LINC00474

Summary

LINC00474 (long intergenic non-protein coding RNA 474, HGNC:23367) is a long non-coding RNA gene on chromosome 9q33.1.

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:23367
Approved symbol	LINC00474
Name	long intergenic non-protein coding RNA 474
Location	9q33.1
Locus type	RNA, long non-coding
Status	Approved
Aliases	EST-YD1
Ensembl gene	ENSG00000204148
Ensembl biotype	lncRNA
Entrez	58483
RNAcentral	URS0000CCE02B — lncRNA, 787 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 26 — 26 lncRNA

ENST00000374014, ENST00000832533, ENST00000832534, ENST00000832535, ENST00000832536, ENST00000832537, ENST00000832538, ENST00000832539, ENST00000832540, ENST00000832541, ENST00000832542, ENST00000832543, ENST00000832544, ENST00000832545, ENST00000832546, ENST00000832547, ENST00000832548, ENST00000832549, ENST00000832550, ENST00000832551, ENST00000832552, ENST00000832553, ENST00000832554, ENST00000832555, ENST00000832556, ENST00000832557

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000374014 — 3 exons

Exon	Start	End
ENSE00001462164	115904371	115904642
ENSE00004248131	115925023	115925451
ENSE00004248160	115888159	115888480

Expression profiles

Bgee: expression breadth broad, 18 present calls, max score 82.55.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.0919 / max 74.7144, expressed in 7 samples.

FANTOM5 promoters (6 alternative TSS)

Promoter ID	TPM avg	Samples expressed
102237	0.0316	3
102238	0.0231	4
102236	0.0182	5
102239	0.0127	4
102241	0.0048	3
102240	0.0014	1

Top tissues by expression

214 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	82.55	gold quality
buccal mucosa cell	CL:0002336	73.56	gold quality
placenta	UBERON:0001987	72.01	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	69.68	gold quality
ileal mucosa	UBERON:0000331	56.89	silver quality
tibialis anterior	UBERON:0001385	55.87	silver quality
cingulate cortex	UBERON:0003027	54.64	gold quality
anterior cingulate cortex	UBERON:0009835	54.03	gold quality
cranial nerve II	UBERON:0000941	53.47	silver quality
male germ cell	CL:0000015	52.79	gold quality
sperm	CL:0000019	52.71	gold quality
uterine cervix	UBERON:0000002	50.81	gold quality
mucosa of urinary bladder	UBERON:0001259	50.31	gold quality
metanephros	UBERON:0000081	50.29	gold quality
cardiac atrium	UBERON:0002081	50.04	gold quality
deltoid	UBERON:0001476	49.96	gold quality
cortex of kidney	UBERON:0001225	49.70	gold quality
bone marrow cell	CL:0002092	49.58	gold quality
quadriceps femoris	UBERON:0001377	49.58	gold quality
monocyte	CL:0000576	49.44	silver quality
mononuclear cell	CL:0000842	49.40	silver quality
Brodmann (1909) area 46	UBERON:0006483	49.30	gold quality
blood vessel layer	UBERON:0004797	49.29	gold quality
pancreas	UBERON:0001264	49.23	gold quality
thymus	UBERON:0002370	49.22	gold quality
cervix squamous epithelium	UBERON:0006922	49.20	gold quality
hair follicle	UBERON:0002073	49.18	gold quality
smooth muscle tissue	UBERON:0001135	49.10	gold quality
muscle tissue	UBERON:0002385	49.03	gold quality
female reproductive system	UBERON:0000474	49.00	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.47

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.