CTCF-DT

Summary

CTCF-DT (CTCF divergent transcript, HGNC:55409) is a long non-coding RNA gene on chromosome 16q22.1.

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:55409
Approved symbol	CTCF-DT
Name	CTCF divergent transcript
Location	16q22.1
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000259804
Ensembl biotype	lncRNA
Entrez	107984813
RNAcentral	URS000055E7B3 — lncRNA, 899 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 16 — 16 lncRNA

ENST00000562846, ENST00000565929, ENST00000605277, ENST00000613438, ENST00000621378, ENST00000748474, ENST00000748475, ENST00000748476, ENST00000748477, ENST00000748478, ENST00000748479, ENST00000748480, ENST00000748481, ENST00000748482, ENST00000748483, ENST00000748913

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000562846 — 2 exons

Exon	Start	End
ENSE00004092146	67563295	67563380
ENSE00004092147	67561411	67562031

Expression profiles

Bgee: expression breadth ubiquitous, 150 present calls, max score 85.65.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.3411 / max 45.6813, expressed in 147 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
157798	0.3411	147

Top tissues by expression

238 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	85.65	gold quality
colonic epithelium	UBERON:0000397	69.39	silver quality
ventricular zone	UBERON:0003053	68.20	gold quality
bone marrow cell	CL:0002092	67.92	silver quality
cortical plate	UBERON:0005343	66.08	gold quality
granulocyte	CL:0000094	61.04	gold quality
ganglionic eminence	UBERON:0004023	60.96	gold quality
hindlimb stylopod muscle	UBERON:0004252	59.39	gold quality
thymus	UBERON:0002370	58.21	gold quality
muscle of leg	UBERON:0001383	57.62	gold quality
gastrocnemius	UBERON:0001388	56.71	gold quality
lymph node	UBERON:0000029	56.48	gold quality
cerebellar cortex	UBERON:0002129	56.17	gold quality
cerebellar hemisphere	UBERON:0002245	56.16	gold quality
right hemisphere of cerebellum	UBERON:0014890	56.00	gold quality
vermiform appendix	UBERON:0001154	55.37	gold quality
cerebellum	UBERON:0002037	55.20	gold quality
leukocyte	CL:0000738	55.08	gold quality
right coronary artery	UBERON:0001625	54.70	gold quality
monocyte	CL:0000576	54.24	gold quality
prefrontal cortex	UBERON:0000451	54.11	gold quality
tonsil	UBERON:0002372	53.61	gold quality
right lobe of thyroid gland	UBERON:0001119	52.73	gold quality
Brodmann (1909) area 9	UBERON:0013540	52.69	gold quality
caecum	UBERON:0001153	51.99	gold quality
left ovary	UBERON:0002119	51.88	gold quality
spleen	UBERON:0002106	51.82	gold quality
left lobe of thyroid gland	UBERON:0001120	51.73	gold quality
blood	UBERON:0000178	51.71	gold quality
thyroid gland	UBERON:0002046	51.28	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.28

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.