This gene produces a long non-coding RNA that promotes tumor formation and is upregulated in colon cancer and other cancer cell types. This transcript may regulate long range chromosomal interactions, including at the Myc oncoprotein locus. This RNA may also function as a molecular sponge for microRNAs. [provided by RefSeq, Dec 2017] See more...

Aliases for CCAT1 Gene

Subcategory (RNA class) for CCAT1 Gene

lncRNA

Number of RNA Genes sources:

3 / 14

Aliases for CCAT1 Gene

  • Colon Cancer Associated Transcript 1 2 3
  • Colon Cancer Associated Transcript 1 (Non-Protein Coding) 2 3
  • Onco-LncRNA-40 3
  • HSALNG0068424 167
  • Lnc-FAM84B-15 168
  • NONHSAG051247 92
  • CARLo-5 3
  • CARLO5 3
  • CCAT1 2

External Ids for CCAT1 Gene

Previous GeneCards Identifiers for CCAT1 Gene

  • GC08M128221

Summaries for CCAT1 Gene

Entrez Gene Summary for CCAT1 Gene

  • This gene produces a long non-coding RNA that promotes tumor formation and is upregulated in colon cancer and other cancer cell types. This transcript may regulate long range chromosomal interactions, including at the Myc oncoprotein locus. This RNA may also function as a molecular sponge for microRNAs. [provided by RefSeq, Dec 2017]

GeneCards Summary for CCAT1 Gene

CCAT1 (Colon Cancer Associated Transcript 1) is an RNA Gene, and is affiliated with the lncRNA class. Diseases associated with CCAT1 include Intrahepatic Cholangiocarcinoma and Ovarian Epithelial Cancer.

Additional gene information for CCAT1 Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CCAT1 Gene

Genomics for CCAT1 Gene

GeneHancer (GH) Regulatory Elements for CCAT1 Gene

Promoters and enhancers for CCAT1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH08J127204 Promoter/Enhancer 1.9 FANTOM5 Ensembl ENCODE dbSUPER 0.7 +2.6 2564 25 EP300 FOXK2 ZBTB40 CTCF SIN3A TCF12 POLR2G USF1 SP1 NCOR1 CCAT1 HM358356 CASC19 PCAT2 JX003871 PCAT1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CCAT1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for CCAT1 Gene

Genomic Locations for CCAT1 Gene
chr8:127,207,382-127,219,268
(GRCh38/hg38)
Size:
11,887 bases
Orientation:
Minus strand
chr8:128,219,629-128,231,333
(GRCh37/hg19)
Size:
11,705 bases
Orientation:
Minus strand

Genomic View for CCAT1 Gene

Genes around CCAT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CCAT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CCAT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CCAT1 Gene

Proteins for CCAT1 Gene

Post-translational modifications for CCAT1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for CCAT1 Gene

Domains & Families for CCAT1 Gene

Gene Families for CCAT1 Gene

genes like me logo Genes that share domains with CCAT1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for CCAT1 Gene

Function for CCAT1 Gene

Phenotypes From GWAS Catalog for CCAT1 Gene

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for CCAT1 Gene

Localization for CCAT1 Gene

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 CCAT1 gene
Compartment Confidence
nucleus 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
cytosol 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for CCAT1 Gene

Pathways & Interactions for CCAT1 Gene

PathCards logo

SuperPathways for CCAT1 Gene

No Data Available
;

Gene Ontology (GO) - Biological Process for CCAT1 Gene

None

No data available for Pathways by source , Interacting Proteins and SIGNOR curated interactions for CCAT1 Gene

Drugs & Compounds for CCAT1 Gene

No Compound Related Data Available

Transcripts for CCAT1 Gene

Alternative Splicing Database (ASD) splice patterns (SP) for CCAT1 Gene

No ASD Table

Relevant External Links for CCAT1 Gene

GeneLoc Exon Structure for
CCAT1

Expression for CCAT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CCAT1 Gene

mRNA differential expression in normal tissues according to GTEx for CCAT1 Gene

This gene is overexpressed in Esophagus - Mucosa (x23.4) and Liver (x18.0).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CCAT1

SOURCE GeneReport for Unigene cluster for CCAT1 Gene:

Hs.343864
genes like me logo Genes that share expression patterns with CCAT1: 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 , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for CCAT1 Gene

Orthologs for CCAT1 Gene

No data available for Orthologs and Evolution for CCAT1 Gene

Paralogs for CCAT1 Gene

No data available for Paralogs for CCAT1 Gene

Variants for CCAT1 Gene

Additional dbSNP identifiers (rs#s) for CCAT1 Gene

Structural Variations from Database of Genomic Variants (DGV) for CCAT1 Gene

Variant ID Type Subtype PubMed ID
nsv499795 OTHER inversion 21111241
nsv7419 OTHER inversion 18451855
nsv831457 CNV gain 17160897

Additional Variant Information for CCAT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CCAT1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP and Variation tolerance for CCAT1 Gene

Disorders for CCAT1 Gene

MalaCards: The human disease database

(26) MalaCards diseases for CCAT1 Gene - From: LncRNADisease, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
intrahepatic cholangiocarcinoma
  • cholangiocarcinoma
ovarian epithelial cancer
  • eoc
laryngeal squamous cell carcinoma
  • epidermoid carcinoma of the larynx
gallbladder cancer
  • gallbladder ca
retinoblastoma
  • rb1
- elite association - COSMIC cancer census association via MalaCards
Search CCAT1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CCAT1

genes like me logo Genes that share disorders with CCAT1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CCAT1 Gene

Publications for CCAT1 Gene

  1. Long-range interaction and correlation between MYC enhancer and oncogenic long noncoding RNA CARLo-5. (PMID: 24594601) Kim T … Croce CM (Proceedings of the National Academy of Sciences of the United States of America 2014) 2 3 54
  2. Detection of a long non-coding RNA (CCAT1) in living cells and human adenocarcinoma of colon tissues using FIT-PNA molecular beacons. (PMID: 23416875) Kam Y … Yavin E (Cancer letters 2014) 2 3 54
  3. Long noncoding RNA CCAT1, which could be activated by c-Myc, promotes the progression of gastric carcinoma. (PMID: 23143645) Yang F … Fang G (Journal of cancer research and clinical oncology 2013) 2 3 54
  4. Colon cancer associated transcript-1: a novel RNA expressed in malignant and pre-malignant human tissues. (PMID: 21547902) Nissan A … Gure AO (International journal of cancer 2012) 2 3 54
  5. The prognostic significance of the long non-coding RNAs "CCAT1, PVT1" in t(8;21) associated Acute Myeloid Leukemia. (PMID: 30943439) El-Khazragy N … Diab A (Gene 2019) 3 54

Products for CCAT1 Gene

Sources for CCAT1 Gene