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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

Regulatory Elements for COLCA1 Gene

Enhancers for COLCA1 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
GH11H111375 1.4 Ensembl ENCODE dbSUPER 22.7 -73.4 -73439 5 HDGF PKNOX1 TBL1XR1 RB1 BMI1 BATF ZBTB40 ZNF143 ZNF207 ATF7 COLCA1 COLCA2 LOC644277 POU2AF1 BTG4 C11orf88 MIR34B MIR34C RNU2-60P MIR4491
GH11H111413 1.4 Ensembl ENCODE dbSUPER 17.7 -111.6 -111551 6 ELF3 HDGF PKNOX1 TBL1XR1 RB1 ARID4B BMI1 YBX1 BATF RAD21 COLCA1 RNU2-60P COLCA2 MIR34C MIR34B C11orf88 BTG4 LOC100132078 BCO2 GC11M111399
GH11H111352 0.8 ENCODE dbSUPER 26.1 -48.1 -48128 1 ZFHX2 STAT1 POLR2A ZNF366 ETV6 RAD21 EGR2 COLCA1 COLCA2 RNU2-60P MIR4491
GH11H111333 1.3 ENCODE dbSUPER 15.2 -30.5 -30517 3 FOXA2 ATF1 MLX ARID4B DMAP1 YY1 ZNF121 SP5 REST MIER2 COLCA1 COLCA2 LOC105369491 MIR4491
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around COLCA1 on UCSC Golden Path with GeneCards custom track

Genomic Location for COLCA1 Gene

111,290,787 bp from pter
111,305,048 bp from pter
14,262 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

Clone Products

  • Applied Biological Materials Clones for COLCA1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , 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

Clone Products

  • Applied Biological Materials Clones for COLCA1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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

Primer Products

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 Sequence Context AA Info Type
rs1000248189 -- 111,295,001(+) CAAGT(C/T)AGCAG utr-variant-3-prime
rs1000366266 -- 111,306,061(+) GGTAG(A/G)GGCTG intron-variant, upstream-variant-2KB
rs1000626762 -- 111,293,903(+) TTCGA(A/G)CTGTA utr-variant-3-prime
rs1000703248 -- 111,295,259(+) ACATA(C/T)GTAGG utr-variant-3-prime
rs1000914326 -- 111,305,993(+) GCATC(A/G)GAAGT intron-variant, upstream-variant-2KB

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

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

Relevant External Links 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
  • colorectal cancer, somatic
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for COLCA1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 60
  2. Identification of candidate susceptibility genes for colorectal cancer through eQTL analysis. (PMID: 24760461) Closa A … Moreno V (Carcinogenesis 2014) 2 3 60
  3. 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 60
  4. 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 60
  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 60

Products for COLCA1 Gene

Sources for COLCA1 Gene

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