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Aliases for GACAT2 Gene

Subcategory (RNA class) for GACAT2 Gene

non-coding RNA

Quality Score for this RNA gene is

13

Aliases for GACAT2 Gene

  • Gastric Cancer Associated Transcript 2 2 3 5
  • Gastric Cancer Associated Transcript 2 (Non-Protein Coding) 2 3
  • MTCL1 Antisense RNA 1 2 3
  • HMlincRNA717 3
  • MTCL1-AS1 3
  • MTCL1AS1 3

External Ids for GACAT2 Gene

Previous HGNC Symbols for GACAT2 Gene

  • MTCL1-AS1

Summaries for GACAT2 Gene

GeneCards Summary for GACAT2 Gene

GACAT2 (Gastric Cancer Associated Transcript 2) is an RNA Gene, and is affiliated with the non-coding RNA class. Diseases associated with GACAT2 include Gastric Cancer and Pancreatic Cancer.

Additional gene information for GACAT2 Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for GACAT2 Gene

Genomics for GACAT2 Gene

GeneHancer (GH) Regulatory Elements for GACAT2 Gene

Promoters and enhancers for GACAT2 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
GH18J008703 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 600.7 +1.1 1105 6.6 ZFX POLR2A AHR SP7 PPARG KLF14 PRDM1 ZNF639 ZNF547 GLIS2 MTCL1 GACAT2 ENSG00000266708 ANKRD12
GH18J008701 Promoter/Enhancer 1.1 EPDnew ENCODE 0.4 +5.8 5800 0.8 GLIS2 PRDM10 SP1 ZBTB20 ATF3 ZBTB48 ZBTB17 NFIC PRDM4 ZNF660 MTCL1 GACAT2 TOMM20P3
GH18J008717 Enhancer 0.9 Ensembl ENCODE dbSUPER 0.4 -9.5 -9480 3 SP1 TCF7L2 ZNF341 ZXDB ATF2 ZNF143 EGR2 RAB12 ENSG00000252319 GACAT2 MTCL1
GH18J008696 Enhancer 0.9 Ensembl ENCODE 0.4 +11.2 11210 1.6 CTCF ZNF384 RAD21 IKZF1 REST TRIM22 CEBPB RFX5 SMC3 MYNN MTCL1 TOMM20P3 GACAT2
GH18J008711 Enhancer 0.4 Ensembl dbSUPER 0.7 -4.7 -4680 1 GACAT2 MTCL1 ENSG00000252319
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around GACAT2 on UCSC Golden Path with GeneCards custom track

Genomic Locations for GACAT2 Gene

Genomic Locations for GACAT2 Gene
chr18:8,695,856-8,707,621
(GRCh38/hg38)
Size:
11,766 bases
Orientation:
Minus strand
chr18:8,695,854-8,707,619
(GRCh37/hg19)
Size:
11,766 bases
Orientation:
Minus strand

Genomic View for GACAT2 Gene

Genes around GACAT2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
GACAT2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for GACAT2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for GACAT2 Gene

Proteins for GACAT2 Gene

Post-translational modifications for GACAT2 Gene

No Post-translational modifications

No data available for DME Specific Peptides for GACAT2 Gene

Domains & Families for GACAT2 Gene

Gene Families for GACAT2 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with GACAT2: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for GACAT2 Gene

Function for GACAT2 Gene

Phenotypes From GWAS Catalog for GACAT2 Gene

Animal Model Products

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 GACAT2 Gene

Localization for GACAT2 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for GACAT2 Gene

Pathways & Interactions for GACAT2 Gene

PathCards logo

SuperPathways for GACAT2 Gene

No Data Available

Interacting Proteins for GACAT2 Gene

Gene Ontology (GO) - Biological Process for GACAT2 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for GACAT2 Gene

Drugs & Compounds for GACAT2 Gene

No Compound Related Data Available

Transcripts for GACAT2 Gene

mRNA/cDNA for GACAT2 Gene

(2) Additional mRNA sequences :
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
(2) RNA Central transcripts :

Alternative Splicing Database (ASD) splice patterns (SP) for GACAT2 Gene

No ASD Table

Relevant External Links for GACAT2 Gene

GeneLoc Exon Structure for
GACAT2
ECgene alternative splicing isoforms for
GACAT2

Expression for GACAT2 Gene

NURSA nuclear receptor signaling pathways regulating expression of GACAT2 Gene:

GACAT2
No Expression Related Data Available

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , 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 GACAT2 Gene

Orthologs for GACAT2 Gene

Evolution for GACAT2 Gene

ENSEMBL:
Gene Tree for GACAT2 (if available)
TreeFam:
Gene Tree for GACAT2 (if available)

No data available for Orthologs for GACAT2 Gene

Paralogs for GACAT2 Gene

No data available for Paralogs for GACAT2 Gene

Variants for GACAT2 Gene

Sequence variations from dbSNP and Humsavar for GACAT2 Gene

SNP ID Clin Chr 18 pos Variation AA Info Type
rs1000002519 -- 8,705,742(-) C/G intron_variant
rs1000033614 -- 8,705,538(-) C/A intron_variant
rs1000977924 -- 8,700,385(-) T/C intron_variant
rs1001081832 -- 8,707,424(-) A/G non_coding_transcript_variant
rs1001203954 -- 8,695,823(-) T/C downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for GACAT2 Gene

Variant ID Type Subtype PubMed ID
dgv5843n54 CNV loss 21841781
dgv5844n54 CNV loss 21841781
dgv5845n54 CNV gain 21841781
esv23442 CNV loss 19812545
nsv1118780 CNV deletion 24896259
nsv576434 CNV gain+loss 21841781

Additional Variant Information for GACAT2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
GACAT2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for GACAT2 Gene

Disorders for GACAT2 Gene

MalaCards: The human disease database

(3) MalaCards diseases for GACAT2 Gene - From: LncRNADisease, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
gastric cancer
  • gastric cancer, somatic
pancreatic cancer
  • pancreatic carcinoma
lung cancer
  • adenocarcinoma of lung
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for GACAT2

genes like me logo Genes that share disorders with GACAT2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for GACAT2 Gene

Publications for GACAT2 Gene

  1. Non-coding RNAs and gastric cancer. (PMID: 24833871) Li PF … Guo JM (World journal of gastroenterology 2014) 2 3 58
  2. Low expression of lncRNA-HMlincRNA717 in human gastric cancer and its clinical significances. (PMID: 24961350) Shao Y … Guo J (Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine 2014) 2 3 58
  3. Long noncoding RNA HMlincRNA717 and AC130710 have been officially named as gastric cancer associated transcript 2 (GACAT2) and GACAT3, respectively. (PMID: 25077925) Chen S … Guo J (Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine 2014) 2 3 58
  4. Long non-coding RNA expression profile in human gastric cancer and its clinical significances. (PMID: 24063685) Song H … Guo J (Journal of translational medicine 2013) 2 3 58
  5. RNA-binding activity of TRIM25 is mediated by its PRY/SPRY domain and is required for ubiquitination. (PMID: 29117863) Choudhury NR … Michlewski G (BMC biology 2017) 3 58

Products for GACAT2 Gene

Sources for GACAT2 Gene

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