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cnot6a CCR4-NOT transcription complex, subunit 6a [ Danio rerio (zebrafish) ]

Gene ID: 324048, updated on 25-Apr-2024

Summary

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Official Symbol
cnot6aprovided by ZNC
Official Full Name
CCR4-NOT transcription complex, subunit 6aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-2768
See related
Ensembl:ENSDARG00000008255 AllianceGenome:ZFIN:ZDB-GENE-030131-2768
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
cnot6; zgc:65822; wu:fa03c11; wu:fc17f01
Summary
Predicted to enable poly(A)-specific ribonuclease activity. Predicted to be involved in nuclear-transcribed mRNA poly(A) tail shortening. Predicted to act upstream of or within gene silencing by RNA. Predicted to be part of CCR4-NOT complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human CNOT6 (CCR4-NOT transcription complex subunit 6). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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See cnot6a in Genome Data Viewer
Location:
chromosome: 21
Exon count:
12
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 21 NC_007132.7 (32755467..32781612, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 21 NC_007132.6 (32722210..32748364, complement)

Chromosome 21 - NC_007132.7Genomic Context describing neighboring genes Neighboring gene si:dkeyp-72g9.4 Neighboring gene ADAM metallopeptidase with thrombospondin type 1 motif, 2a Neighboring gene uncharacterized LOC101886742 Neighboring gene adrenergic, alpha-2D-, receptor b Neighboring gene solute carrier family 34 member 1b

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Translational inhibition by deadenylation-independent mechanisms is central to microRNA-mediated silencing in zebrafish. Mishima Y, et al. Proc Natl Acad Sci U S A, 2012 Jan 24. PMID 22232654, Free PMC Article
  2. Codon Usage and 3' UTR Length Determine Maternal mRNA Stability in Zebrafish. Mishima Y, et al. Mol Cell, 2016 Mar 17. PMID 26990990
  3. Systematic transcriptome analysis of the zebrafish model of diamond-blackfan anemia induced by RPS24 deficiency. Song B, et al. BMC Genomics, 2014 Sep 4. PMID 25189322, Free PMC Article
  4. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • KIAA1194

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables catalytic activity IEA
Inferred from Electronic Annotation
more info
  
enables exonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables poly(A)-specific ribonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables poly(A)-specific ribonuclease activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in nuclear-transcribed mRNA poly(A) tail shortening IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within regulation of translation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of CCR4-NOT complex IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
CCR4-NOT transcription complex subunit 6a; CCR4-NOT transcription complex, subunit 6
NP_997825.1
XP_009293860.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_212660.2 → NP_997825.1  CCR4-NOT transcription complex subunit 6a

    See identical proteins and their annotated locations for NP_997825.1

    Status: VALIDATED

    Source sequence(s)
    BC058309, BX511225, CT690778, CT690779
    UniProtKB/TrEMBL
    A0A8M3AU38, Q6PE30
    Related
    ENSDARP00000032583.7, ENSDART00000031028.8
    Conserved Domains (4) summary
    sd00031
    Location:53 → 75
    LRR_1; leucine-rich repeat [structural motif]
    pfam12799
    Location:51 → 91
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:51 → 132
    LRR_8; Leucine rich repeat
    cl00490
    Location:190 → 540
    EEP; Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007132.7 Reference GRCz11 Primary Assembly

    Range
    32755467..32781612 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_009295585.3 → XP_009293860.1  CCR4-NOT transcription complex, subunit 6 isoform X1

    See identical proteins and their annotated locations for XP_009293860.1

    UniProtKB/TrEMBL
    A0A8M3AU38, Q6PE30
    Conserved Domains (4) summary
    sd00031
    Location:53 → 75
    LRR_1; leucine-rich repeat [structural motif]
    pfam12799
    Location:51 → 91
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:51 → 132
    LRR_8; Leucine rich repeat
    cl00490
    Location:190 → 540
    EEP; Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018395094.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    95687..119438 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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