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CCIN calicin [ Homo sapiens (human) ]

Gene ID: 881, updated on 5-Mar-2024

Summary

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Official Symbol
CCINprovided by HGNC
Official Full Name
calicinprovided by HGNC
Primary source
HGNC:HGNC:1568
See related
Ensembl:ENSG00000185972 MIM:603960; AllianceGenome:HGNC:1568
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
BTBD20; KBTBD14
Summary
The protein encoded by this gene is a basic protein of the sperm head cytoskeleton. This protein contains kelch repeats and a BTB/POZ domain and is necessary for normal morphology during sperm differentiation. This gene is intronless. [provided by RefSeq, Jul 2008]
Orthologs
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Genomic context

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Location:
9p13.3
Exon count:
1
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (36169388..36171334)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (36191394..36193340)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (36169385..36171331)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19886 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19885 Neighboring gene reversion inducing cysteine rich protein with kazal motifs Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19887 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28344 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:36102296-36102796 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19888 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19889 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28345 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28346 Neighboring gene GLI pathogenesis related 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:36162329-36162909 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:36161748-36162328 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28347 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:36166491-36166991 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:36190553-36191178 Neighboring gene uncharacterized LOC124902151 Neighboring gene clathrin light chain A Neighboring gene ReSE screen-validated silencer GRCh37_chr9:36245133-36245303 Neighboring gene glucosamine (UDP-N-acetyl)-2-epimerase/N-acetylmannosamine kinase Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19891 Neighboring gene uncharacterized LOC124902150 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28349 Neighboring gene RNA, U4 small nuclear 53, pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Actin-binding properties and colocalization with actin during spermiogenesis of mammalian sperm calicin. Lécuyer C, et al. Biol Reprod, 2000 Dec. PMID 11090452
  2. Molecular nature of calicin, a major basic protein of the mammalian sperm head cytoskeleton. von Bülow M, et al. Exp Cell Res, 1995 Aug. PMID 7641791
  3. A genome-wide RNAi screen identifies multiple synthetic lethal interactions with the Ras oncogene. Luo J, et al. Cell, 2009 May 29. PMID 19490893, Free PMC Article
  4. Proteomic characterization of the human sperm nucleus. de Mateo S, et al. Proteomics, 2011 Jul. PMID 21630459
  5. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. Oláh J, et al. J Biol Chem, 2011 Sep 30. PMID 21832049, Free PMC Article

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in cell differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in spermatogenesis IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytoskeletal calyx IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus HDA PubMed 

General protein information

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Preferred Names
calicin
Names
testis tissue sperm-binding protein Li 65n

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_005893.3 → NP_005884.2  calicin

    See identical proteins and their annotated locations for NP_005884.2

    Status: REVIEWED

    Source sequence(s)
    AK313763, AL158830, BC019251
    Consensus CDS
    CCDS6599.1
    UniProtKB/Swiss-Prot
    Q13939, Q9BXG7
    UniProtKB/TrEMBL
    Q8WWB2, Q8WX35
    Related
    ENSP00000334996.2, ENST00000335119.4
    Conserved Domains (7) summary
    smart00225
    Location:29 → 128
    BTB; Broad-Complex, Tramtrack and Bric a brac
    smart00875
    Location:133 → 234
    BACK; BTB And C-terminal Kelch
    sd00038
    Location:317 → 362
    Kelch; KELCH repeat [structural motif]
    pfam00651
    Location:18 → 125
    BTB; BTB/POZ domain
    pfam01344
    Location:366 → 410
    Kelch_1; Kelch motif
    pfam13418
    Location:515 → 568
    Kelch_4; Galactose oxidase, central domain
    pfam13964
    Location:321 → 364
    Kelch_6; Kelch motif

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    36169388..36171334
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    36191394..36193340
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q13939.3 GenPept UniProtKB/Swiss-Prot:Q13939

Gene LinkOut

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