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    Ccdc162 coiled-coil domain containing 162 [ Mus musculus (house mouse) ]

    Gene ID: 75973, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Ccdc162provided by MGI
    Official Full Name
    coiled-coil domain containing 162provided by MGI
    Primary source
    MGI:MGI:1923223
    See related
    Ensembl:ENSMUSG00000075225 AllianceGenome:MGI:1923223
    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
    Gm61; Gm6976; Gm29096; Ccdc162p; 5033413D22Rik
    Summary
    Orthologous to human CCDC162P (coiled-coil domain containing 162, pseudogene). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Broad expression in lung adult (RPKM 1.3), ovary adult (RPKM 1.0) and 16 other tissues See more
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    Genomic context

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    See Ccdc162 in Genome Data Viewer
    Location:
    10 B2; 10 22.48 cM
    Exon count:
    51
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (41414838..41592586, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (41538844..41716520, complement)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E2932 Neighboring gene STARR-positive B cell enhancer ABC_E5127 Neighboring gene peptidylprolyl isomerase (cyclophilin)-like 6 Neighboring gene CapStarr-seq enhancer MGSCv37_chr10:41272644-41272850 Neighboring gene RIKEN cDNA 5730435O14 gene Neighboring gene CD164 antigen Neighboring gene STARR-positive B cell enhancer mm9_chr10:41292844-41293145 Neighboring gene predicted gene 17196 Neighboring gene CapStarr-seq enhancer MGSCv37_chr10:41339920-41340109 Neighboring gene STARR-positive B cell enhancer ABC_E5128 Neighboring gene microRNA 3473b Neighboring gene CapStarr-seq enhancer MGSCv37_chr10:41472075-41472184 Neighboring gene centrosomal protein 57-like 1 Neighboring gene cDNA sequence BC048559 Neighboring gene STARR-seq mESC enhancer starr_26466 Neighboring gene STARR-seq mESC enhancer starr_26467 Neighboring gene STARR-seq mESC enhancer starr_26468 Neighboring gene STARR-seq mESC enhancer starr_26469 Neighboring gene sestrin 1 Neighboring gene armadillo repeat containing 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data 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

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    Related articles in PubMed

    1. The Vertebrate Genome Annotation browser 10 years on. Harrow JL, et al. Nucleic Acids Res, 2014 Jan. PMID 24316575, Free PMC Article
    2. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article
    3. Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 2003 Nov 25. PMID 14610273, Free PMC Article
    4. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    5. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    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
    		  

    General protein information

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    Preferred Names
    coiled-coil domain containing 162
    Names
    coiled-coil domain-containing protein 162

    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_001358562.1 → NP_001345491.1  coiled-coil domain containing 162

      Status: VALIDATED

      Source sequence(s)
      AC132290, AC161426
      Consensus CDS
      CCDS56700.3
      Related
      ENSMUSP00000140774.3, ENSMUST00000189488.3
      Conserved Domains (2) summary
      pfam15082
      Location:4 → 145
      DUF4549; Domain of unknown function (DUF4549)
      cl25732
      Location:1752 → 2088
      SMC_N; RecF/RecN/SMC N terminal domain

    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_000076.7 Reference GRCm39 C57BL/6J

      Range
      41414838..41592586 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011243230.4 → XP_011241532.1  coiled-coil domain containing 162 isoform X3

      Conserved Domains (3) summary
      TIGR00606
      Location:1580 → 1820
      rad50
      COG1196
      Location:1749 → 2082
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam15082
      Location:4 → 135
      DUF4549; Domain of unknown function (DUF4549)

    2. XM_017314137.3 → XP_017169626.1  coiled-coil domain containing 162 isoform X4

      Conserved Domains (3) summary
      TIGR00606
      Location:1544 → 1784
      rad50
      COG1196
      Location:1713 → 2046
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam15082
      Location:4 → 145
      DUF4549; Domain of unknown function (DUF4549)

    3. XM_011243229.4 → XP_011241531.1  coiled-coil domain containing 162 isoform X2

      Conserved Domains (3) summary
      TIGR00606
      Location:1589 → 1829
      rad50
      COG1196
      Location:1758 → 2091
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam15082
      Location:4 → 145
      DUF4549; Domain of unknown function (DUF4549)

    4. XM_011243226.4 → XP_011241528.1  coiled-coil domain containing 162 isoform X1

      See identical proteins and their annotated locations for XP_011241528.1

      Conserved Domains (3) summary
      TIGR00606
      Location:1590 → 1830
      rad50
      COG1196
      Location:1759 → 2092
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam15082
      Location:4 → 145
      DUF4549; Domain of unknown function (DUF4549)

    5. XM_030245351.2 → XP_030101211.1  coiled-coil domain containing 162 isoform X5

      Conserved Domains (2) summary
      COG1196
      Location:1472 → 1805
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR04523
      Location:1346 → 1590
      Mplasa_alph_rch; helix-rich Mycoplasma protein

    6. XM_017314138.1 → XP_017169627.1  coiled-coil domain containing 162 isoform X8

      Conserved Domains (1) summary
      COG1196
      Location:734 → 1067
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

    7. XM_006512905.5 → XP_006512968.1  coiled-coil domain containing 162 isoform X6

      Conserved Domains (1) summary
      pfam15082
      Location:4 → 145
      DUF4549; Domain of unknown function (DUF4549)

    8. XM_006512907.5 → XP_006512970.1  coiled-coil domain containing 162 isoform X7

      Conserved Domains (1) summary
      pfam15082
      Location:4 → 145
      DUF4549; Domain of unknown function (DUF4549)

    9. XM_011243234.4 → XP_011241536.1  coiled-coil domain containing 162 isoform X9

      Conserved Domains (1) summary
      pfam15082
      Location:4 → 145
      DUF4549; Domain of unknown function (DUF4549)

    RNA

    1. XR_003948818.2 RNA Sequence

    2. XR_871443.4 RNA Sequence

    3. XR_001779633.3 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001177571.1: Suppressed sequence

      Description
      NM_001177571.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.

    2. NM_001303469.1: Suppressed sequence

      Description
      NM_001303469.1: This RefSeq was removed because it is thought to represent an incomplete transcript and protein.

    3. NM_029493.2: Suppressed sequence

      Description
      NM_029493.2: This RefSeq was permanently suppressed because currently there is not sufficient data to support this transcript.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q0VG85.4 GenPept UniProtKB/Swiss-Prot:Q0VG85

    Gene LinkOut

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

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