U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Ccin calicin [ Mus musculus (house mouse) ]

    Gene ID: 442829, updated on 2-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Ccinprovided by MGI
    Official Full Name
    calicinprovided by MGI
    Primary source
    MGI:MGI:3045316
    See related
    Ensembl:ENSMUSG00000070999 AllianceGenome:MGI:3045316
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    4933417A14Rik
    Summary
    Predicted to enable ubiquitin-like ligase-substrate adaptor activity. Involved in spermatogenesis. Located in cytoskeletal calyx. Human ortholog(s) of this gene implicated in spermatogenic failure 91. Orthologous to human CCIN (calicin). [provided by Alliance of Genome Resources, Nov 2024]
    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 Ccin in Genome Data Viewer
    Location:
    4 B1; 4 23.08 cM
    Exon count:
    1
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (43983504..43985533)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (43983504..43985533)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene reversion-inducing-cysteine-rich protein with kazal motifs Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:43970150-43970259 Neighboring gene STARR-positive B cell enhancer ABC_E7964 Neighboring gene predicted gene, 30377 Neighboring gene STARR-positive B cell enhancer ABC_E1275 Neighboring gene STARR-seq mESC enhancer starr_10063 Neighboring gene GLI pathogenesis-related 2 Neighboring gene STARR-positive B cell enhancer ABC_E6167 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:44025298-44025528 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:44035322-44035529 Neighboring gene clathrin light chain A Neighboring gene glucosamine (UDP-N-acetyl)-2-epimerase/N-acetylmannosamine kinase Neighboring gene STARR-seq mESC enhancer starr_10067 Neighboring gene STARR-positive B cell enhancer ABC_E7965

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. The perinuclear theca protein Calicin helps shape the sperm head and maintain the nuclear structure in mice. Zhang XZ, et al. Cell Rep, 2022 Jul 5. PMID 35793634
    2. Mutations in CCIN cause teratozoospermia and male infertility. Fan Y, et al. Sci Bull (Beijing), 2022 Oct 31. PMID 36546111
    3. Mapping the NPHP-JBTS-MKS protein network reveals ciliopathy disease genes and pathways. Sang L, et al. Cell, 2011 May 13. PMID 21565611, Free PMC Article
    4. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
    5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    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

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ubiquitin-like ligase-substrate adaptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in spermatogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of Cul3-RING ubiquitin ligase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoskeletal calyx IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    calicin

    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_001002787.2 → NP_001002787.1  calicin

      See identical proteins and their annotated locations for NP_001002787.1

      Status: PROVISIONAL

      Source sequence(s)
      AK030197
      Consensus CDS
      CCDS18118.1
      UniProtKB/Swiss-Prot
      Q8CDE2
      UniProtKB/TrEMBL
      B2RX51
      Related
      ENSMUSP00000092725.2, ENSMUST00000095107.3
      Conserved Domains (4) summary
      PHA03098
      Location:41 → 462
      PHA03098; kelch-like protein; Provisional
      sd00038
      Location:317 → 362
      Kelch; KELCH repeat [structural motif]
      cd18307
      Location:27 → 123
      BTB_POZ_calicin; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in calicin
      cl28903
      Location:130 → 208
      BACK; BACK (BTB and C-terminal Kelch) 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_000070.7 Reference GRCm39 C57BL/6J

      Range
      43983504..43985533
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8CDE2.1 GenPept UniProtKB/Swiss-Prot:Q8CDE2

    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