LINC01119

Summary

LINC01119 (long intergenic non-protein coding RNA 1119, HGNC:49262) is a long non-coding RNA gene on chromosome 2p21.

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:49262
Approved symbol	LINC01119
Name	long intergenic non-protein coding RNA 1119
Location	2p21
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000239332
Entrez	100134259
RNAcentral	URS000075CEA4 — lncRNA, 1210 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 0

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

None — 0 exons

Expression profiles

Bgee: expression breadth ubiquitous, 160 present calls, max score 84.01.

FANTOM5 (CAGE): breadth broad, TPM avg 0.9749 / max 48.6229, expressed in 230 samples.

FANTOM5 promoters (6 alternative TSS)

Promoter ID	TPM avg	Samples expressed
20113	0.5174	158
20114	0.1808	82
20115	0.1271	65
20118	0.0679	38
202183	0.0655	30
20112	0.0163	3

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
tibialis anterior	UBERON:0001385	84.01	silver quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	75.84	gold quality
placenta	UBERON:0001987	74.91	gold quality
stromal cell of endometrium	CL:0002255	73.76	gold quality
cardiac muscle of right atrium	UBERON:0003379	73.58	gold quality
left ventricle myocardium	UBERON:0006566	72.42	gold quality
mucosa of stomach	UBERON:0001199	72.10	gold quality
hindlimb stylopod muscle	UBERON:0004252	69.12	gold quality
pancreatic ductal cell	CL:0002079	69.04	silver quality
ileal mucosa	UBERON:0000331	67.74	silver quality
deltoid	UBERON:0001476	67.59	silver quality
muscle of leg	UBERON:0001383	67.08	gold quality
gastrocnemius	UBERON:0001388	66.59	gold quality
left adrenal gland	UBERON:0001234	66.58	gold quality
left adrenal gland cortex	UBERON:0035825	66.37	gold quality
right adrenal gland cortex	UBERON:0035827	66.31	gold quality
prefrontal cortex	UBERON:0000451	66.18	gold quality
right adrenal gland	UBERON:0001233	66.05	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	65.82	gold quality
lower esophagus muscularis layer	UBERON:0035833	65.46	gold quality
upper arm skin	UBERON:0004263	65.44	gold quality
lower esophagus	UBERON:0013473	65.42	gold quality
putamen	UBERON:0001874	65.10	gold quality
adrenal cortex	UBERON:0001235	64.54	gold quality
adrenal gland	UBERON:0002369	64.52	gold quality
ventricular zone	UBERON:0003053	64.40	gold quality
nucleus accumbens	UBERON:0001882	64.00	gold quality
muscle layer of sigmoid colon	UBERON:0035805	63.44	gold quality
caudate nucleus	UBERON:0001873	63.33	gold quality
right coronary artery	UBERON:0001625	62.87	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.58

Regulation

Is transcription factor: no

Cross-species orthologs

0 orthologs

Protein

Protein identifiers

Canonical reviewed UniProt: None (reviewed: )

All UniProt accessions (0):

RefSeq proteins (0): (*=MANE)

Domains & families (InterPro)

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 0 (showing top):

GO Biological Process (0):

GO Molecular Function (0):

GO Cellular Component (0):

Protein interactions and networks

STRING

0 interactions, top by confidence (×1000):

IntAct

0 interactions, top by confidence:

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

0 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	0
Likely benign	0
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

0 predictions. Top by Δscore:

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000005361 (2:46849647 C>G,T), RS1000099227 (2:46839392 C>A,G,T), RS1000101751 (2:46833802 G>A), RS1000129360 (2:46852409 C>G), RS1000334503 (2:46857569 G>A), RS1000544786 (2:46848561 G>A,T), RS1000555584 (2:46853311 A>G), RS1000614844 (2:46847435 G>T), RS1000682644 (2:46826012 G>T), RS1000694802 (2:46853097 G>C,T), RS1000699976 (2:46827063 T>A), RS1000854933 (2:46829688 T>C), RS1000962932 (2:46853289 C>T), RS1001057115 (2:46843857 C>A,T), RS1001071675 (2:46858510 C>G,T)

Disease associations

OMIM: gene `` | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

0 associations (top):

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 0 entries

CTD chemical–gene interactions

15 total (human), top 15 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Benzo(a)pyrene	increases methylation, affects methylation	2
aristolochic acid I	increases expression	1
boron nitride	decreases expression	1
sodium arsenite	increases expression	1
benzo(e)pyrene	increases methylation	1
aflatoxin B2	increases methylation	1
(+)-JQ1 compound	decreases expression	1
Doxorubicin	decreases expression	1
Methapyrilene	increases methylation	1
Smoke	decreases expression	1
Valproic Acid	increases methylation	1
Aflatoxin B1	increases methylation	1
Tungsten Compounds	decreases expression	1
Antirheumatic Agents	increases expression	1
Cadmium Chloride	increases expression	1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.