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Aliases for GACAT2 Gene

Subcategory (RNA class) for GACAT2 Gene

non-coding RNA

Quality Score for this RNA gene is

3

Aliases for GACAT2 Gene

  • Gastric Cancer Associated Transcript 2 (Non-Protein Coding) 2 3 5
  • 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 (Non-Protein Coding)) is an RNA Gene, and is affiliated with the non-coding RNA class.

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

Regulatory Elements for GACAT2 Gene

Enhancers for GACAT2 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
GH18H008703 1.8 FANTOM5 Ensembl ENCODE dbSUPER 0.7 +1.1 1072 6 HDGF SIN3A FEZF1 ZNF2 GLIS2 KLF7 ATF7 SP3 REST PPARG MTCL1 ENSG00000266708 ANKRD12 GACAT2
GH18H008717 0.8 ENCODE dbSUPER 0.4 -10.0 -10027 0 ZNF341 CTBP2 REST ATF2 ZXDB EGR2 ENSG00000252319 GACAT2
GH18H008719 0.6 ENCODE 0.4 -11.8 -11757 0 PKNOX1 PRDM6 ZNF629 GFI1B FEZF1 ZNF843 ZXDB TCF7L2 ENSG00000252319 GACAT2
GH18H008711 0.5 dbSUPER 0.4 -5.7 -5728 3 CC2D1A EGR1 ZBTB33 GACAT2 ENSG00000252319
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around GACAT2 on UCSC Golden Path with GeneCards custom track

Promoters for GACAT2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000100409 1421 3201 HDGF SIN3A FEZF1 ZNF2 GLIS2 KLF7 ATF7 SP3 REST SMARCB1

Genomic Location for GACAT2 Gene

Chromosome:
18
Start:
8,695,856 bp from pter
End:
8,707,621 bp from pter
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

Animal Model Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , 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

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

(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

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

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for GACAT2 Gene

NURSA nuclear receptor signaling pathways regulating expression of GACAT2 Gene:

GACAT2
genes like me logo Genes that share expression patterns with GACAT2: view

No data available for 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 Sequence Context AA Info Type
rs1000002519 -- 8,705,742(+) ACCAC(C/G)ACCTC intron-variant, upstream-variant-2KB, reference, missense
rs1000033614 -- 8,705,538(+) CGCAG(A/C)CCGGG intron-variant, upstream-variant-2KB
rs1000977924 -- 8,700,385(+) GGGCG(C/T)AGTGG intron-variant
rs1001081832 -- 8,707,424(+) GCTGC(A/G)CTCTC intron-variant, nc-transcript-variant, upstream-variant-2KB
rs1001203954 -- 8,695,823(+) ATTGG(C/T)AAAGT downstream-variant-500B

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

Relevant External Links 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

Relevant External Links for GACAT2

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
GACAT2

No disorders were found for GACAT2 Gene.

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

Publications for GACAT2 Gene

  1. 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 60
  2. Non-coding RNAs and gastric cancer. (PMID: 24833871) Li PF … Guo JM (World journal of gastroenterology 2014) 2 3 60
  3. 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 60
  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 60
  5. LncRNA HMlincRNA717 is down-regulated in non-small cell lung cancer and associated with poor prognosis. (PMID: 25674259) Xie X … Wang MS (International journal of clinical and experimental pathology 2014) 3 60

Products for GACAT2 Gene

Sources for GACAT2 Gene

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