CELF2-AS1

Summary

CELF2-AS1 (CELF2 antisense RNA 1, HGNC:23515) is a long non-coding RNA gene on chromosome 10p14.

Predicted to be located in extracellular region.

Source: NCBI Gene 414196 — automated summary from GO annotations (Alliance of Genome Resources).

At a glance

• Gene type: non-coding (lncRNA) — no protein product.
• Sense gene: antisense to CELF2 — the sense gene carries 32 GWAS associations, 144 ClinVar variants (the sense gene’s biology, not this transcript’s)
• GTEx eGene: eQTL in 4 tissues, sQTL in 1 (q < 0.05)

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:23515
Approved symbol	CELF2-AS1
Name	CELF2 antisense RNA 1
Location	10p14
Locus type	RNA, long non-coding
Status	Approved
Aliases	FLJ40494, Em:AC026887.2
Ensembl gene	ENSG00000181800
Ensembl biotype	lncRNA
Entrez	414196

Gene structure

Transcript identifiers

Ensembl transcripts: 9 — 9 lncRNA

Transcript support level (Ensembl TSL; 1 = fully mRNA-supported): TSL 2: 1

ENST00000379256, ENST00000846152, ENST00000846153, ENST00000846154, ENST00000846155, ENST00000846156, ENST00000846157, ENST00000846158, ENST00000846159

RefSeq mRNA: 0

Canonical transcript exons

ENST00000379256 — 2 exons

Exon	Start	End
ENSE00001216121	11319794	11319884
ENSE00001480284	11316833	11319210

Expression profiles

Bgee: expression breadth ubiquitous, 150 present calls, max score 82.96.

Highest expression (Bgee): bone marrow cell, male germ line stem cell (sensu Vertebrata) in testis, sural nerve, colonic epithelium, cortical plate.

Genetic regulation across tissues (GTEx eQTL / sQTL)

CELF2-AS1 is an eGene in GTEx v10 — its expression is genetically regulated (eQTL) in 4 tissues and its splicing (sQTL) in 1 (q < 0.05). Strongest associations first; slope = normalized effect of the lead variant’s alternative allele.

5 significant tissue × QTL associations:

Tissue	QTL	q-value	Slope	Lead variant
Testis	eqtl	3.8e-40	-0.61	10:11319219:A:T
Testis	sqtl	3.6e-18	+0.76	10:11318710:A:G
Cells Cultured fibroblasts	eqtl	7.5e-05	+0.16	10:10808295:A:G
Cells EBV-transformed lymphocytes	eqtl	3.1e-02	-0.36	10:11018213:G:C
Muscle Skeletal	eqtl	3.7e-02	-0.16	10:11315304:G:A

Top tissues by expression

showing 100 of 240 tissues by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
bone marrow cell	CL:0002092	82.96	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	81.56	silver quality
sural nerve	UBERON:0015488	75.66	gold quality
colonic epithelium	UBERON:0000397	73.23	gold quality
cortical plate	UBERON:0005343	72.12	gold quality
monocyte	CL:0000576	68.99	gold quality
leukocyte	CL:0000738	68.22	gold quality
apex of heart	UBERON:0002098	66.30	gold quality
tibial nerve	UBERON:0001323	66.19	gold quality
right lung	UBERON:0002167	65.70	gold quality
blood	UBERON:0000178	65.03	gold quality
ganglionic eminence	UBERON:0004023	63.94	gold quality
left ovary	UBERON:0002119	63.08	gold quality
vermiform appendix	UBERON:0001154	62.80	gold quality
ventricular zone	UBERON:0003053	61.98	gold quality
right atrium auricular region	UBERON:0006631	61.86	gold quality
upper lobe of left lung	UBERON:0008952	61.41	gold quality
cardiac atrium	UBERON:0002081	61.31	gold quality
right testis	UBERON:0004534	61.24	gold quality
left testis	UBERON:0004533	61.09	gold quality
right ovary	UBERON:0002118	60.47	gold quality
calcaneal tendon	UBERON:0003701	60.42	gold quality
bone marrow	UBERON:0002371	60.08	gold quality
prefrontal cortex	UBERON:0000451	60.04	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	59.64	gold quality
testis	UBERON:0000473	59.59	gold quality
upper lobe of lung	UBERON:0008948	59.56	gold quality
lower esophagus muscularis layer	UBERON:0035833	59.23	gold quality
heart left ventricle	UBERON:0002084	59.22	gold quality
lower esophagus	UBERON:0013473	59.16	gold quality
ovary	UBERON:0000992	59.04	gold quality
heart	UBERON:0000948	58.72	gold quality
granulocyte	CL:0000094	58.71	gold quality
subcutaneous adipose tissue	UBERON:0002190	58.67	gold quality
cardiac ventricle	UBERON:0002082	58.57	gold quality
caecum	UBERON:0001153	57.87	gold quality
muscle of leg	UBERON:0001383	57.63	gold quality
gastrocnemius	UBERON:0001388	57.61	gold quality
lymph node	UBERON:0000029	57.48	gold quality
popliteal artery	UBERON:0002250	57.34	gold quality
tibial artery	UBERON:0007610	57.29	gold quality
hindlimb stylopod muscle	UBERON:0004252	56.94	gold quality
aorta	UBERON:0000947	56.77	gold quality
omental fat pad	UBERON:0010414	56.56	gold quality
peritoneum	UBERON:0002358	56.51	gold quality
corpus callosum	UBERON:0002336	56.47	gold quality
ascending aorta	UBERON:0001496	56.31	gold quality
thoracic aorta	UBERON:0001515	56.24	gold quality
descending thoracic aorta	UBERON:0002345	55.90	gold quality
gall bladder	UBERON:0002110	55.87	gold quality
tonsil	UBERON:0002372	55.84	gold quality
adipose tissue of abdominal region	UBERON:0007808	55.68	gold quality
right frontal lobe	UBERON:0002810	55.42	gold quality
muscle layer of sigmoid colon	UBERON:0035805	55.41	gold quality
right hemisphere of cerebellum	UBERON:0014890	55.09	gold quality
lung	UBERON:0002048	55.00	gold quality
left coronary artery	UBERON:0001626	54.99	gold quality
small intestine Peyer’s patch	UBERON:0003454	54.35	gold quality
body of uterus	UBERON:0009853	54.29	gold quality
coronary artery	UBERON:0001621	53.91	gold quality
adipose tissue	UBERON:0001013	53.81	gold quality
small intestine	UBERON:0002108	53.63	gold quality
frontal cortex	UBERON:0001870	53.43	gold quality
esophagus	UBERON:0001043	53.21	gold quality
pericardium	UBERON:0002407	53.11	gold quality
urinary bladder	UBERON:0001255	53.07	gold quality
anatomical system	UBERON:0000467	53.01	gold quality
rectum	UBERON:0001052	52.82	gold quality
multicellular organism	UBERON:0000468	52.75	gold quality
tendon	UBERON:0000043	52.74	gold quality
material anatomical entity	UBERON:0000465	52.74	gold quality
minor salivary gland	UBERON:0001830	52.55	gold quality
neocortex	UBERON:0001950	52.25	gold quality
skin of leg	UBERON:0001511	52.22	gold quality
intestine	UBERON:0000160	52.16	gold quality
colon	UBERON:0001155	52.13	gold quality
cerebellar cortex	UBERON:0002129	52.12	gold quality
smooth muscle tissue	UBERON:0001135	52.11	gold quality
Brodmann (1909) area 9	UBERON:0013540	52.04	gold quality
cerebellar hemisphere	UBERON:0002245	51.90	gold quality
large intestine	UBERON:0000059	51.73	gold quality
ectocervix	UBERON:0012249	51.72	gold quality
right coronary artery	UBERON:0001625	51.62	gold quality
transverse colon	UBERON:0001157	51.57	gold quality
left uterine tube	UBERON:0001303	51.53	gold quality
cerebellum	UBERON:0002037	51.33	gold quality
mucosa of stomach	UBERON:0001199	50.96	gold quality
mouth mucosa	UBERON:0003729	50.87	gold quality
adrenal tissue	UBERON:0018303	50.86	gold quality
saliva-secreting gland	UBERON:0001044	50.62	gold quality
right uterine tube	UBERON:0001302	50.55	gold quality
primary visual cortex	UBERON:0002436	50.41	gold quality
spleen	UBERON:0002106	50.29	gold quality
female reproductive system	UBERON:0000474	50.04	gold quality
uterine cervix	UBERON:0000002	50.03	gold quality
nucleus accumbens	UBERON:0001882	49.97	gold quality
zone of skin	UBERON:0000014	49.71	gold quality
upper leg skin	UBERON:0004262	49.70	silver quality
endocervix	UBERON:0000458	49.40	gold quality
myometrium	UBERON:0001296	49.40	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.95

Regulation

Is transcription factor: no

Cross-species orthologs

0 orthologs

Genomic neighbors (locus context)

Genes flanking this one on the chromosome (NCBI/Entrez gene neighborhood). Positional context only — some neighbors share regulatory elements (bidirectional promoters, antisense/overlapping transcripts), but chromosomal adjacency is not itself a functional relationship (see Interactions for that).

Symbol	Type	Entrez
CELF2	protein-coding	10659
USP6NL	protein-coding	9712
USP6NL-AS1	ncRNA	107984208
CELF2-DT	ncRNA	101928322
CELF2-AS4	ncRNA	124902376
LINC00710	ncRNA	254312
CELF2-AS2	ncRNA	439950
ECHDC3	protein-coding	79746

Protein

Non-coding RNA — no protein product.

Function

Gene-set membership (MSigDB)

This non-coding RNA is a member of 4 curated MSigDB gene sets — regulatory-target and signature collections that include it (it has no protein-based pathway / GO / interaction data).

ACEVEDO_LIVER_CANCER_WITH_H3K27ME3_UP, chr10p14, FAN_EMBRYONIC_CTX_EX_4_EXCITATORY_NEURON, OSMAN_BLOOD_CHAD63_KH_AGE_18_50YO_HIGH_DOSE_SUBJECTS_24HR_UP

ncRNA interactions

Experimentally supported non-coding-RNA interaction partners (NPInter).

8 interaction partners:

Partner	Partner type	Level	Source
SAFB2	protein	RNA-Protein	ENCODE
MBNL2	protein	RNA-Protein	GSE68890
MOV10	protein	RNA-Protein	GSE70061
RBFOX2	protein	RNA-Protein	GSE78507
EWSR1	protein	RNA-Protein	GSE98836
PDE12	mRNA	RNA-RNA	RISE database
CTD-2272D18.1	lncRNA	RNA-RNA	RISE database
EHF	mRNA	RNA-RNA	RISE database

Disease & clinical

ncRNA disease associations

Curated non-coding-RNA → disease associations (LncRNADisease, HMDD) — these are RNA-level associations for this gene, not the positional variant data omitted above.

1 ncRNA–disease associations:

Disease	Causal?	Validated by
Esophageal Squamous Cell Carcinoma	No	qRT-PCR, RNA-seq

Drugs & pharmacology

ncRNA–drug associations

Curated non-coding-RNA → drug associations (drug response / resistance / target).

1 ncRNA–drug associations:

Drug	Relation	Effect	Condition
Radioactivity Iodine	drug_resistance	sensitive	tissue