FLICR

Summary

FLICR (FOXP3 regulating long intergenic non-coding RNA, HGNC:53589) is a long non-coding RNA gene on chromosome Xp11.23.

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:53589
Approved symbol	FLICR
Name	FOXP3 regulating long intergenic non-coding RNA
Location	Xp11.23
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000286181
Ensembl biotype	lncRNA
Entrez	110437700
RNAcentral	URS0000BC43DA — lncRNA, 106 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 2 — 2 lncRNA

ENST00000650666, ENST00000651462

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000650666 — 2 exons

Exon	Start	End
ENSE00003846170	49269221	49269630
ENSE00003847427	49265612	49266298

Expression profiles

Bgee: expression breadth ubiquitous, 111 present calls, max score 80.61.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.1907 / max 85.5716, expressed in 21 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter ID	TPM avg	Samples expressed
199273	0.0626	14
199271	0.0619	16
199274	0.0358	6
199272	0.0304	11

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	80.61	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	72.97	silver quality
colonic epithelium	UBERON:0000397	71.49	silver quality
leukocyte	CL:0000738	62.68	gold quality
ganglionic eminence	UBERON:0004023	57.58	gold quality
liver	UBERON:0002107	56.33	gold quality
prefrontal cortex	UBERON:0000451	54.49	gold quality
skeletal muscle tissue	UBERON:0001134	53.94	silver quality
lower esophagus mucosa	UBERON:0035834	53.64	gold quality
lymph node	UBERON:0000029	52.78	gold quality
urinary bladder	UBERON:0001255	52.55	gold quality
vermiform appendix	UBERON:0001154	51.93	gold quality
right lobe of liver	UBERON:0001114	51.60	gold quality
islet of Langerhans	UBERON:0000006	51.54	gold quality
myometrium	UBERON:0001296	51.19	gold quality
blood	UBERON:0000178	50.54	silver quality
bone marrow	UBERON:0002371	50.13	silver quality
frontal cortex	UBERON:0001870	49.89	gold quality
tonsil	UBERON:0002372	49.89	gold quality
duodenum	UBERON:0002114	48.86	gold quality
cerebellum	UBERON:0002037	48.04	silver quality
cerebellar cortex	UBERON:0002129	48.04	silver quality
cerebellar hemisphere	UBERON:0002245	47.98	silver quality
muscle of leg	UBERON:0001383	47.61	silver quality
gall bladder	UBERON:0002110	47.57	gold quality
cerebral cortex	UBERON:0000956	47.01	gold quality
right hemisphere of cerebellum	UBERON:0014890	47.00	silver quality
right adrenal gland cortex	UBERON:0035827	46.65	gold quality
placenta	UBERON:0001987	46.62	gold quality
primary visual cortex	UBERON:0002436	46.52	silver quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.93

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 1)

• Flicr, a long noncoding RNA, modulates Foxp3 expression and autoimmunity. (PMID:28396406)

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.