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    Ccdc9 coiled-coil domain containing 9 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 684934, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ccdc9provided by RGD
    Official Full Name
    coiled-coil domain containing 9provided by RGD
    Primary source
    RGD:1584422
    See related
    EnsemblRapid:ENSRNOG00000048848 AllianceGenome:RGD:1584422
    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 RNA binding activity. Predicted to be part of exon-exon junction complex. Orthologous to human CCDC9 (coiled-coil domain containing 9). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 103.6), Thymus (RPKM 92.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ccdc9 in Genome Data Viewer
    Location:
    1q21
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (86105717..86119811, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (76978312..76991673, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (78212933..78225641, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene dynein light chain 1, cytoplasmic-like Neighboring gene complement C5a receptor 1 Neighboring gene InaF-motif containing 1 Neighboring gene Bcl-2 binding component 3 Neighboring gene SUMO1 activating enzyme subunit 1 Neighboring gene ferritin light chain 1, pseudogene 12

    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. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    2. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of exon-exon junction complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    coiled-coil domain-containing protein 9

    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_001401581.1 → NP_001388510.1  coiled-coil domain-containing protein 9

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A6J8A3, M0RA86

    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_086019.1 Reference GRCr8

      Range
      86105717..86119811 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039100826.2 → XP_038956754.1  coiled-coil domain-containing protein 9 isoform X4

      UniProtKB/TrEMBL
      M0R6Q2
      Related
      ENSRNOP00000080064.2, ENSRNOT00000104107.2
      Conserved Domains (2) summary
      PRK12678
      Location:10 → 228
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:204 → 372
      DUF4594; Domain of unknown function (DUF4594)

    2. XM_039100825.2 → XP_038956753.1  coiled-coil domain-containing protein 9 isoform X3

      UniProtKB/TrEMBL
      M0RA86
      Conserved Domains (2) summary
      PRK12678
      Location:10 → 228
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:204 → 371
      DUF4594; Domain of unknown function (DUF4594)

    3. XM_039100824.2 → XP_038956752.1  coiled-coil domain-containing protein 9 isoform X2

      UniProtKB/TrEMBL
      M0RA86
      Conserved Domains (2) summary
      PRK12678
      Location:10 → 228
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:204 → 372
      DUF4594; Domain of unknown function (DUF4594)

    4. XM_039100818.2 → XP_038956746.1  coiled-coil domain-containing protein 9 isoform X1

      UniProtKB/TrEMBL
      M0RA86
      Conserved Domains (2) summary
      PRK12678
      Location:10 → 228
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:204 → 372
      DUF4594; Domain of unknown function (DUF4594)

    5. XM_039100822.2 → XP_038956750.1  coiled-coil domain-containing protein 9 isoform X1

      UniProtKB/TrEMBL
      M0RA86
      Conserved Domains (2) summary
      PRK12678
      Location:10 → 228
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:204 → 372
      DUF4594; Domain of unknown function (DUF4594)

    6. XM_063273869.1 → XP_063129939.1  coiled-coil domain-containing protein 9 isoform X1

      UniProtKB/TrEMBL
      M0RA86

    7. XM_063273873.1 → XP_063129943.1  coiled-coil domain-containing protein 9 isoform X1

      UniProtKB/TrEMBL
      M0RA86

    8. XM_063273866.1 → XP_063129936.1  coiled-coil domain-containing protein 9 isoform X1

      UniProtKB/TrEMBL
      M0RA86

    9. XM_039100827.2 → XP_038956755.1  coiled-coil domain-containing protein 9 isoform X5

      UniProtKB/TrEMBL
      M0RA86
      Conserved Domains (2) summary
      PRK12678
      Location:6 → 216
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:192 → 360
      DUF4594; Domain of unknown function (DUF4594)

    10. XM_039100821.2 → XP_038956749.1  coiled-coil domain-containing protein 9 isoform X1

      UniProtKB/TrEMBL
      M0RA86
      Conserved Domains (2) summary
      PRK12678
      Location:10 → 228
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:204 → 372
      DUF4594; Domain of unknown function (DUF4594)

    11. XM_039100829.2 → XP_038956757.1  coiled-coil domain-containing protein 9 isoform X6

      UniProtKB/TrEMBL
      A0A8I5ZP04
      Conserved Domains (2) summary
      PRK12678
      Location:10 → 228
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:204 → 371
      DUF4594; Domain of unknown function (DUF4594)

    12. XM_039100830.2 → XP_038956758.1  coiled-coil domain-containing protein 9 isoform X7

      Conserved Domains (2) summary
      PRK12678
      Location:10 → 228
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:204 → 299
      DUF4594; Domain of unknown function (DUF4594)
    Nucleotide Protein Strain
    Heading Accession and Version

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