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    LOC109907564 CCR4-NOT transcription complex subunit 3 [ Oncorhynchus kisutch (coho salmon) ]

    Gene ID: 109907564, updated on 14-Dec-2023

    Summary

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    Gene symbol
    LOC109907564
    Gene description
    CCR4-NOT transcription complex subunit 3
    See related
    Ensembl:ENSOKIG00005040384
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Oncorhynchus kisutch
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Protacanthopterygii; Salmoniformes; Salmonidae; Salmoninae; Oncorhynchus
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    Genomic context

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    See LOC109907564 in Genome Data Viewer
    Location:
    chromosome: LG17
    Exon count:
    18
    Annotation release Status Assembly LG Location
    101 current Okis_V2 (GCF_002021735.2) LG17 NC_034190.2 (35201967..35218292, complement)
    100 previous assembly Okis_V1 (GCF_002021735.1) LG17 NC_034190.1 (27427370..27443384, complement)

    Linkage Group LG17 - NC_034190.2Genomic Context describing neighboring genes Neighboring gene protein shisa-7 Neighboring gene uncharacterized LOC109907568 Neighboring gene splicing factor U2AF 65 kDa subunit Neighboring gene uncharacterized LOC109908649

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Multi-tissue transcriptome profiles for coho salmon (Oncorhynchus kisutch), a species undergoing rediploidization following whole-genome duplication. Kim JH, et al. Mar Genomics, 2016 Feb. PMID 26614614
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Process Evidence Code Pubs
    involved_in nuclear-transcribed mRNA poly(A) tail shortening IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in regulation of stem cell population maintenance IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of CCR4-NOT core complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in P-body IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    CCR4-NOT transcription complex subunit 3

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Oncorhynchus kisutch Annotation Release 101 details...Open this link in a new tab

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

    Reference Okis_V2 Primary Assembly

    Genomic

    1. NC_034190.2 Reference Okis_V2 Primary Assembly

      Range
      35201967..35218292 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_031793684.1 → XP_031649544.1  CCR4-NOT transcription complex subunit 3 isoform X3

      UniProtKB/TrEMBL
      A0A8C7JX02
      Conserved Domains (3) summary
      COG5665
      Location:656 → 1010
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:89 → 307
      Not3; Not1 N-terminal domain, CCR4-Not complex component
      pfam04153
      Location:879 → 1004
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    2. XM_020505602.2 → XP_020361191.1  CCR4-NOT transcription complex subunit 3 isoform X4

      UniProtKB/TrEMBL
      A0A8C7JX02
      Related
      ENSOKIP00005093541.1, ENSOKIT00005099982.1
      Conserved Domains (3) summary
      COG5665
      Location:578 → 932
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 229
      Not3; Not1 N-terminal domain, CCR4-Not complex component
      pfam04153
      Location:801 → 926
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    3. XM_031793685.1 → XP_031649545.1  CCR4-NOT transcription complex subunit 3 isoform X7

      UniProtKB/TrEMBL
      A0A8C7JX02
      Conserved Domains (3) summary
      COG5665
      Location:561 → 915
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 227
      Not3; Not1 N-terminal domain, CCR4-Not complex component
      pfam04153
      Location:784 → 909
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    4. XM_020505603.2 → XP_020361192.1  CCR4-NOT transcription complex subunit 3 isoform X5

      UniProtKB/TrEMBL
      A0A8C7JX02
      Conserved Domains (3) summary
      COG5665
      Location:576 → 930
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 227
      Not3; Not1 N-terminal domain, CCR4-Not complex component
      pfam04153
      Location:799 → 924
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    5. XM_020505604.2 → XP_020361193.1  CCR4-NOT transcription complex subunit 3 isoform X6

      UniProtKB/TrEMBL
      A0A8C7JX02
      Related
      ENSOKIP00005093517.1, ENSOKIT00005099953.1
      Conserved Domains (3) summary
      COG5665
      Location:563 → 917
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 229
      Not3; Not1 N-terminal domain, CCR4-Not complex component
      pfam04153
      Location:786 → 911
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    6. XM_031793683.1 → XP_031649543.1  CCR4-NOT transcription complex subunit 3 isoform X2

      UniProtKB/TrEMBL
      A0A8C7JX02
      Conserved Domains (3) summary
      COG5665
      Location:643 → 997
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:89 → 309
      Not3; Not1 N-terminal domain, CCR4-Not complex component
      pfam04153
      Location:866 → 991
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    7. XM_031793682.1 → XP_031649542.1  CCR4-NOT transcription complex subunit 3 isoform X1

      UniProtKB/TrEMBL
      A0A8C7JSV1, A0A8C7JX02
      Related
      ENSOKIP00005093162.1, ENSOKIT00005099517.1
      Conserved Domains (3) summary
      COG5665
      Location:658 → 1012
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:89 → 309
      Not3; Not1 N-terminal domain, CCR4-Not complex component
      pfam04153
      Location:881 → 1006
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    8. XM_031793687.1 → XP_031649547.1  CCR4-NOT transcription complex subunit 3 isoform X9

      UniProtKB/TrEMBL
      A0A8C7JU35
      Related
      ENSOKIP00005093678.1, ENSOKIT00005100142.1
      Conserved Domains (3) summary
      COG5665
      Location:491 → 845
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:1 → 142
      Not3; Not1 N-terminal domain, CCR4-Not complex component
      pfam04153
      Location:714 → 839
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    9. XM_031793686.1 → XP_031649546.1  CCR4-NOT transcription complex subunit 3 isoform X8

      UniProtKB/TrEMBL
      A0A8C7JU35
      Conserved Domains (3) summary
      COG5665
      Location:489 → 843
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:1 → 140
      Not3; Not1 N-terminal domain, CCR4-Not complex component
      pfam04153
      Location:712 → 837
      NOT2_3_5; NOT2 / NOT3 / NOT5 family
    Nucleotide Protein
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