U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

GACAT1 gastric cancer associated transcript 1 [ Homo sapiens (human) ]

Gene ID: 104326057, updated on 13-Nov-2023

Summary

Go to the top of the page Help
Official Symbol
GACAT1provided by HGNC
Official Full Name
gastric cancer associated transcript 1provided by HGNC
Primary source
HGNC:HGNC:48336
See related
Ensembl:ENSG00000232991 AllianceGenome:HGNC:48336
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LINC00876
Expression
Low expression observed in reference dataset See more
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See GACAT1 in Genome Data Viewer
Location:
2q12.3
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (107754112..107822129)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (108215614..108283657)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (108370568..108438585)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1885 Neighboring gene uncharacterized LOC124905955 Neighboring gene long intergenic non-protein coding RNA 1886 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr2:108250055-108251254 Neighboring gene uncharacterized LOC105373539 Neighboring gene MPRA-validated peak3808 silencer Neighboring gene ReSE screen-validated silencer GRCh37_chr2:108321385-108321583 Neighboring gene Sharpr-MPRA regulatory region 10849 Neighboring gene RGPD4 antisense RNA 1 (head to head) Neighboring gene uncharacterized LOC124906057 Neighboring gene RANBP2 like and GRIP domain containing 4

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. Decreased expression of long noncoding RNA AC096655.1-002 in gastric cancer and its clinical significance. Sun W, et al. Tumour Biol, 2013 Oct. PMID 23645148
  2. LncRNA GACAT1 induces tongue squamous cell carcinoma migration and proliferation via miR-149. Wang X, et al. J Cell Mol Med, 2021 Sep. PMID 34378327, Free PMC Article
  3. Downregulation of long non‑coding RNA GACAT1 suppresses proliferation and induces apoptosis of NSCLC cells by sponging microRNA‑422a. Zhong Y, et al. Int J Mol Med, 2021 Feb. PMID 33416153, Free PMC Article
  4. Non-coding RNAs and gastric cancer. Li PF, et al. World J Gastroenterol, 2014 May 14. PMID 24833871, Free PMC Article
  5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LncRNA GACAT1 induces tongue squamous cell carcinoma migration and proliferation via miR-149.
    Title: LncRNA GACAT1 induces tongue squamous cell carcinoma migration and proliferation via miR-149.
  2. GACAT1 long noncoding RNA (AC096655.1-002) expression correlates with clinicopathological features of patients with gastric cancer.
    Title: Decreased expression of long noncoding RNA AC096655.1-002 in gastric cancer and its clinical significance.
Submit: New GeneRIF Correction

Phenotypes

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

Go to the top of the page Help

Other Names

  • gastric cancer associated transcript 1 (non-protein coding)
  • long intergenic non-protein coding RNA 876

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

RNA

  1. NR_126369.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    DB077273, DB096621
    Related
    ENST00000419650.1

  2. NR_126370.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an exon and contains two alternate 3' exons, resulting in a shorter transcript than variant 1.
    Source sequence(s)
    DB096621
    Related
    ENST00000441383.5

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    107754112..107822129
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    108215614..108283657
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases