HNF4A-AS1

Summary

HNF4A-AS1 (HNF4A antisense RNA 1, HGNC:49505) is a long non-coding RNA gene on chromosome 20q13.12.

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:49505
Approved symbol	HNF4A-AS1
Name	HNF4A antisense RNA 1
Location	20q13.12
Locus type	RNA, long non-coding
Status	Approved
Aliases	uc002xlx
Ensembl gene	ENSG00000229005
Ensembl biotype	lncRNA
Entrez	101927219
RNAcentral	URS000075BF53 — lncRNA, 672 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 9 — 9 lncRNA

ENST00000452481, ENST00000455642, ENST00000609152, ENST00000716857, ENST00000735374, ENST00000735375, ENST00000735376, ENST00000735377, ENST00000735378

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000452481 — 4 exons

Exon	Start	End
ENSE00001609123	44377743	44377884
ENSE00001656388	44384523	44384672
ENSE00001681743	44392009	44392110
ENSE00004030902	44395453	44395706

Expression profiles

Bgee: expression breadth broad, 94 present calls, max score 91.95.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.9182 / max 298.4879, expressed in 49 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
187337	0.9182	49

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
right lobe of liver	UBERON:0001114	91.95	gold quality
liver	UBERON:0002107	77.71	gold quality
small intestine Peyer’s patch	UBERON:0003454	76.75	gold quality
small intestine	UBERON:0002108	76.43	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	76.17	gold quality
colonic epithelium	UBERON:0000397	75.70	gold quality
adult mammalian kidney	UBERON:0000082	73.35	gold quality
duodenum	UBERON:0002114	69.87	gold quality
metanephros cortex	UBERON:0010533	66.54	gold quality
jejunal mucosa	UBERON:0000399	66.45	gold quality
bone marrow cell	CL:0002092	66.25	silver quality
kidney	UBERON:0002113	63.50	gold quality
cortex of kidney	UBERON:0001225	62.90	gold quality
hindlimb stylopod muscle	UBERON:0004252	59.78	gold quality
intestine	UBERON:0000160	59.39	gold quality
monocyte	CL:0000576	56.01	gold quality
jejunum	UBERON:0002115	54.65	silver quality
lower lobe of lung	UBERON:0008949	54.50	silver quality
islet of Langerhans	UBERON:0000006	54.25	gold quality
gall bladder	UBERON:0002110	54.23	gold quality
sural nerve	UBERON:0015488	52.56	silver quality
cerebellar vermis	UBERON:0004720	52.41	gold quality
metanephros	UBERON:0000081	51.97	gold quality
adrenal tissue	UBERON:0018303	51.34	gold quality
pancreas	UBERON:0001264	49.84	gold quality
colon	UBERON:0001155	49.73	gold quality
muscle of leg	UBERON:0001383	49.72	gold quality
transverse colon	UBERON:0001157	49.20	gold quality
vermiform appendix	UBERON:0001154	49.15	gold quality
large intestine	UBERON:0000059	49.04	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.62

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 4)

• Co-expression and functional annotation enrichment analyses across several tissues and cell types showed that the upregulated LINC01272 is associated with a myeloid pro-inflammatory signature, whereas the downregulated HNF4A-AS1 exhibits association with an epithelial metabolic signature. The study identified significant correlations between LINC01272 and HNF4A-AS1 expression and more severe mucosal injury. (PMID:29361088)
• Study identified two lncRNAs, HNF1A-AS1 and HNF4A-AS1, which were able to affect susceptibility of acetaminophen (APAP)-induced liver injury in HepaRG cells, possibly through regulating the expression of APAP-metabolizing cytochrome P450 enzymes. This discovery added new factors, lncRNAs, which can be used to predict cytochrome P450-mediated drug metabolism and drug-induced toxicity. (PMID:32029527)
• HNF4A-AS1-encoded small peptide promotes self-renewal and aggressiveness of neuroblastoma stem cells via eEF1A1-repressed SMAD4 transactivation. (PMID:35318442)
• HNF4A-AS1 inhibits the progression of hepatocellular carcinoma by promoting the ubiquitin-modulated degradation of PCBP2 and suppressing the stability of ARG2 mRNA. (PMID:39430249)

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.