteriaceae; Buchnera. REFERENCE 1 (sites) AUTHORS Shigenobu,S., Watanabe,H.,…

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ASM159282v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::03/03/2016 18:18:50 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::3.1 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::3,259 CDS (total)::3,173 Genes (coding)::3,117 CDS (coding)::3,117 Genes (RNA)::86 rRNAs::8, 6, 4 (5S, 16S, 23S) complete rRNAs::3, 1 (5S, 16S) partial…

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ASM103905v1 – Genome – Assembly

##Genome-Annotation-Data-START##Annotation Provider::NCBIAnnotation Date::06/19/2015 13:56:31Annotation Pipeline::NCBI Prokaryotic Genome Annotation PipelineAnnotation Method::Best-placed reference protein set; GeneMarkS+Annotation Software revision::2.10Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_regionGenes::4,273CDS::4,109Pseudo Genes::61CRISPR Arrays::2rRNAs::28 (5S, 16S, 23S)tRNAs::72ncRNA::3Frameshifted Genes::15##Genome-Annotation-Data-END## Read more here: Source link

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ASM1291154v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::02/27/2020 21:08:30 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.11 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::2,312 CDSs (total)::2,255 Genes (coding)::2,217 CDSs (with protein)::2,217 Genes (RNA)::57 rRNAs::1, 1, 3 (5S, 16S, 23S) complete rRNAs::1, 1 (5S,…

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ASM1980304v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::08/31/2021 13:38:16 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.2 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::5,245 CDSs (total)::5,128 Genes (coding)::5,043 CDSs (with protein)::5,043 Genes (RNA)::117 rRNAs::8, 7, 7 (5S, 16S, 23S) complete rRNAs::8, 7,…

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ASM294953v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::01/25/2021 22:23:39 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.0 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::4,866 CDSs (total)::4,736 Genes (coding)::3,799 CDSs (with protein)::3,799 Genes (RNA)::130 rRNAs::8, 7, 7 (5S, 16S, 23S) complete rRNAs::8, 7,…

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An optimal growth law for RNA composition and its partial implementation through ribosomal and tRNA gene locations in bacterial genomes

The distribution of cellular resources across bacterial proteins has been quantified through phenomenological growth laws. Here, we describe a complementary bacterial growth law for RNA composition, emerging from optimal cellular resource allocation into ribosomes and ternary complexes. The predicted decline of the tRNA/rRNA ratio with growth rate agrees quantitatively with…

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Emerging Aspects of Jumbo Bacteriophages

Introduction Bacteriophages bearing tails with genome size beyond 200 kbp are termed jumbo bacteriophages.1 Many studies have tried to explore the new jumbo phages that infect bacteria of different species.2–7 They are also different from other bacteriophages not only because of size but also due to evolutionary path, genetic orientation,…

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ASM215354v1 – Genome – Assembly

##Genome-Annotation-Data-START##Annotation Provider::NCBIAnnotation Date::06/25/2014 15:11:26Annotation Pipeline::NCBI Prokaryotic Genome Annotation PipelineAnnotation Method::Best-placed reference protein set; GeneMarkS+Annotation Software revision::2.6 (rev. 438450)Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_regionGenes::2,713CDS::2,629Pseudo Genes::35CRISPR Arrays::3rRNAs::3 (5S, 16S, 23S)tRNAs::45ncRNA::1Frameshifted Genes::29##Genome-Annotation-Data-END## Read more here: Source link

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ASM1330234v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::02/18/2020 23:45:10 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.11 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::4,261 CDSs (total)::4,181 Genes (coding)::4,013 CDSs (with protein)::4,013 Genes (RNA)::80 rRNAs::2, 9, 1 (5S, 16S, 23S) complete rRNAs::2 (5S) partial…

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Immune cell – ANGPTL8 – The Human Protein Atlas

ANDNOT FieldAllGene nameProtein classUniprot keywordChromosomeExternal idTissue expression (IHC)Patient ID (IHC)Tissue category (RNA)Tissue expression cluster (RNA)Reliability score tissue (IHC)Brain region category (RNA)Mouse brain category (RNA)Pig brain category (RNA)Reliability score mouse brainCell type category (RNA)Single cell type expression cluster (RNA)Cell type enrichment (RNA)Prognostic cancerCancer category (RNA)Immune cell category (RNA)Immune cell lineage category…

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ASM323668v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::01/22/2018 12:47:20 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::4.3 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::2,832 CDS (total)::2,788 Genes (coding)::2,717 CDS (coding)::2,717 Genes (RNA)::44 rRNAs:: complete rRNAs:: partial rRNAs:: tRNAs::40 ncRNAs::4 Pseudo Genes (total)::71 Pseudo Genes…

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ASM207889v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::03/13/2021 00:37:40 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.1 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::2,786 CDSs (total)::2,700 Genes (coding)::2,423 CDSs (with protein)::2,423 Genes (RNA)::86 rRNAs::7, 6, 6 (5S, 16S, 23S) complete rRNAs::7, 6,…

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CD Genomics Offers NGS Services for Mitochondrial Research

New York, USA – November 26, 2021 – CD Genomics is one of the top genomics service providers in genomic research, dedicated to providing reliable services to pharmaceutical and biotech companies as well as academia and government agencies. With its high-throughput sequencing platforms, CD Genomics can provide solutions for a…

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ASM960013v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::10/31/2019 21:03:28 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.10 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::5,430 CDSs (total)::5,359 Genes (coding)::5,211 CDSs (with protein)::5,211 Genes (RNA)::71 rRNAs::2, 4, 3 (5S, 16S, 23S) complete rRNAs::2 (5S) partial…

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ASM402823v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::11/09/2020 11:04:02 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.13 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::3,015 CDSs (total)::2,958 Genes (coding)::2,817 CDSs (with protein)::2,817 Genes (RNA)::57 rRNAs::2, 2, 2 (5S, 16S, 23S) complete rRNAs::2, 2,…

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ASM197595v2 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::01/19/2021 11:22:08 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.0 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::2,922 CDSs (total)::2,866 Genes (coding)::2,843 CDSs (with protein)::2,843 Genes (RNA)::56 rRNAs::2, 2, 2 (5S, 16S, 23S) complete rRNAs::2, 2,…

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Immune cell – EPCAM – The Human Protein Atlas

ANDNOT FieldAllGene nameProtein classUniprot keywordChromosomeExternal idTissue expression (IHC)Patient ID (IHC)Tissue category (RNA)Tissue expression cluster (RNA)Reliability score tissue (IHC)Brain region category (RNA)Mouse brain category (RNA)Pig brain category (RNA)Reliability score mouse brainCell type category (RNA)Single cell type expression cluster (RNA)Cell type enrichment (RNA)Prognostic cancerCancer category (RNA)Immune cell category (RNA)Immune cell lineage category…

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ASM344421v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::04/16/2018 10:19:40 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::4.5 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::1,551 CDS (total)::1,516 Genes (coding)::1,452 CDS (coding)::1,452 Genes (RNA)::35 tRNAs::33 ncRNAs::2 Pseudo Genes (total)::64 Pseudo Genes (ambiguous residues)::0 of 64 Pseudo…

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ASM588728v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::01/04/2018 12:18:59 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::4.3 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::4,334 CDS (total)::4,229 Genes (coding)::4,072 CDS (coding)::4,072 Genes (RNA)::105 rRNAs::2, 1, 1 (5S, 16S, 23S) complete rRNAs::2, 1, 1 (5S, 16S,…

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ASM880148v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::09/26/2019 17:44:56 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.9 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::4,867 CDSs (total)::4,786 Genes (coding)::4,681 CDSs (with protein)::4,681 Genes (RNA)::81 rRNAs::8, 3, 1 (5S, 16S, 23S) complete rRNAs::7, 1, 1…

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Weill Cornell Creates New Center to Study RNA Modifications with $12M from NHGRI

[Source: CROCOTHERY/Getty Images] The National Human Genome Research Institute (NHGRI) announced Tuesday it has funded a Weill Cornell Medicine-based Center of Excellence in Genome Sciences (CEGS) to study how RNA functions to create the patterns of protein expression seen in human tissues and disease. The multi-institution CEGS will be funded…

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ASM588974v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::05/24/2019 21:11:27 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.8 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::8,858 CDSs (total)::8,784 Genes (coding)::8,478 CDSs (with protein)::8,478 Genes (RNA)::74 rRNAs::4, 6, 9 (5S, 16S, 23S) complete rRNAs::4, 1 (5S,…

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ASM194254v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::10/13/2016 11:55:59 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::3.3 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::4,882 CDS (total)::4,828 Genes (coding)::4,767 CDS (coding)::4,767 Genes (RNA)::54 rRNAs::1, 1, 1 (5S, 16S, 23S) complete rRNAs::1, 1, 1 (5S, 16S,…

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Diagnostic markers of AIDS combined with TM infection

Introduction The prevalence of Human immunodeficiency virus/Acquired Immune Deficiency Syndrome (HIV/AIDS) is still a public health problem that threatens the health of all human beings. According to the latest report of the World Health Organization, in the end of 2019, there were 38 million patients with human immunodeficiency virus/acquired immunodeficiency…

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ASM1066924v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::02/18/2021 05:39:10 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.1 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::2,292 CDSs (total)::2,220 Genes (coding)::2,142 CDSs (with protein)::2,142 Genes (RNA)::72 rRNAs::5, 4, 4 (5S, 16S, 23S) complete rRNAs::5, 4,…

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National Human Genome Research Institute fund

image: Dr. Samie Jaffrey view more  Credit: John Abbott The National Human Genome Research Institute has funded a multi-institutional Center of Excellence in Genome Sciences (CEGS), based at Weill Cornell Medicine, to develop new tools to study the major product of the human genome, called ribonucleic acid (RNA), and determine how RNA…

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ASM1312795v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::02/24/2021 04:36:52 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.1 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::4,765 CDSs (total)::4,714 Genes (coding)::4,652 CDSs (with protein)::4,652 Genes (RNA)::51 rRNAs::3, 4, 4 (5S, 16S, 23S) complete rRNAs::3, 4,…

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ASM838650v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::09/10/2019 04:56:21 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.9 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::4,450 CDSs (total)::4,361 Genes (coding)::4,332 CDSs (with protein)::4,332 Genes (RNA)::89 rRNAs::2, 2, 2 (5S, 16S, 23S) complete rRNAs::2, 2, 2…

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ASM168088v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::02/08/2016 12:05:05 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::3.1 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::3,301 CDS (total)::3,258 Genes (coding)::3,230 CDS (coding)::3,230 Genes (RNA)::43 rRNAs::1, 1, 1 (5S, 16S, 23S) complete rRNAs::1, 1, 1 (5S, 16S,…

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ASM280414v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::06/06/2020 10:23:42 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.11 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::1,564 CDSs (total)::1,510 Genes (coding)::1,201 CDSs (with protein)::1,201 Genes (RNA)::54 rRNAs::1, 1, 1 (5S, 16S, 23S) complete rRNAs::1, 1,…

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ASM101043v1 – Genome – Assembly

##Genome-Annotation-Data-START##Annotation Provider::NCBIAnnotation Date::07/18/2014 14:47:57Annotation Pipeline::NCBI Prokaryotic Genome Annotation PipelineAnnotation Method::Best-placed reference protein set; GeneMarkS+Annotation Software revision::2.6 (rev. 440435)Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_regionGenes::7,474CDS::7,211Pseudo Genes::167CRISPR Arrays::4rRNAs::7 ( 5S, 16S, 23S )tRNAs::87ncRNA::2Frameshifted Genes::151##Genome-Annotation-Data-END## Read more here: Source link

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ASM836527v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::04/14/2021 06:20:46 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.1 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::2,437 CDSs (total)::2,386 Genes (coding)::2,375 CDSs (with protein)::2,375 Genes (RNA)::51 rRNAs::1, 1, 1 (5S, 16S, 23S) complete rRNAs::1, 1,…

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ASM1239601v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::04/09/2020 17:56:10 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.11 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::4,425 CDSs (total)::4,369 Genes (coding)::4,275 CDSs (with protein)::4,275 Genes (RNA)::56 rRNAs::3, 1, 1 (5S, 16S, 23S) complete rRNAs::1, 1, 1…

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ASM789689v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::08/02/2019 00:38:51 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.8 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::7,744 CDSs (total)::7,655 Genes (coding)::7,115 CDSs (with protein)::7,115 Genes (RNA)::89 rRNAs::6, 6, 6 (5S, 16S, 23S) complete rRNAs::6, 6, 6…

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ASM991399v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::01/24/2021 03:35:51 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.0 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::1,857 CDSs (total)::1,783 Genes (coding)::1,749 CDSs (with protein)::1,749 Genes (RNA)::74 rRNAs::5, 5, 5 (5S, 16S, 23S) complete rRNAs::5, 5,…

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ASM286101v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::12/22/2017 13:59:43 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::4.3 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::1,796 CDS (total)::1,735 Genes (coding)::1,720 CDS (coding)::1,720 Genes (RNA)::61 rRNAs::4, 1, 4 (5S, 16S, 23S) complete rRNAs::4, 1, 1 (5S, 16S,…

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ASM1300447v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::05/04/2020 20:17:01 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.11 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::8,141 CDSs (total)::8,061 Genes (coding)::7,816 CDSs (with protein)::7,816 Genes (RNA)::80 rRNAs::4, 1, 1 (5S, 16S, 23S) complete rRNAs::4, 1, 1…

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ASM226301v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::04/19/2021 21:21:53 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.1 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::3,185 CDSs (total)::3,117 Genes (coding)::2,971 CDSs (with protein)::2,971 Genes (RNA)::68 rRNAs::3, 3, 3 (5S, 16S, 23S) complete rRNAs::3, 3,…

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ASM287415v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::08/10/2016 12:40:58 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::3.3 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::4,910 CDS (total)::4,819 Genes (coding)::4,783 CDS (coding)::4,783 Genes (RNA)::91 rRNAs::3, 1, 1 (5S, 16S, 23S) complete rRNAs::2, 1, 1 (5S, 16S,…

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How GenomicFeatures cdsBy() accounts for the frame info in the gff to get the CDS?

How GenomicFeatures cdsBy() accounts for the frame info in the gff to get the CDS? The info in the the 8th gff field m.ensembl.org/info/website/upload/gff.html frame – One of ‘0’, ‘1’ or ‘2’. ‘0’ indicates that the first base of the feature is the first base of a codon, ‘1’ that…

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RSEM gff ‘parent’ field

RSEM gff ‘parent’ field 0 Hi Biostars, When quantifying RNAseq expression with RSEM using a gff3 annotation file, does RSEM take into consideration the ‘locus_tag’ or ‘Parent’ field from the gff3? For example, if the 3-5 processed rRNA/tRNA transcripts within an rDNA locus have the same ‘Parent’ or ‘locus_tag’, are…

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sed – Delete records for which multiple pattern conditional s across columns awk

I have a file that looks like NC_042565.1 RefSeq region 1 114882317 . + . ID=NC_042565.1:1..114882317;Dbxref=taxon:299123;Name=1;chromosome=1;dev-stage=adult;gbkey=Src;genome=chromosome;isolate=Mets1;mol_type=genomic DNA;sex=male;sub-species=domestica;tissue-type=blood NC_042565.1 Gnomon gene 21625 41521 . – . ID=gene-LCMT2;Dbxref=GeneID:110474964;Name=LCMT2;gbkey=Gene;gene=LCMT2;gene_biotype=protein_coding NC_042565.1 Gnomon mRNA 21625 41521 . – . ID=rna-XM_021538777.2;Parent=gene-LCMT2;Dbxref=GeneID:110474964,Genbank:XM_021538777.2;Name=XM_021538777.2;gbkey=mRNA;gene=LCMT2;model_evidence=Supporting evidence includes similarity to: 2 ESTs%2C 9 Proteins%2C and 100%25 coverage of the annotated genomic…

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ASM837379v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::08/01/2018 11:21:53 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::4.6 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::4,917 CDS (total)::4,836 Genes (coding)::4,664 CDS (coding)::4,664 Genes (RNA)::81 rRNAs::1, 1, 1 (5S, 16S, 23S) complete rRNAs::1, 1, 1 (5S, 16S,…

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Frontiers | Accelerating Complete Phytoplasma Genome Assembly by Immunoprecipitation-Based Enrichment and MinION-Based DNA Sequencing for Comparative Analyses

Introduction Phytoplasmas are wall-less bacterial pathogens that are known to infect numerous plant species and lead to significant agricultural losses (Gurr et al., 2016; Kumari et al., 2019; Pierro et al., 2019). They are parasitic bacteria multiplying exclusively in phloem sieve elements and are transmitted between plants by phloem-feeding insects…

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BIO 101 EXAM 2 SUM2020.doc – 1 Which type(s of RNA is/are translated into proteins a mRNA b rRNA c tRNA d mRNA and rRNA e mRNA rRNA and tRNA 2 What is

1. Which type(s) of RNA is/are translated into proteins? a. mRNAb. rRNAc. tRNAd. mRNA and rRNAe. mRNA, rRNA, and tRNA 2. What is the process of synthesizing proteins from mRNA sequences? 3. What is the process of synthesizing single-stranded RNA from template DNA? 4. What kind of bond is formed…

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Screen of 250,000 Species Reveals Tweaks to Genetic Code

The genetic code that dictates how genetic information is translated into specific proteins is less rigid than scientists have long assumed, according to research published today (November 9) in eLife. In the paper, scientists report screening the genomes of more than 250,000 species of bacteria and archaea and finding five…

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ASM222144v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::07/14/2017 16:46:34 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::4.2 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::3,436 CDS (total)::3,380 Genes (coding)::2,817 CDS (coding)::2,817 Genes (RNA)::56 rRNAs::1, 1, 2 (5S, 16S, 23S) complete rRNAs::1 (5S) partial rRNAs::1, 2…

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mtDNA in the Pathogenesis of Cardiovascular Diseases

The incidence rate of cardiovascular disease (CVD) has been increasing year by year and has become the main cause for the increase of mortality. Mitochondrial DNA (mtDNA) plays a crucial role in the pathogenesis of CVD, especially in heart failure and ischemic heart diseases. With the deepening of research, more…

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New Genetic Codes Discovered by Scanning 250,000 Genomes

In the largest screen to date for alternative genetic codes, a computer program named Codetta scanned more than 250,000 genome sequences from bacteria and archaea to identify five never-before-seen genetic codes. This work is published in eLife, in the paper, “A computational screen for alternative genetic codes in over 250,000…

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Stable lariats bearing a snoRNA (slb-snoRNA) in eukaryotic cells: A level of regulation for guide RNAs

Significance Small nucleolar (sno)RNAs generally guide ribosomal RNA and small nuclear RNA modifications, essential events for ribosome and spliceosome biogenesis and function. Most are processed in the nucleus from lariat intronic RNAs, which are unstable byproducts of splicing. We report here that some snoRNAs are encoded within unusually stable lariats….

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Different gene rearrangements of the genus Dardanus (Anomura: Diogenidae) and insights into the phylogeny of Paguroidea

1. Boore, J. L. Animal mitochondrial genomes. Nucl. Acids Res. 27, 1767–1780 (1999). CAS  PubMed  PubMed Central  Article  Google Scholar  2. Gyllensten, U., Wharton, D., Josefsson, A. & Wilson, A. C. Paternal inheritance of mitochondrial DNA in mice. Nature 352, 255–257 (1991). ADS  CAS  PubMed  Article  PubMed Central  Google Scholar …

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ASM395577v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::10/22/2020 21:07:59 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.13 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::1,926 CDSs (total)::1,874 Genes (coding)::1,581 CDSs (with protein)::1,581 Genes (RNA)::52 rRNAs::4, 3, 3 (5S, 16S, 23S) complete rRNAs::4, 3,…

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A complete sequence of mitochondrial genome of Neolamarckia cadamba and its use for systematic analysis

Assembly of mitochondrial genome MtDNA sequence of N. cadamba was determined using PacBio sequencing technique and was successfully assembled in two genome circles. This probably reflects the feature of rapid evolution of structure of plant mitochondrial genomes38,39,40. Figure 1 shows two parts of circular structure of the mitochondrial genome, designated as…

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How to use stringtie without reference guide

How to use stringtie without reference guide 0 I’m reading an article about enhancer RNA, and the author described it like this in the method section: To identify and characterize the transcript features of eRNAs and uaRNAs, we performed de novo assembly of nascent transcriptome by the Stringtie algorithm (Pertea…

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ANGPTL8/betatrophin improves glucose tolerance | DMSO

Introduction Insulin resistance is a major risk factor for metabolic syndrome (MetS), including type 2 diabetes mellitus (T2DM).1 T2DM is characterized by insulin resistance in the liver.2 Insulin resistance is an abnormal physiological state that occurs when cells are unable to use insulin effectively, leading to T2DM, a major health…

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Antigen receptor stimulation drives selection against pathogenic mtDNA variants that dysregulate lymphocyte responses

Abstract Pathogenic mitochondrial (mt)DNA molecules can exhibit heteroplasmy in single cells and tissues and cause a range of clinical phenotypes, although their contribution to immunity is poorly understood. Here, in mice carrying heteroplasmic C5024T in mt-tRNA Ala – that impairs oxidative phosphorylation – we found a reduced mutation burden in…

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Cannot find reasonable band width. Continue anyway

Cannot find reasonable band width. Continue anyway 0 i’m running a bioinformatic tool called ltr finder, when i runned the command bellow ltr_finder $DATA/$organis_name.fna -s $tRNA/${organis_name}_trna.fasta -a $LTR_Finder/ps_scan -w2 -E -C > $ltr_table/$organis_name.table with the $organis_name changes from one genome to another. in some genomes i don’t get this message…

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Cell reprogramming shapes the mitochondrial DNA landscape.

dc.contributor.author Wei, Wei dc.contributor.author Gaffney, Daniel J dc.contributor.author Chinnery, Patrick F dc.date.accessioned 2021-10-05T00:26:36Z dc.date.available 2021-10-05T00:26:36Z dc.date.issued 2021-09-02 dc.identifier.issn 2041-1723 dc.identifier.other 34475388 dc.identifier.other PMC8413449 dc.identifier.uri www.repository.cam.ac.uk/handle/1810/328995 dc.description.abstract Individual induced pluripotent stem cells (iPSCs) show considerable phenotypic heterogeneity, but the reasons for this are not fully understood. Comprehensively analysing the mitochondrial genome…

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Quantitative PCR assay for detection of Helicobacter pylori

Introduction Helicobacter pylori is a common pathogen that infects nearly 50% of the global population.1 Infection with this pathogen causes chronic gastritis, which can cause chronic gastroduodenal diseases such as gastritis, gastric ulcer, duodenal ulcer, gastric cancer, and gastric mucosa-associated lymphoid tissue (MALT) B-cell lymphoma.2 Although H. pylori is the…

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Calculation of tRNA abundances from different cell types

Calculation of tRNA abundances from different cell types 0 Dear all, My research group had completed an analysis on tRNA levels before I joined to study. The aim was to compare tRNA abundances of healthy and diseased groups and they have raw data from bulk RNA sequencing. However, bulk RNA-seq…

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genbank submission tutorial

These are just a few of the questions answered in this comprehensive overview of Bayesian approaches to phylogenetics. Finally, make sure the Include Primers box is unchecked, as we are not submitting primers with this sequence. Influenza virus sequences. September, 2008. Please download the current version. Some mitochondrial genomes contain CDS’s that…

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ASM398515v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::11/08/2018 19:10:23 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::4.6 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::6,991 CDS (total)::6,937 Genes (coding)::6,633 CDS (coding)::6,633 Genes (RNA)::54 rRNAs::1, 1, 1 (5S, 16S, 23S) complete rRNAs::1, 1, 1 (5S, 16S,…

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ASM220219v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::12/14/2020 00:44:35 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.0 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::6,032 CDSs (total)::5,900 Genes (coding)::5,729 CDSs (with protein)::5,729 Genes (RNA)::132 rRNAs::9, 8, 8 (5S, 16S, 23S) complete rRNAs::9, 8,…

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How to detect which Ensembl transcript ID corresponds to tRNAs

How to detect which Ensembl transcript ID corresponds to tRNAs 1 Dear all, I have a list of Ensembl transcript IDs (ENST00000492842, ENST00000495576, ENST00000477740, ENST00000610542 for example). These IDs are obtained after transcript quantification and annotation of RNA-Seq raw data. I would like to find which of these IDs corresponds…

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genbank database slideshare

Found inside – Page iiThis book describes the historical importance of potato (Solanum tuberosum L.),potato genetic resources and stocks (including S. tuberosum group Phureja DM1-3 516 R44, a unique doubled monoploid homozygous line) used for potato genome … If you continue browsing the site, you agree to the use of…

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genbank submission bankit

Submission of sequence data to NCBI archives . Learn more. This post will show you how to… Careers, General: your contact details, authors, publication, data release date, Original or third-party assembly/annotation, Set designation (if applicable) for multiple sequences of the same locus, Nucleotide sequences in FASTA or alignment format, Source…

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ASM736263v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::06/02/2020 01:47:34 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.11 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::3,988 CDSs (total)::3,870 Genes (coding)::3,819 CDSs (with protein)::3,819 Genes (RNA)::118 rRNAs::9, 9, 9 (5S, 16S, 23S) complete rRNAs::9, 9,…

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ASM167996v1 – Genome – Assembly

##Genome-Annotation-Data-START##Annotation Provider::NCBIAnnotation Date::06/26/2015 16:52:29Annotation Pipeline::NCBI Prokaryotic Genome Annotation PipelineAnnotation Method::Best-placed reference protein set; GeneMarkS+Annotation Software revision::2.10Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_regionGenes::5,138CDS::4,851Pseudo Genes::241rRNAs::3 (5S, 16S, 23S)tRNAs::51ncRNA::2Frameshifted Genes::42##Genome-Annotation-Data-END## Read more here: Source link

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ASM1313853v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::04/13/2020 22:53:33 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.11 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::6,412 CDSs (total)::6,343 Genes (coding)::6,253 CDSs (with protein)::6,253 Genes (RNA)::69 rRNAs::1, 3, 1 (5S, 16S, 23S) complete rRNAs::1, 1, 1…

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ASM1227319v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::03/20/2021 14:54:46 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.1 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::5,410 CDSs (total)::5,316 Genes (coding)::5,040 CDSs (with protein)::5,040 Genes (RNA)::94 rRNAs::5, 5, 5 (5S, 16S, 23S) complete rRNAs::5, 5,…

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ASM970690v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::11/18/2019 18:15:11 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.10 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::1,947 CDSs (total)::1,901 Genes (coding)::1,870 CDSs (with protein)::1,870 Genes (RNA)::46 rRNAs::1, 1, 1 (5S, 16S, 23S) complete rRNAs::1, 1, 1…

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ASM1284312v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::04/20/2020 16:43:15 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.11 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::6,003 CDSs (total)::5,939 Genes (coding)::5,837 CDSs (with protein)::5,837 Genes (RNA)::64 rRNAs::5, 3, 1 (5S, 16S, 23S) complete rRNAs::3, 1, 1…

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ASM1328274v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::06/07/2020 12:05:23 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.11 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::4,014 CDSs (total)::3,896 Genes (coding)::3,803 CDSs (with protein)::3,803 Genes (RNA)::118 rRNAs::8, 7, 7 (5S, 16S, 23S) complete rRNAs::8, 7,…

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ASM400961v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::03/08/2021 23:28:36 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.1 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::3,490 CDSs (total)::3,415 Genes (coding)::3,382 CDSs (with protein)::3,382 Genes (RNA)::75 rRNAs::4, 3, 3 (5S, 16S, 23S) complete rRNAs::4, 3,…

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ASM1297410v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::05/05/2020 16:09:27 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::4.11 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::2,251 CDSs (total)::2,191 Genes (coding)::2,085 CDSs (with protein)::2,085 Genes (RNA)::60 rRNAs::2, 2, 2 (5S, 16S, 23S) complete rRNAs::2, 2,…

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ASM304080v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::04/01/2018 01:38:47 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::4.5 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::2,367 CDS (total)::2,274 Genes (coding)::2,243 CDS (coding)::2,243 Genes (RNA)::93 rRNAs::7, 8, 15 (5S, 16S, 23S) complete rRNAs::7, 1 (5S, 16S) partial…

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ASM1176462v1 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI RefSeq Annotation Date::12/15/2020 08:11:39 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method::Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision::5.0 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes (total)::3,914 CDSs (total)::3,831 Genes (coding)::3,661 CDSs (with protein)::3,661 Genes (RNA)::83 rRNAs::6, 6, 6 (5S, 16S, 23S) complete rRNAs::6, 6,…

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