HCG20

Summary

HCG20 (HLA complex group 20, HGNC:31334) is a long non-coding RNA gene on chromosome 6p21.

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:31334
Approved symbol	HCG20
Name	HLA complex group 20
Location	6p21
Locus type	RNA, long non-coding
Status	Approved
Aliases	AB023051.1, NCRNA00149
Ensembl gene	ENSG00000228022
Ensembl biotype	lncRNA
Entrez	105375013
RNAcentral	URS0000A77672 — lncRNA, 1219 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 5 — 5 lncRNA

ENST00000422944, ENST00000439406, ENST00000656751, ENST00000663861, ENST00000735942

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000422944 — 3 exons

Exon	Start	End
ENSE00001653297	30788691	30788872
ENSE00001698751	30781958	30782126
ENSE00004068853	30791426	30792250

Expression profiles

Bgee: expression breadth ubiquitous, 120 present calls, max score 60.21.

FANTOM5 (CAGE): breadth broad, TPM avg 4.3878 / max 383.2126, expressed in 910 samples.

FANTOM5 promoters (9 alternative TSS)

Promoter ID	TPM avg	Samples expressed
66786	1.4086	578
66799	1.2942	64
66788	0.9302	381
66798	0.2366	72
66797	0.2086	93
66787	0.1567	69
66795	0.0768	27
66794	0.0421	20
66796	0.0339	16

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
hindlimb stylopod muscle	UBERON:0004252	60.21	gold quality
ganglionic eminence	UBERON:0004023	60.17	gold quality
islet of Langerhans	UBERON:0000006	59.71	gold quality
cortical plate	UBERON:0005343	58.97	gold quality
apex of heart	UBERON:0002098	55.28	gold quality
stromal cell of endometrium	CL:0002255	54.90	gold quality
leukocyte	CL:0000738	54.87	gold quality
muscle tissue	UBERON:0002385	54.69	gold quality
monocyte	CL:0000576	54.53	gold quality
prefrontal cortex	UBERON:0000451	53.43	gold quality
duodenum	UBERON:0002114	53.36	gold quality
right adrenal gland cortex	UBERON:0035827	53.08	gold quality
bone marrow	UBERON:0002371	52.83	gold quality
pancreas	UBERON:0001264	52.76	gold quality
blood	UBERON:0000178	52.73	gold quality
right atrium auricular region	UBERON:0006631	52.70	gold quality
liver	UBERON:0002107	52.30	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	52.22	gold quality
heart left ventricle	UBERON:0002084	52.04	gold quality
heart	UBERON:0000948	51.73	gold quality
right adrenal gland	UBERON:0001233	51.28	gold quality
adrenal gland	UBERON:0002369	50.91	gold quality
gall bladder	UBERON:0002110	50.77	gold quality
smooth muscle tissue	UBERON:0001135	50.74	gold quality
left adrenal gland	UBERON:0001234	50.60	gold quality
superior frontal gyrus	UBERON:0002661	50.52	gold quality
primary visual cortex	UBERON:0002436	50.42	gold quality
lymph node	UBERON:0000029	50.36	gold quality
right lobe of liver	UBERON:0001114	50.04	gold quality
placenta	UBERON:0001987	50.03	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.29

Regulation

Is transcription factor: no

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.