U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Ccdc9 coiled-coil domain containing 9 [ Mus musculus (house mouse) ]

    Gene ID: 243846, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Ccdc9provided by MGI
    Official Full Name
    coiled-coil domain containing 9provided by MGI
    Primary source
    MGI:MGI:1921443
    See related
    Ensembl:ENSMUSG00000041375 AllianceGenome:MGI:1921443
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    2600011L02Rik
    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
    Ubiquitous expression in CNS E11.5 (RPKM 9.0), colon adult (RPKM 8.3) and 28 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Ccdc9 in Genome Data Viewer
    Location:
    7 A2; 7 8.78 cM
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (16005938..16020713, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (16272013..16286807, complement)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E9684 Neighboring gene predicted gene, 26473 Neighboring gene complement component 5a receptor 2 Neighboring gene complement component 5a receptor 1 Neighboring gene InaF motif containing 1 Neighboring gene STARR-positive B cell enhancer ABC_E3699 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:16880265-16880374 Neighboring gene STARR-positive B cell enhancer ABC_E6516 Neighboring gene STARR-seq mESC enhancer starr_18129 Neighboring gene STARR-seq mESC enhancer starr_18130 Neighboring gene BCL2 binding component 3 Neighboring gene SUMO1 activating enzyme subunit 1 Neighboring gene predicted gene, 57781

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Circular RNA circCCDC9 alleviates ischaemic stroke ischaemia/reperfusion injury via the Notch pathway. Wu L, et al. J Cell Mol Med, 2020 Dec. PMID 33124180, Free PMC Article
    2. Network organization of the huntingtin proteomic interactome in mammalian brain. Shirasaki DI, et al. Neuron, 2012 Jul 12. PMID 22794259, Free PMC Article
    3. ATG5 is required for B cell polarization and presentation of particulate antigens. Arbogast F, et al. Autophagy, 2019 Feb. PMID 30196744, Free PMC Article
    4. Database resources of the National Center for Biotechnology Information. Wheeler DL, et al. Nucleic Acids Res, 2001 Jan 1. PMID 11125038, Free PMC Article
    5. A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome. Hansen J, et al. Proc Natl Acad Sci U S A, 2003 Aug 19. PMID 12904583, Free PMC Article

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Circular RNA circCCDC9 alleviates ischaemic stroke ischaemia/reperfusion injury via the Notch pathway.
      Title: Circular RNA circCCDC9 alleviates ischaemic stroke ischaemia/reperfusion injury via the Notch pathway.
    Submit: New GeneRIF Correction

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  
    part_of exon-exon junction complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of exon-exon junction complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    coiled-coil domain-containing protein 9

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001136471.2 → NP_001129943.2  coiled-coil domain-containing protein 9 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC156630
      Consensus CDS
      CCDS52039.1
      UniProtKB/TrEMBL
      D3YW42
      Related
      ENSMUSP00000114088.4, ENSMUST00000118976.10
      Conserved Domains (1) summary
      PRK12678
      Location:39 → 249
      PRK12678; transcription termination factor Rho; Provisional

    2. NM_001382411.3 → NP_001369340.2  coiled-coil domain-containing protein 9 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC156630
      Conserved Domains (2) summary
      PRK12678
      Location:39 → 249
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:204 → 371
      DUF4594; Domain of unknown function (DUF4594)

    3. NM_001382412.1 → NP_001369341.1  coiled-coil domain-containing protein 9 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC156630
      Conserved Domains (2) summary
      PRK12678
      Location:16 → 251
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:206 → 373
      DUF4594; Domain of unknown function (DUF4594)

    4. NM_001382413.3 → NP_001369342.2  coiled-coil domain-containing protein 9 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC156630
      Conserved Domains (2) summary
      PRK12678
      Location:39 → 249
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:204 → 371
      DUF4594; Domain of unknown function (DUF4594)

    5. NM_001382414.3 → NP_001369343.2  coiled-coil domain-containing protein 9 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC156630
      UniProtKB/Swiss-Prot
      Q8VC31
      Conserved Domains (2) summary
      PRK12678
      Location:39 → 249
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:204 → 371
      DUF4594; Domain of unknown function (DUF4594)

    6. NM_001382415.3 → NP_001369344.2  coiled-coil domain-containing protein 9 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC156630
      Conserved Domains (1) summary
      PRK12678
      Location:39 → 249
      PRK12678; transcription termination factor Rho; Provisional

    7. NM_001382416.1 → NP_001369345.1  coiled-coil domain-containing protein 9 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC156630
      Conserved Domains (2) summary
      PRK12678
      Location:16 → 251
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:206 → 373
      DUF4594; Domain of unknown function (DUF4594)

    8. NM_172297.2 → NP_758501.3  coiled-coil domain-containing protein 9 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC156630
      Consensus CDS
      CCDS39784.2
      UniProtKB/Swiss-Prot
      Q8VC31
      Related
      ENSMUSP00000035597.10, ENSMUST00000041010.16
      Conserved Domains (2) summary
      PRK12678
      Location:39 → 249
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:204 → 371
      DUF4594; Domain of unknown function (DUF4594)

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000073.7 Reference GRCm39 C57BL/6J

      Range
      16005938..16020713 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030242556.2 → XP_030098416.1  coiled-coil domain-containing protein 9 isoform X6

      Conserved Domains (2) summary
      PRK12678
      Location:16 → 251
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:206 → 373
      DUF4594; Domain of unknown function (DUF4594)

    2. XM_006539927.5 → XP_006539990.1  coiled-coil domain-containing protein 9 isoform X7

      Conserved Domains (2) summary
      PRK12678
      Location:16 → 251
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:206 → 373
      DUF4594; Domain of unknown function (DUF4594)

    3. XM_006539926.5 → XP_006539989.1  coiled-coil domain-containing protein 9 isoform X5

      Conserved Domains (2) summary
      PRK12678
      Location:16 → 251
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:206 → 373
      DUF4594; Domain of unknown function (DUF4594)

    4. XM_036153079.1 → XP_036008972.1  coiled-coil domain-containing protein 9 isoform X4

      Conserved Domains (2) summary
      PRK12678
      Location:16 → 251
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:206 → 373
      DUF4594; Domain of unknown function (DUF4594)

    5. XM_006539925.4 → XP_006539988.1  coiled-coil domain-containing protein 9 isoform X3

      Conserved Domains (2) summary
      PRK12678
      Location:16 → 251
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:206 → 373
      DUF4594; Domain of unknown function (DUF4594)

    6. XM_011250560.3 → XP_011248862.1  coiled-coil domain-containing protein 9 isoform X1

      Conserved Domains (2) summary
      PRK12678
      Location:16 → 251
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:206 → 373
      DUF4594; Domain of unknown function (DUF4594)

    7. XM_036153077.1 → XP_036008970.1  coiled-coil domain-containing protein 9 isoform X1

      Conserved Domains (2) summary
      PRK12678
      Location:16 → 251
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:206 → 373
      DUF4594; Domain of unknown function (DUF4594)

    8. XM_006539922.1 → XP_006539985.1  coiled-coil domain-containing protein 9 isoform X2

      See identical proteins and their annotated locations for XP_006539985.1

      Conserved Domains (2) summary
      PRK12678
      Location:40 → 250
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:205 → 372
      DUF4594; Domain of unknown function (DUF4594)

    9. XM_036153078.1 → XP_036008971.1  coiled-coil domain-containing protein 9 isoform X1

      Conserved Domains (2) summary
      PRK12678
      Location:16 → 251
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:206 → 373
      DUF4594; Domain of unknown function (DUF4594)

    10. XM_036153080.1 → XP_036008973.1  coiled-coil domain-containing protein 9 isoform X8

      UniProtKB/TrEMBL
      G3X927
      Conserved Domains (2) summary
      PRK12678
      Location:40 → 250
      PRK12678; transcription termination factor Rho; Provisional
      pfam15266
      Location:205 → 372
      DUF4594; Domain of unknown function (DUF4594)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8VC31.1 GenPept UniProtKB/Swiss-Prot:Q8VC31

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools