RFX3-DT

Summary

RFX3-DT (RFX3 divergent transcript, HGNC:51197) is a long non-coding RNA gene on chromosome 9p24.2.

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:51197
Approved symbol	RFX3-DT
Name	RFX3 divergent transcript
Location	9p24.2
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000232104
Ensembl biotype	lncRNA
Entrez	101929302
RNAcentral	URS000075ED37 — lncRNA, 1109 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 60 — 60 lncRNA

ENST00000423112, ENST00000427722, ENST00000430387, ENST00000457566, ENST00000659166, ENST00000691026, ENST00000691391, ENST00000692967, ENST00000700933, ENST00000701201, ENST00000701788, ENST00000701837, ENST00000836006, ENST00000836007, ENST00000836008, ENST00000836009, ENST00000836010, ENST00000836011, ENST00000836012, ENST00000836013, ENST00000836014, ENST00000836015, ENST00000836016, ENST00000836017, ENST00000836018, ENST00000836019, ENST00000836020, ENST00000836021, ENST00000836022, ENST00000836023, ENST00000836024, ENST00000836025, ENST00000836026, ENST00000836027, ENST00000836028, ENST00000836029, ENST00000836030, ENST00000836031, ENST00000836032, ENST00000836033, ENST00000836034, ENST00000836035, ENST00000836036, ENST00000836037, ENST00000836038, ENST00000836039, ENST00000836040, ENST00000836041, ENST00000836042, ENST00000836043, ENST00000836044, ENST00000836045, ENST00000836046, ENST00000836047, ENST00000836048, ENST00000836049, ENST00000836050, ENST00000836051, ENST00000836052, ENST00000836053

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000423112 — 6 exons

Exon	Start	End
ENSE00001595791	3546778	3546912
ENSE00001701488	3602523	3602584
ENSE00001760854	3526723	3526777
ENSE00001775194	3671477	3671634
ENSE00001794845	3568794	3568889
ENSE00001805950	3606693	3606738

Expression profiles

Bgee: expression breadth ubiquitous, 133 present calls, max score 87.75.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 10.1413 / max 254.7645, expressed in 1571 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
95881	6.7769	1464
95882	3.2677	813
95883	0.0967	36

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
corpus callosum	UBERON:0002336	87.75	gold quality
right uterine tube	UBERON:0001302	87.45	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	87.08	gold quality
calcaneal tendon	UBERON:0003701	84.31	gold quality
sural nerve	UBERON:0015488	78.68	gold quality
metanephros cortex	UBERON:0010533	77.34	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	76.89	gold quality
bone marrow cell	CL:0002092	76.40	gold quality
pituitary gland	UBERON:0000007	75.93	gold quality
gastrocnemius	UBERON:0001388	75.82	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	75.80	gold quality
adenohypophysis	UBERON:0002196	75.62	gold quality
muscle of leg	UBERON:0001383	75.58	gold quality
thyroid gland	UBERON:0002046	75.45	gold quality
endometrium	UBERON:0001295	75.32	gold quality
left lobe of thyroid gland	UBERON:0001120	75.14	gold quality
bone marrow	UBERON:0002371	75.08	gold quality
right lobe of thyroid gland	UBERON:0001119	75.01	gold quality
tibial nerve	UBERON:0001323	74.19	gold quality
mucosa of stomach	UBERON:0001199	73.85	gold quality
right testis	UBERON:0004534	73.81	gold quality
testis	UBERON:0000473	73.63	gold quality
substantia nigra	UBERON:0002038	73.59	gold quality
left testis	UBERON:0004533	73.56	gold quality
amygdala	UBERON:0001876	73.28	gold quality
right ovary	UBERON:0002118	73.25	gold quality
temporal lobe	UBERON:0001871	73.05	gold quality
fallopian tube	UBERON:0003889	72.75	gold quality
left ovary	UBERON:0002119	72.44	gold quality
ovary	UBERON:0000992	72.39	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	4.93

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.