HLCS-IT1

Summary

HLCS-IT1 (HLCS intronic transcript 1, HGNC:41343) is a long non-coding RNA gene on chromosome 21q22.13.

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:41343
Approved symbol	HLCS-IT1
Name	HLCS intronic transcript 1
Location	21q22.13
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000237646
Ensembl biotype	lncRNA
Entrez	100874294
RNAcentral	URS00005E7179 — lncRNA, 531 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 lncRNA

ENST00000434195

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000434195 — 2 exons

Exon	Start	End
ENSE00001642518	36806036	36806284
ENSE00001721890	36803984	36804265

Expression profiles

Bgee: expression breadth ubiquitous, 118 present calls, max score 80.91.

Top tissues by expression

118 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	80.91	silver quality
corpus callosum	UBERON:0002336	70.64	gold quality
skeletal muscle tissue	UBERON:0001134	68.83	silver quality
colonic epithelium	UBERON:0000397	67.39	silver quality
bone marrow cell	CL:0002092	66.53	silver quality
sural nerve	UBERON:0015488	65.30	silver quality
tonsil	UBERON:0002372	64.55	silver quality
hindlimb stylopod muscle	UBERON:0004252	62.12	gold quality
stromal cell of endometrium	CL:0002255	60.69	gold quality
liver	UBERON:0002107	59.30	gold quality
bone marrow	UBERON:0002371	57.67	gold quality
calcaneal tendon	UBERON:0003701	57.39	gold quality
lymph node	UBERON:0000029	57.22	gold quality
right lobe of liver	UBERON:0001114	56.91	gold quality
urinary bladder	UBERON:0001255	56.88	gold quality
monocyte	CL:0000576	56.34	gold quality
lower esophagus mucosa	UBERON:0035834	55.19	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	54.17	gold quality
islet of Langerhans	UBERON:0000006	54.06	gold quality
blood	UBERON:0000178	53.40	gold quality
prefrontal cortex	UBERON:0000451	53.30	gold quality
granulocyte	CL:0000094	52.77	gold quality
descending thoracic aorta	UBERON:0002345	52.43	gold quality
adrenal tissue	UBERON:0018303	51.81	gold quality
superior frontal gyrus	UBERON:0002661	51.73	gold quality
right adrenal gland cortex	UBERON:0035827	51.52	gold quality
mucosa of transverse colon	UBERON:0004991	51.26	gold quality
gall bladder	UBERON:0002110	50.92	gold quality
primary visual cortex	UBERON:0002436	50.77	silver quality
muscle of leg	UBERON:0001383	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	1.12

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.