GACAT2

Summary

GACAT2 (gastric cancer associated transcript 2, HGNC:50516) is a long non-coding RNA gene on chromosome 18p11.22.

At a glance

• Gene type: non-coding (lncRNA) — no protein product; not a drug target. Variant/disease associations are omitted (they would be positional, from an overlapping protein-coding gene).

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:50516
Approved symbol	GACAT2
Name	gastric cancer associated transcript 2
Location	18p11.22
Locus type	RNA, long non-coding
Status	Approved
Aliases	HMlincRNA717
Ensembl gene	ENSG00000265962
Ensembl biotype	lncRNA
OMIM	616131
Entrez	100287082
RNAcentral	URS000075C3BF — lncRNA, 835 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 2 — 2 lncRNA

ENST00000579368, ENST00000729817

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000579368 — 2 exons

Exon	Start	End
ENSE00002701907	8695856	8696121
ENSE00004057760	8707070	8707721

Expression profiles

Bgee: expression breadth broad, 98 present calls, max score 81.44.

FANTOM5 (CAGE): breadth broad, TPM avg 0.4120 / max 63.3620, expressed in 189 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
171161	0.3493	159
171160	0.0627	23

Top tissues by expression

98 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
cerebellar hemisphere	UBERON:0002245	81.44	gold quality
cerebellar cortex	UBERON:0002129	81.42	gold quality
cerebellum	UBERON:0002037	81.36	gold quality
right hemisphere of cerebellum	UBERON:0014890	80.38	gold quality
colonic epithelium	UBERON:0000397	67.75	silver quality
gall bladder	UBERON:0002110	66.92	gold quality
stromal cell of endometrium	CL:0002255	65.67	gold quality
muscle layer of sigmoid colon	UBERON:0035805	62.73	gold quality
prefrontal cortex	UBERON:0000451	61.43	gold quality
ganglionic eminence	UBERON:0004023	61.38	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	60.22	gold quality
putamen	UBERON:0001874	58.63	gold quality
frontal cortex	UBERON:0001870	58.56	gold quality
pituitary gland	UBERON:0000007	58.48	gold quality
brain	UBERON:0000955	58.47	gold quality
adenohypophysis	UBERON:0002196	58.43	gold quality
endometrium	UBERON:0001295	58.07	gold quality
colon	UBERON:0001155	57.83	gold quality
mucosa of stomach	UBERON:0001199	57.27	gold quality
Brodmann (1909) area 9	UBERON:0013540	56.15	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	55.79	gold quality
intestine	UBERON:0000160	55.65	gold quality
right frontal lobe	UBERON:0002810	55.60	gold quality
endocervix	UBERON:0000458	55.29	gold quality
cerebral cortex	UBERON:0000956	55.13	gold quality
primary visual cortex	UBERON:0002436	54.65	gold quality
smooth muscle tissue	UBERON:0001135	54.26	gold quality
vermiform appendix	UBERON:0001154	54.20	gold quality
lymph node	UBERON:0000029	53.66	gold quality
body of stomach	UBERON:0001161	53.29	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.47

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 2)

• Studies suggest that GACAT2 (long noncoding RNA HMlincRNA717) and GACAT3 (long noncoding RNA AC130710) may play crucial roles in the occurrence, development and diagnosis of gastric carcinoma. (PMID:25077925)
• The present study showed the down-regulation of HMlincRNA717 and its association with tumor progression in human non small cell lung cancer (PMID:25674259)

Cross-species orthologs

0 orthologs

Protein

Non-coding RNA — no protein product; not a drug target.

Function

No curated pathway, Gene-Ontology, or interaction data.

Disease & clinical

No curated disease, variant, or cancer-driver associations.

Drugs & pharmacology

No drug or pharmacology data — not an established drug target.