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    Cops7a COP9 signalosome subunit 7A [ Rattus norvegicus (Norway rat) ]

    Gene ID: 312710, updated on 10-Jul-2024

    Summary

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    Official Symbol
    Cops7aprovided by RGD
    Official Full Name
    COP9 signalosome subunit 7Aprovided by RGD
    Primary source
    RGD:1310070
    See related
    EnsemblRapid:ENSRNOG00000016778 AllianceGenome:RGD:1310070
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to be involved in protein deneddylation. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of COP9 signalosome. Orthologous to human COPS7A (COP9 signalosome subunit 7A). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Muscle (RPKM 280.0), Heart (RPKM 188.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cops7a in Genome Data Viewer
    Location:
    4q42
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (159452878..159478878, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (157766626..157792632, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (157479549..157486944, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene parathymosin Neighboring gene myeloid leukemia factor 2 Neighboring gene U6 spliceosomal RNA Neighboring gene uncharacterized LOC120102387 Neighboring gene PILR alpha associated neural protein Neighboring gene zinc finger protein 384 Neighboring gene uncharacterized LOC102554095

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Symmetrical modularity of the COP9 signalosome complex suggests its multifunctionality. Sharon M, et al. Structure, 2009 Jan 14. PMID 19141280
    2. Characterization of the human COP9 signalosome complex using affinity purification and mass spectrometry. Fang L, et al. J Proteome Res, 2008 Nov. PMID 18850735, Free PMC Article
    3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in COP9 signalosome assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein deneddylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of COP9 signalosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of COP9 signalosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    COP9 signalosome complex subunit 7a
    Names
    COP9 (constitutive photomorphogenic) homolog, subunit 7a
    COP9 complex subunit 7a
    COP9 constitutive photomorphogenic homolog subunit 7A

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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_001047098.2 → NP_001040563.2  COP9 signalosome complex subunit 7a isoform 2

      See identical proteins and their annotated locations for NP_001040563.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) represents use of an alternate promoter and 5' UTR, and uses a distinct terminal exon and 3' UTR, compared to variant 1. The resulting isoform (2) has a longer and distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AB259153, BI296165, FM059742
      UniProtKB/TrEMBL
      A0A8I5ZU93, G3V8Z9
      Related
      ENSRNOP00000081985.2, ENSRNOT00000101137.2
      Conserved Domains (2) summary
      smart00088
      Location:87 → 177
      PINT; motif in proteasome subunits, Int-6, Nip-1 and TRIP-15
      pfam18392
      Location:166 → 215
      CSN7a_helixI; COP9 signalosome complex subunit 7a helix I domain

    2. NM_001164091.1 → NP_001157563.1  COP9 signalosome complex subunit 7a isoform 1

      See identical proteins and their annotated locations for NP_001157563.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript but encodes the shorter isoform (1).
      Source sequence(s)
      AB259153, AI603423, CB326021, DV719333, FM037577, FM122308
      UniProtKB/TrEMBL
      A0A8I6GK17, A6ILN5
      Conserved Domains (2) summary
      smart00088
      Location:87 → 177
      PINT; motif in proteasome subunits, Int-6, Nip-1 and TRIP-15
      pfam18392
      Location:166 → 215
      CSN7a_helixI; COP9 signalosome complex subunit 7a helix I domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086022.1 Reference GRCr8

      Range
      159452878..159478878 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006237368.5 → XP_006237430.1  COP9 signalosome complex subunit 7a isoform X3

      See identical proteins and their annotated locations for XP_006237430.1

      UniProtKB/TrEMBL
      A0A8I5ZU93, G3V8Z9
      Conserved Domains (2) summary
      smart00088
      Location:87 → 177
      PINT; motif in proteasome subunits, Int-6, Nip-1 and TRIP-15
      pfam18392
      Location:166 → 215
      CSN7a_helixI; COP9 signalosome complex subunit 7a helix I domain

    2. XM_039107676.2 → XP_038963604.1  COP9 signalosome complex subunit 7a isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZU93, G3V8Z9
      Conserved Domains (2) summary
      smart00088
      Location:87 → 177
      PINT; motif in proteasome subunits, Int-6, Nip-1 and TRIP-15
      pfam18392
      Location:166 → 215
      CSN7a_helixI; COP9 signalosome complex subunit 7a helix I domain

    3. XM_063286139.1 → XP_063142209.1  COP9 signalosome complex subunit 7a isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZU93, G3V8Z9

    4. XM_039107674.2 → XP_038963602.1  COP9 signalosome complex subunit 7a isoform X1

      UniProtKB/TrEMBL
      F1MAA2, G3V8Z9
      Conserved Domains (2) summary
      smart00088
      Location:106 → 196
      PINT; motif in proteasome subunits, Int-6, Nip-1 and TRIP-15
      pfam18392
      Location:185 → 234
      CSN7a_helixI; COP9 signalosome complex subunit 7a helix I domain

    5. XM_039107678.2 → XP_038963606.1  COP9 signalosome complex subunit 7a isoform X4

      UniProtKB/TrEMBL
      A0A8I6GK17, A6ILN5
      Conserved Domains (2) summary
      smart00088
      Location:87 → 177
      PINT; motif in proteasome subunits, Int-6, Nip-1 and TRIP-15
      pfam18392
      Location:166 → 215
      CSN7a_helixI; COP9 signalosome complex subunit 7a helix I domain

    6. XM_063286140.1 → XP_063142210.1  COP9 signalosome complex subunit 7a isoform X4

      UniProtKB/TrEMBL
      A0A8I6GK17, A6ILN5

    7. XM_039107675.2 → XP_038963603.1  COP9 signalosome complex subunit 7a isoform X2

      UniProtKB/TrEMBL
      A0A8I6GK17
      Related
      ENSRNOP00000031800.4, ENSRNOT00000038281.6
      Conserved Domains (2) summary
      smart00088
      Location:106 → 196
      PINT; motif in proteasome subunits, Int-6, Nip-1 and TRIP-15
      pfam18392
      Location:185 → 234
      CSN7a_helixI; COP9 signalosome complex subunit 7a helix I domain
    Nucleotide Protein Strain
    Heading Accession and Version

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