LINC00639

Summary

LINC00639 (long intergenic non-protein coding RNA 639, HGNC:27502) is a long non-coding RNA gene on chromosome 14q21.1.

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:27502
Approved symbol	LINC00639
Name	long intergenic non-protein coding RNA 639
Location	14q21.1
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000259070
Ensembl biotype	lncRNA
Entrez	283547
RNAcentral	URS000075BA31 — lncRNA, 4320 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 33 — 33 lncRNA

ENST00000553932, ENST00000554732, ENST00000556116, ENST00000557019, ENST00000557440, ENST00000650718, ENST00000653832, ENST00000654295, ENST00000655593, ENST00000658492, ENST00000668589, ENST00000669541, ENST00000670347, ENST00000670844, ENST00000671669, ENST00000701548, ENST00000702408, ENST00000776583, ENST00000776584, ENST00000776585, ENST00000776586, ENST00000776587, ENST00000776588, ENST00000776589, ENST00000776590, ENST00000776591, ENST00000776592, ENST00000776593, ENST00000776594, ENST00000776595, ENST00000776596, ENST00000776597, ENST00000776598

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000553932 — 7 exons

Exon	Start	End
ENSE00002458643	38762102	38762174
ENSE00002469279	38762924	38763045
ENSE00002487893	38835231	38835398
ENSE00002489358	38890741	38890798
ENSE00002495141	38948178	38948273
ENSE00002500782	38749339	38749654
ENSE00002522254	38835542	38839204

Expression profiles

Bgee: expression breadth ubiquitous, 155 present calls, max score 88.76.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.5589 / max 58.0304, expressed in 100 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
143004	0.4696	84
143005	0.0473	24
143002	0.0420	13

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
sural nerve	UBERON:0015488	88.76	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	80.58	gold quality
corpus callosum	UBERON:0002336	77.57	gold quality
spinal cord	UBERON:0002240	76.95	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	73.71	gold quality
colonic epithelium	UBERON:0000397	71.83	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	71.30	gold quality
putamen	UBERON:0001874	70.77	gold quality
apex of heart	UBERON:0002098	69.54	gold quality
bone marrow cell	CL:0002092	69.15	silver quality
amygdala	UBERON:0001876	68.66	gold quality
substantia nigra	UBERON:0002038	67.13	gold quality
prefrontal cortex	UBERON:0000451	66.60	gold quality
tibial nerve	UBERON:0001323	66.48	gold quality
Brodmann (1909) area 9	UBERON:0013540	66.27	gold quality
caudate nucleus	UBERON:0001873	65.96	gold quality
heart left ventricle	UBERON:0002084	65.18	gold quality
cardiac ventricle	UBERON:0002082	64.34	gold quality
hypothalamus	UBERON:0001898	64.25	gold quality
rectum	UBERON:0001052	64.13	gold quality
midbrain	UBERON:0001891	64.01	gold quality
nucleus accumbens	UBERON:0001882	63.46	gold quality
right frontal lobe	UBERON:0002810	63.44	gold quality
Ammon’s horn	UBERON:0001954	62.84	gold quality
ganglionic eminence	UBERON:0004023	62.06	gold quality
heart	UBERON:0000948	61.44	gold quality
anterior cingulate cortex	UBERON:0009835	61.36	gold quality
calcaneal tendon	UBERON:0003701	61.19	gold quality
frontal cortex	UBERON:0001870	61.04	gold quality
hindlimb stylopod muscle	UBERON:0004252	60.94	gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 2.

Experiment	Marker?	Max mean expression
E-MTAB-11268	yes	2777.54
E-ANND-3	yes	4.72

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.