HCCAT5

Summary

HCCAT5 (hepatocellular carcinoma associated transcript 5, HGNC:48612) is a long non-coding RNA gene on chromosome 16q22.3.

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:48612
Approved symbol	HCCAT5
Name	hepatocellular carcinoma associated transcript 5
Location	16q22.3
Locus type	RNA, long non-coding
Status	Approved
Aliases	HTA, FJ222407
Ensembl gene	ENSG00000260880
Ensembl biotype	lncRNA
OMIM	615613
Entrez	283902
RNAcentral	URS000075E6F4 — lncRNA, 1114 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 5 — 4 lncRNA, 1 retained_intron

ENST00000569990, ENST00000642127, ENST00000647808, ENST00000659438, ENST00000662824

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000569990 — 3 exons

Exon	Start	End
ENSE00002579254	73092349	73092985
ENSE00002598526	73093081	73093211
ENSE00002628229	73093464	73093774

Expression profiles

Bgee: expression breadth ubiquitous, 121 present calls, max score 83.65.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	83.65	gold quality
popliteal artery	UBERON:0002250	71.45	gold quality
tibial artery	UBERON:0007610	71.41	gold quality
aorta	UBERON:0000947	68.89	gold quality
ganglionic eminence	UBERON:0004023	66.68	gold quality
ascending aorta	UBERON:0001496	65.97	gold quality
thoracic aorta	UBERON:0001515	65.90	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	64.66	gold quality
descending thoracic aorta	UBERON:0002345	64.40	gold quality
left coronary artery	UBERON:0001626	64.07	gold quality
hindlimb stylopod muscle	UBERON:0004252	63.14	gold quality
spinal cord	UBERON:0002240	62.45	gold quality
coronary artery	UBERON:0001621	62.25	gold quality
right coronary artery	UBERON:0001625	59.25	gold quality
cortical plate	UBERON:0005343	58.73	gold quality
endothelial cell	CL:0000115	57.25	gold quality
muscle of leg	UBERON:0001383	55.94	gold quality
gastrocnemius	UBERON:0001388	55.05	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	53.76	gold quality
buccal mucosa cell	CL:0002336	53.75	gold quality
skin of hip	UBERON:0001554	53.41	gold quality
tendon of biceps brachii	UBERON:0008188	53.34	gold quality
vermiform appendix	UBERON:0001154	52.29	gold quality
islet of Langerhans	UBERON:0000006	52.15	gold quality
prefrontal cortex	UBERON:0000451	52.00	gold quality
tendon	UBERON:0000043	51.95	silver quality
calcaneal tendon	UBERON:0003701	51.50	silver quality
olfactory segment of nasal mucosa	UBERON:0005386	51.10	gold quality
monocyte	CL:0000576	50.61	silver quality
right ovary	UBERON:0002118	49.90	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.79

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 2)

• a very good marker for tumors, especially for hepatocellular carcinoma HCC). It could play important roles in HCC development and progression (PMID:20130911)
• study identified full length cDNA sequence of HTA gene and analyzed its alternative splicing form, further elucidating structure of the HTA gene and providing foundations for function studies; overexpression of HTA gene in a hepatic cell line can promote its proliferation rate and colony forming ability (PMID:23314567)

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.