LINC00879

Summary

LINC00879 (long intergenic non-protein coding RNA 879, HGNC:48566) is a long non-coding RNA gene on chromosome 3q11.2.

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:48566
Approved symbol	LINC00879
Name	long intergenic non-protein coding RNA 879
Location	3q11.2
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000239589
Ensembl biotype	lncRNA
Entrez	255025
RNAcentral	URS00005BAC5D — lncRNA, 1041 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 51 — 51 lncRNA

ENST00000462219, ENST00000463200, ENST00000466089, ENST00000466560, ENST00000470465, ENST00000651942, ENST00000652877, ENST00000652962, ENST00000654564, ENST00000655052, ENST00000655102, ENST00000655186, ENST00000655395, ENST00000655431, ENST00000655736, ENST00000656113, ENST00000656651, ENST00000657041, ENST00000658118, ENST00000660591, ENST00000660677, ENST00000660887, ENST00000661499, ENST00000662343, ENST00000663893, ENST00000664338, ENST00000664608, ENST00000665152, ENST00000665306, ENST00000665486, ENST00000665609, ENST00000665896, ENST00000666801, ENST00000668435, ENST00000668600, ENST00000668707, ENST00000670450, ENST00000671623, ENST00000812787, ENST00000812788, ENST00000812789, ENST00000812790, ENST00000812791, ENST00000812792, ENST00000812793, ENST00000812794, ENST00000812795, ENST00000812796, ENST00000812797, ENST00000812798, ENST00000812799

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000462219 — 6 exons

Exon	Start	End
ENSE00001873179	94971271	94971354
ENSE00001883820	95138186	95138315
ENSE00001902196	95088158	95088294
ENSE00001934953	95152030	95152323
ENSE00001957618	94980370	94980539
ENSE00003868523	94937981	94938326

Expression profiles

Bgee: expression breadth broad, 64 present calls, max score 85.53.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.0709 / max 27.3032, expressed in 13 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
37486	0.0315	11
37487	0.0247	10
37485	0.0147	9

Top tissues by expression

64 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	85.53	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	75.56	gold quality
bone marrow cell	CL:0002092	74.00	gold quality
testis	UBERON:0000473	72.30	gold quality
right testis	UBERON:0004534	71.40	gold quality
left testis	UBERON:0004533	71.39	gold quality
monocyte	CL:0000576	57.31	gold quality
prefrontal cortex	UBERON:0000451	55.78	gold quality
multicellular organism	UBERON:0000468	55.61	gold quality
urinary bladder	UBERON:0001255	54.48	gold quality
endometrium	UBERON:0001295	54.09	silver quality
placenta	UBERON:0001987	53.18	gold quality
blood	UBERON:0000178	52.41	gold quality
liver	UBERON:0002107	50.88	silver quality
islet of Langerhans	UBERON:0000006	49.62	gold quality
lung	UBERON:0002048	49.36	gold quality
Ammon’s horn	UBERON:0001954	48.81	gold quality
body of stomach	UBERON:0001161	48.22	gold quality
gastrocnemius	UBERON:0001388	46.89	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	46.59	silver quality
caudate nucleus	UBERON:0001873	46.10	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	45.73	gold quality
right lobe of liver	UBERON:0001114	45.17	silver quality
Brodmann (1909) area 9	UBERON:0013540	44.98	gold quality
ovary	UBERON:0000992	44.91	gold quality
hindlimb stylopod muscle	UBERON:0004252	44.77	silver quality
tibial nerve	UBERON:0001323	44.20	gold quality
heart left ventricle	UBERON:0002084	43.94	gold quality
right frontal lobe	UBERON:0002810	43.77	gold quality
lower esophagus muscularis layer	UBERON:0035833	43.65	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.30

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.