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Aliases for COLCA1 Gene

Aliases for COLCA1 Gene

  • Colorectal Cancer Associated 1 2 3 5
  • Cancer Susceptibility Candidate 12 2 3
  • C11orf92 3 4
  • Colorectal Cancer-Associated Protein 1 3
  • Chromosome 11 Open Reading Frame 92 2
  • LOH11CR1F 3
  • CASC12 3

External Ids for COLCA1 Gene

Previous HGNC Symbols for COLCA1 Gene

  • C11orf92

Previous GeneCards Identifiers for COLCA1 Gene

  • GC11M111165

Summaries for COLCA1 Gene

Entrez Gene Summary for COLCA1 Gene

  • This gene encodes a transmembrane protein that localizes to granular structures, including crystalloid eosinophilic granules and other granular organelles. This gene, along with an overlapping opposite strand gene, has been implicated as a susceptibility locus for colorectal cancer. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Nov 2014]

GeneCards Summary for COLCA1 Gene

COLCA1 (Colorectal Cancer Associated 1) is a Protein Coding gene. Diseases associated with COLCA1 include Colorectal Cancer.

Additional gene information for COLCA1 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for COLCA1 Gene

Genomics for COLCA1 Gene

GeneHancer (GH) Regulatory Elements for COLCA1 Gene

Promoters and enhancers for COLCA1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH11J111302 Enhancer 0.9 ENCODE dbSUPER 650.7 +1.9 1899 1.7 CTCF ELF3 MAX RAD21 RARA YY1 GATA3 ZNF350 PRDM10 NFKBIZ COLCA1 COLCA2 C11orf53
GH11J111304 Enhancer 0.5 ENCODE dbSUPER 650.7 -0.2 -178 0.9 POLR2A COLCA1 C11orf53 COLCA2 LOC105369491
GH11J111305 Enhancer 0.3 dbSUPER 650.7 -1.0 -1009 0.4 CTCF COLCA1 COLCA2 LOC105369491
GH11J111375 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE dbSUPER 22.7 -73.4 -73439 5.1 HDGF PKNOX1 RB1 BMI1 BATF KLF5 IRF4 ZBTB40 ZNF207 ZNF143 POU2AF1 COLCA1 COLCA2 LOC644277 BTG4 C11orf88 MIR34C MIR34B RNU2-60P MIR4491
GH11J111357 Enhancer 1.5 FANTOM5 ENCODE dbSUPER 23.1 -59.9 -59856 15.7 HDGF PKNOX1 FOXA2 SMAD1 MLX ZFP64 ARID4B DMAP1 YBX1 IRF4 COLCA2 COLCA1 LAYN MIR34B MIR34C C11orf88 BTG4 POU2AF1 RNU2-60P MIR4491
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around COLCA1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for COLCA1 Gene

Genomic Locations for COLCA1 Gene
14,262 bases
Minus strand
11,657 bases
Minus strand

Genomic View for COLCA1 Gene

Genes around COLCA1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
COLCA1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for COLCA1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for COLCA1 Gene

Proteins for COLCA1 Gene

  • Protein details for COLCA1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Colorectal cancer-associated protein 1
    Protein Accession:

    Protein attributes for COLCA1 Gene

    124 amino acids
    Molecular mass:
    13401 Da
    Quaternary structure:
    No Data Available

neXtProt entry for COLCA1 Gene

Post-translational modifications for COLCA1 Gene

No Post-translational modifications

Other Protein References for COLCA1 Gene

No data available for DME Specific Peptides for COLCA1 Gene

Domains & Families for COLCA1 Gene

Protein Domains for COLCA1 Gene


Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with COLCA1: view

No data available for Gene Families , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for COLCA1 Gene

Function for COLCA1 Gene

Phenotypes From GWAS Catalog for COLCA1 Gene

genes like me logo Genes that share phenotypes with COLCA1: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for COLCA1

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for COLCA1 Gene

Localization for COLCA1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for COLCA1 Gene

Membrane; Single-pass membrane protein. Note=Co-localizes with crystalloid granules of eosinophils and granular organelles of mast cells, neutrophils, macrophages and dendritic cells.

Subcellular locations from

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 COLCA1 gene
Compartment Confidence
extracellular 3
plasma membrane 1
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
cytosol 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for COLCA1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IDA 24154973
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with COLCA1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for COLCA1 Gene

Pathways & Interactions for COLCA1 Gene

SuperPathways for COLCA1 Gene

No Data Available

Interacting Proteins for COLCA1 Gene

Gene Ontology (GO) - Biological Process for COLCA1 Gene


No data available for Pathways by source and SIGNOR curated interactions for COLCA1 Gene

Drugs & Compounds for COLCA1 Gene

No Compound Related Data Available

Transcripts for COLCA1 Gene

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for COLCA1

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for COLCA1 Gene

No ASD Table

Relevant External Links for COLCA1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for COLCA1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for COLCA1 Gene

mRNA differential expression in normal tissues according to GTEx for COLCA1 Gene

This gene is overexpressed in Stomach (x7.5), Prostate (x7.0), Bladder (x6.3), and Minor Salivary Gland (x5.3).

NURSA nuclear receptor signaling pathways regulating expression of COLCA1 Gene:


mRNA Expression by UniProt/SwissProt for COLCA1 Gene:

Tissue specificity: Expressed in gastrointestinal and immune tissue, as well as prostate, testis and ovary. Expressed in lamina propria and eosinophils but not in epithelial cells. Expression is greater in benign adjacent tissues than in colon tumors.
genes like me logo Genes that share expression patterns with COLCA1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for COLCA1 Gene

Orthologs for COLCA1 Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for COLCA1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia COLCA1 34
  • 96 (a)
Species where no ortholog for COLCA1 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)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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 COLCA1 Gene

Gene Tree for COLCA1 (if available)
Gene Tree for COLCA1 (if available)

Paralogs for COLCA1 Gene

No data available for Paralogs for COLCA1 Gene

Variants for COLCA1 Gene

Sequence variations from dbSNP and Humsavar for COLCA1 Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000248189 -- 111,295,001(-) C/T 3_prime_UTR_variant
rs1000366266 -- 111,306,061(-) G/A upstream_transcript_variant
rs1000626762 -- 111,293,903(-) G/A 3_prime_UTR_variant
rs1000703248 -- 111,295,259(-) T/C 3_prime_UTR_variant
rs1000914326 -- 111,305,993(-) A/G upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for COLCA1 Gene

Variant ID Type Subtype PubMed ID
esv3627732 CNV gain 21293372
dgv233e214 CNV loss 21293372

Variation tolerance for COLCA1 Gene

Gene Damage Index Score: 1.19; 24.01% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for COLCA1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for COLCA1 Gene

Disorders for COLCA1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for COLCA1 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
colorectal cancer
  • crc
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for COLCA1

genes like me logo Genes that share disorders with COLCA1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for COLCA1 Gene

Publications for COLCA1 Gene

  1. Identification of genes expressed by immune cells of the colon that are regulated by colorectal cancer-associated variants. (PMID: 24154973) Peltekova VD … Hudson TJ (International journal of cancer 2014) 2 3 4 58
  2. Identification of candidate susceptibility genes for colorectal cancer through eQTL analysis. (PMID: 24760461) Closa A … Moreno V (Carcinogenesis 2014) 2 3 58
  3. Large-scale genetic study in East Asians identifies six new loci associated with colorectal cancer risk. (PMID: 24836286) Zhang B … Zheng W (Nature genetics 2014) 3 58
  4. Identification and characterization of functional risk variants for colorectal cancer mapping to chromosome 11q23.1. (PMID: 24256810) Biancolella M … Casey G (Human molecular genetics 2014) 3 58
  5. Genetic association of PLCE1, C11orf92-C11orf93, and NOC3L with colorectal cancer risk in the Han population. (PMID: 24146276) Duan X … Chen C (Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine 2014) 3 58

Products for COLCA1 Gene

Sources for COLCA1 Gene

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