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    Ccdc62 coiled-coil domain containing 62 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 689909, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ccdc62provided by RGD
    Official Full Name
    coiled-coil domain containing 62provided by RGD
    Primary source
    RGD:1586391
    See related
    EnsemblRapid:ENSRNOG00000038002 AllianceGenome:RGD:1586391
    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 enable nuclear estrogen receptor binding activity and nuclear receptor coactivator activity. Predicted to be involved in cellular response to estradiol stimulus; positive regulation of transcription by RNA polymerase II; and spermatid development. Predicted to act upstream of or within blastocyst hatching. Predicted to be located in acrosomal vesicle and nucleus. Human ortholog(s) of this gene implicated in spermatogenic failure 67. Orthologous to human CCDC62 (coiled-coil domain containing 62). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 66.1), Adrenal (RPKM 41.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ccdc62 in Genome Data Viewer
    Location:
    12q15
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (38284089..38320828, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (32623170..32659912, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (38057532..38093916, complement)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene keratin-associated protein 4-6-like Neighboring gene VPS37B subunit of ESCRT-I Neighboring gene huntingtin interacting protein 1 related Neighboring gene density regulated reinitiation and release factor Neighboring gene hydroxycarboxylic acid receptor 1

    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. CCDC62/ERAP75 functions as a coactivator to enhance estrogen receptor beta-mediated transactivation and target gene expression in prostate cancer cells. Chen M, et al. Carcinogenesis, 2009 May. PMID 19126643
    2. ERAP75 functions as a coactivator to enhance estrogen receptor alpha transactivation in prostate stromal cells. Chen M, et al. Prostate, 2008 Sep 1. PMID 18563714
    3. Towards Functional Annotation of the Preimplantation Transcriptome: An RNAi Screen in Mammalian Embryos. Cui W, et al. Sci Rep, 2016 Nov 21. PMID 27869233, Free PMC Article
    4. 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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables nuclear estrogen receptor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables nuclear receptor coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within blastocyst hatching ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cellular response to estradiol stimulus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spermatid development ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in acrosomal vesicle 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
    coiled-coil domain-containing protein 62

    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_001134766.1 → NP_001128238.1  coiled-coil domain-containing protein 62

      See identical proteins and their annotated locations for NP_001128238.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000012
      UniProtKB/TrEMBL
      F1LSQ7
      Related
      ENSRNOP00000054626.2, ENSRNOT00000057814.6
      Conserved Domains (1) summary
      pfam04711
      Location:125 → 163
      ApoA-II; Apolipoprotein A-II (ApoA-II)

    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_086030.1 Reference GRCr8

      Range
      38284089..38320828 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039089784.2 → XP_038945712.1  coiled-coil domain-containing protein 62 isoform X10

      Conserved Domains (1) summary
      COG1196
      Location:57 → 332
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    2. XM_017598459.3 → XP_017453948.1  coiled-coil domain-containing protein 62 isoform X3

    3. XM_039089783.2 → XP_038945711.1  coiled-coil domain-containing protein 62 isoform X10

      Conserved Domains (1) summary
      COG1196
      Location:57 → 332
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    4. XM_039089776.2 → XP_038945704.1  coiled-coil domain-containing protein 62 isoform X4

      Conserved Domains (1) summary
      COG1196
      Location:57 → 353
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    5. XM_006249357.5 → XP_006249419.1  coiled-coil domain-containing protein 62 isoform X4

      Conserved Domains (1) summary
      COG1196
      Location:57 → 353
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    6. XM_006249356.5 → XP_006249418.1  coiled-coil domain-containing protein 62 isoform X2

      Conserved Domains (1) summary
      pfam04711
      Location:125 → 191
      ApoA-II; Apolipoprotein A-II (ApoA-II)

    7. XM_006249355.5 → XP_006249417.1  coiled-coil domain-containing protein 62 isoform X1

      See identical proteins and their annotated locations for XP_006249417.1

      UniProtKB/TrEMBL
      F1LSQ7
      Conserved Domains (1) summary
      pfam04711
      Location:125 → 163
      ApoA-II; Apolipoprotein A-II (ApoA-II)

    8. XM_063271681.1 → XP_063127751.1  coiled-coil domain-containing protein 62 isoform X5

    9. XM_039089777.2 → XP_038945705.1  coiled-coil domain-containing protein 62 isoform X6

      UniProtKB/TrEMBL
      Q4FZT7
      Conserved Domains (1) summary
      COG1196
      Location:2 → 222
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    10. XM_008769265.3 → XP_008767487.1  coiled-coil domain-containing protein 62 isoform X6

      UniProtKB/TrEMBL
      Q4FZT7
      Conserved Domains (1) summary
      COG1196
      Location:2 → 222
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    11. XM_039089779.2 → XP_038945707.1  coiled-coil domain-containing protein 62 isoform X7

      UniProtKB/TrEMBL
      Q4FZT7
      Conserved Domains (1) summary
      COG1196
      Location:42 → 150
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    12. XM_039089781.2 → XP_038945709.1  coiled-coil domain-containing protein 62 isoform X8

      UniProtKB/TrEMBL
      Q4FZT7
      Conserved Domains (1) summary
      COG1196
      Location:8 → 116
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    13. XM_039089778.2 → XP_038945706.1  coiled-coil domain-containing protein 62 isoform X6

      UniProtKB/TrEMBL
      Q4FZT7
      Conserved Domains (1) summary
      COG1196
      Location:2 → 222
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    14. XM_039089782.2 → XP_038945710.1  coiled-coil domain-containing protein 62 isoform X9

      Conserved Domains (1) summary
      COG1196
      Location:57 → 353
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    Nucleotide Protein Strain
    Heading Accession and Version

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