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Aliases for CCIN Gene

Aliases for CCIN Gene

  • Calicin 2 3 3 5
  • Testis Tissue Sperm-Binding Protein Li 65n 3
  • KBTBD14 3
  • BTBD20 3

External Ids for CCIN Gene

Previous GeneCards Identifiers for CCIN Gene

  • GC09P036481
  • GC09P036338

Summaries for CCIN Gene

Entrez Gene Summary for CCIN Gene

  • 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]

GeneCards Summary for CCIN Gene

CCIN (Calicin) is a Protein Coding gene. Diseases associated with CCIN include Pelvic Varices. An important paralog of this gene is KLHL11.

UniProtKB/Swiss-Prot for CCIN Gene

  • Possible morphogenetic cytoskeletal element in spermiogenic differentiation.

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CCIN Gene

Genomics for CCIN Gene

Regulatory Elements for CCIN Gene

Enhancers for CCIN Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH09G036213 0.7 FANTOM5 dbSUPER 55.5 +44.0 44037 0.2 POLR2A GLIS1 CCIN FAM221B CLTA GNE GLIPR2 SPAG8 RNF38 PIR52930
GH09G036138 1.5 FANTOM5 ENCODE dbSUPER 13.4 -27.1 -27119 7.5 FOXA2 PKNOX1 PTBP1 NFRKB YBX1 RAD21 TCF12 GATA2 ZNF366 CREM GLIPR2 CCIN CLTA HMGB3P24
GH09G036147 1.3 Ensembl ENCODE dbSUPER 12.6 -20.8 -20776 2.5 NFIB JUN SIN3A ZNF48 RAD21 FOSL1 EED PATZ1 SMC3 FOS CCIN CLTA RECK GLIPR2 GNE
GH09G036099 1.1 Ensembl ENCODE 13.1 -67.6 -67581 4.2 HDAC1 RB1 SIN3A RAD21 RFX5 TCF12 GATA2 ZNF143 RCOR1 FOS CCIN GLIPR2 RECK ENSG00000276730
GH09G036090 1 Ensembl ENCODE 11.8 -77.6 -77608 3.2 CTCF IRF2 JUN RAD21 YY1 TEAD3 CBX5 ZNF26 SMC3 NR2F6 PIGO GLIPR2 CCIN HMGB3P24 GNE RECK ENSG00000276730
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CCIN on UCSC Golden Path with GeneCards custom track

Genomic Location for CCIN Gene

Chromosome:
9
Start:
36,169,392 bp from pter
End:
36,171,334 bp from pter
Size:
1,943 bases
Orientation:
Plus strand

Genomic View for CCIN Gene

Genes around CCIN on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CCIN Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CCIN Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CCIN Gene

Proteins for CCIN Gene

  • Protein details for CCIN Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q13939-CALI_HUMAN
    Recommended name:
    Calicin
    Protein Accession:
    Q13939
    Secondary Accessions:
    • Q9BXG7

    Protein attributes for CCIN Gene

    Size:
    588 amino acids
    Molecular mass:
    66582 Da
    Quaternary structure:
    No Data Available

neXtProt entry for CCIN Gene

Post-translational modifications for CCIN Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CCIN Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CCIN Gene

Domains & Families for CCIN Gene

Gene Families for CCIN Gene

Suggested Antigen Peptide Sequences for CCIN Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with CCIN: view

No data available for UniProtKB/Swiss-Prot for CCIN Gene

Function for CCIN Gene

Molecular function for CCIN Gene

UniProtKB/Swiss-Prot Function:
Possible morphogenetic cytoskeletal element in spermiogenic differentiation.

Gene Ontology (GO) - Molecular Function for CCIN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003779 actin binding IBA --
GO:0004842 contributes_to ubiquitin-protein transferase activity IBA --
genes like me logo Genes that share ontologies with CCIN: view
genes like me logo Genes that share phenotypes with CCIN: view

Animal Model Products

miRNA for CCIN Gene

miRTarBase miRNAs that target CCIN

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CCIN Gene

Localization for CCIN Gene

Subcellular locations from UniProtKB/Swiss-Prot for CCIN Gene

Cytoplasm, cytoskeleton, perinuclear theca, calyx. Note=Sperm head cytoskeletal structure tightly associated to the nucleus.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CCIN gene
Compartment Confidence
cytoskeleton 5
nucleus 5
cytosol 2
plasma membrane 1

Gene Ontology (GO) - Cellular Components for CCIN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 21630459
GO:0005737 cytoplasm IEA --
GO:0005856 cytoskeleton IEA --
GO:0015629 actin cytoskeleton IBA --
GO:0031463 Cul3-RING ubiquitin ligase complex IBA --
genes like me logo Genes that share ontologies with CCIN: view

Pathways & Interactions for CCIN Gene

No Data Available

Gene Ontology (GO) - Biological Process for CCIN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007275 multicellular organism development IEA --
GO:0007283 spermatogenesis IEA --
GO:0030154 cell differentiation IEA --
GO:0042787 protein ubiquitination involved in ubiquitin-dependent protein catabolic process IBA --
genes like me logo Genes that share ontologies with CCIN: view

No data available for Pathways by source and SIGNOR curated interactions for CCIN Gene

Drugs & Compounds for CCIN Gene

No Compound Related Data Available

Transcripts for CCIN Gene

mRNA/cDNA for CCIN Gene

(1) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(36) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CCIN Gene

Calicin:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CCIN Gene

No ASD Table

Relevant External Links for CCIN Gene

GeneLoc Exon Structure for
CCIN
ECgene alternative splicing isoforms for
CCIN

Expression for CCIN Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CCIN Gene

mRNA differential expression in normal tissues according to GTEx for CCIN Gene

This gene is overexpressed in Testis (x46.9).

Protein differential expression in normal tissues from HIPED for CCIN Gene

This gene is overexpressed in Testis (46.3) and Monocytes (21.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for CCIN Gene



Protein tissue co-expression partners for CCIN Gene

NURSA nuclear receptor signaling pathways regulating expression of CCIN Gene:

CCIN

SOURCE GeneReport for Unigene cluster for CCIN Gene:

Hs.115460

mRNA Expression by UniProt/SwissProt for CCIN Gene:

Q13939-CALI_HUMAN
Tissue specificity: Testis. Not detectable or shows a drastically altered pattern of arrangement in the heads of malformed spermatozoa.
genes like me logo Genes that share expression patterns with CCIN: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for CCIN Gene

Orthologs for CCIN Gene

This gene was present in the common ancestor of chordates.

Orthologs for CCIN Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CCIN 34 35
  • 99.6 (n)
dog
(Canis familiaris)
Mammalia CCIN 34 35
  • 90.87 (n)
cow
(Bos Taurus)
Mammalia CCIN 34 35
  • 90.59 (n)
mouse
(Mus musculus)
Mammalia Ccin 34 16 35
  • 88.49 (n)
rat
(Rattus norvegicus)
Mammalia Ccin 34
  • 88.49 (n)
oppossum
(Monodelphis domestica)
Mammalia CCIN 35
  • 82 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CCIN 35
  • 73 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 60 (a)
OneToMany
-- 35
  • 59 (a)
OneToMany
Species where no ortholog for CCIN was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for CCIN Gene

ENSEMBL:
Gene Tree for CCIN (if available)
TreeFam:
Gene Tree for CCIN (if available)

Paralogs for CCIN Gene

Paralogs for CCIN Gene

(1) SIMAP similar genes for CCIN Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with CCIN: view

Variants for CCIN Gene

Sequence variations from dbSNP and Humsavar for CCIN Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type
rs1000447808 -- 36,168,391(+) TTCAC(A/T)GTCTC upstream-variant-2KB
rs1000925798 -- 36,168,075(+) GAAAC(-/TG)TCTAA upstream-variant-2KB
rs1001105715 -- 36,167,844(+) TTGGA(A/G)GGCTG upstream-variant-2KB
rs1002663010 -- 36,171,069(+) CCATT(A/G)GAGAC reference, missense
rs1004669722 -- 36,168,427(+) CAAGC(C/T)GAGAT upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for CCIN Gene

Variant ID Type Subtype PubMed ID
esv34080 CNV loss 18971310
nsv1017711 CNV gain 25217958
nsv1125318 OTHER inversion 24896259
nsv528600 CNV loss 19592680

Variation tolerance for CCIN Gene

Residual Variation Intolerance Score: 71.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.26; 70.19% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CCIN Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CCIN

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CCIN Gene

Disorders for CCIN Gene

MalaCards: The human disease database

(1) MalaCards diseases for CCIN Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
pelvic varices
- elite association - COSMIC cancer census association via MalaCards
Search CCIN in MalaCards View complete list of genes associated with diseases

Relevant External Links for CCIN

Genetic Association Database (GAD)
CCIN
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CCIN
genes like me logo Genes that share disorders with CCIN: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CCIN Gene

Publications for CCIN Gene

  1. Molecular nature of calicin, a major basic protein of the mammalian sperm head cytoskeleton. (PMID: 7641791) von Buelow M. … Franke W.W. (Exp. Cell Res. 1995) 2 3 4 22 64
  2. Actin-binding properties and colocalization with actin during spermiogenesis of mammalian sperm calicin. (PMID: 11090452) LAccuyer C. … Rousseaux-PrAcvost R. (Biol. Reprod. 2000) 3 22 64
  3. Proteomic characterization of the human sperm nucleus. (PMID: 21630459) de Mateo S. … Oliva R. (Proteomics 2011) 3 64
  4. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PMID: 21832049) OlA!h J. … OvA!di J. (J. Biol. Chem. 2011) 3 64
  5. Genome-wide association for smoking cessation success: participants in the Patch in Practice trial of nicotine replacement. (PMID: 20235792) Uhl G.R. … MunafA^ M.R. (Pharmacogenomics 2010) 46 64

Products for CCIN Gene

Sources for CCIN Gene

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