NQO2-AS1

Summary

NQO2-AS1 (NQO2 antisense RNA 1, HGNC:40407) is a long non-coding RNA gene on chromosome 6p25.2.

At a glance

• Gene type: non-coding (lncRNA) — no protein product.
• Sense gene: antisense to NQO2 — the sense gene carries 3 GWAS associations, 45 ChEMBL molecules (the sense gene’s biology, not this transcript’s)
• GTEx eGene: eQTL in 37 tissues, sQTL in 3 (q < 0.05)

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:40407
Approved symbol	NQO2-AS1
Name	NQO2 antisense RNA 1
Location	6p25.2
Locus type	RNA, long non-coding
Status	Approved
Ensembl gene	ENSG00000224846
Ensembl biotype	lncRNA
Entrez	105374888
RNAcentral	URS00026A2453 — lncRNA, 1735 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 8 — 8 lncRNA

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

ENST00000429319, ENST00000456189, ENST00000658240, ENST00000660868, ENST00000665347, ENST00000793652, ENST00000793653, ENST00000793654

RefSeq mRNA: 0

Canonical transcript exons

ENST00000429319 — 2 exons

Exon	Start	End
ENSE00001668902	2989726	2990011
ENSE00001725799	2999013	2999134

Expression profiles

Bgee: expression breadth ubiquitous, 153 present calls, max score 85.04.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.1559 / max 19.6253, expressed in 63 samples.

Highest expression (Bgee): testis, male germ line stem cell (sensu Vertebrata) in testis, primordial germ cell in gonad, adrenal gland cortex, adrenal gland.

Genetic regulation across tissues (GTEx eQTL / sQTL)

NQO2-AS1 is an eGene in GTEx v10 — its expression is genetically regulated (eQTL) in 37 tissues and its splicing (sQTL) in 3 (q < 0.05). Strongest associations first; slope = normalized effect of the lead variant’s alternative allele.

showing 20 of 40 significant tissue × QTL associations:

Tissue	QTL	q-value	Slope	Lead variant
Testis	sqtl	9.6e-151	+1.70	6:2999009:C:T
Testis	eqtl	2.6e-141	+1.08	6:2999009:C:T
Skin Sun Exposed Lower leg	eqtl	2.6e-103	+1.06	6:2999009:C:T
Skin Not Sun Exposed Suprapubic	eqtl	3.9e-90	+1.04	6:2999009:C:T
Artery Tibial	eqtl	4.6e-75	+0.98	6:2999009:C:T
Adipose Subcutaneous	eqtl	1.0e-58	+0.92	6:2999009:C:T
Adrenal Gland	eqtl	2.7e-44	+1.16	6:2999009:C:T
Adipose Visceral Omentum	eqtl	4.5e-44	+0.88	6:2999009:C:T
Artery Aorta	eqtl	2.6e-37	+0.92	6:2999009:C:T
Pituitary	eqtl	1.0e-34	+1.11	6:2999009:C:T
Whole Blood	eqtl	1.2e-33	+0.63	6:2999320:G:A
Thyroid	eqtl	6.3e-31	+0.67	6:2999009:C:T
Heart Atrial Appendage	eqtl	1.1e-30	+0.88	6:2999009:C:T
Adrenal Gland	sqtl	2.6e-29	-1.05	6:2999009:C:T
Nerve Tibial	eqtl	3.2e-29	+0.67	6:2999009:C:T
Esophagus Muscularis	eqtl	1.2e-28	+0.73	6:2999320:G:A
Liver	eqtl	3.9e-28	+1.11	6:2999009:C:T
Breast Mammary Tissue	eqtl	5.7e-26	+0.73	6:2999009:C:T
Brain Hypothalamus	eqtl	3.8e-23	+0.99	6:2999009:C:T
Esophagus Gastroesophageal Junction	eqtl	1.4e-22	+0.87	6:2997310:A:C

FANTOM5 promoters

1 alternative TSS:

Promoter ID	TPM avg	Samples expressed
71444	0.1559	63

Top tissues by expression

showing 100 of 241 tissues by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
left testis	UBERON:0004533	85.04	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	84.45	silver quality
right testis	UBERON:0004534	84.41	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	83.22	gold quality
testis	UBERON:0000473	81.76	gold quality
right adrenal gland cortex	UBERON:0035827	78.93	gold quality
right adrenal gland	UBERON:0001233	78.86	gold quality
left adrenal gland cortex	UBERON:0035825	77.11	gold quality
left adrenal gland	UBERON:0001234	76.49	gold quality
adrenal tissue	UBERON:0018303	75.69	gold quality
adrenal cortex	UBERON:0001235	74.91	gold quality
monocyte	CL:0000576	74.27	gold quality
adrenal gland	UBERON:0002369	74.07	gold quality
leukocyte	CL:0000738	73.83	gold quality
apex of heart	UBERON:0002098	73.68	gold quality
metanephros cortex	UBERON:0010533	67.85	gold quality
bone marrow cell	CL:0002092	66.71	silver quality
lower esophagus mucosa	UBERON:0035834	66.19	gold quality
islet of Langerhans	UBERON:0000006	66.08	gold quality
ganglionic eminence	UBERON:0004023	65.33	gold quality
stromal cell of endometrium	CL:0002255	64.54	gold quality
hindlimb stylopod muscle	UBERON:0004252	64.50	gold quality
right coronary artery	UBERON:0001625	63.80	gold quality
ventricular zone	UBERON:0003053	63.32	gold quality
granulocyte	CL:0000094	62.87	gold quality
adult mammalian kidney	UBERON:0000082	62.41	gold quality
cortex of kidney	UBERON:0001225	60.81	gold quality
cerebellar hemisphere	UBERON:0002245	60.64	gold quality
cerebellar cortex	UBERON:0002129	60.45	gold quality
vermiform appendix	UBERON:0001154	60.43	gold quality
left coronary artery	UBERON:0001626	60.29	gold quality
popliteal artery	UBERON:0002250	60.25	gold quality
tibial artery	UBERON:0007610	60.23	gold quality
secondary oocyte	CL:0000655	59.76	gold quality
pancreas	UBERON:0001264	59.74	gold quality
metanephros	UBERON:0000081	59.72	gold quality
right hemisphere of cerebellum	UBERON:0014890	59.71	gold quality
right lobe of liver	UBERON:0001114	59.29	gold quality
coronary artery	UBERON:0001621	59.25	gold quality
cerebellum	UBERON:0002037	58.93	gold quality
adenohypophysis	UBERON:0002196	58.92	gold quality
aorta	UBERON:0000947	58.86	gold quality
omental fat pad	UBERON:0010414	58.40	gold quality
heart left ventricle	UBERON:0002084	58.37	gold quality
peritoneum	UBERON:0002358	58.35	gold quality
rectum	UBERON:0001052	58.08	gold quality
right atrium auricular region	UBERON:0006631	58.07	gold quality
kidney	UBERON:0002113	57.87	gold quality
cardiac ventricle	UBERON:0002082	57.68	gold quality
cardiac atrium	UBERON:0002081	57.58	gold quality
calcaneal tendon	UBERON:0003701	57.44	gold quality
adipose tissue of abdominal region	UBERON:0007808	57.42	gold quality
heart	UBERON:0000948	57.40	gold quality
descending thoracic aorta	UBERON:0002345	57.33	gold quality
thoracic aorta	UBERON:0001515	57.32	gold quality
ascending aorta	UBERON:0001496	57.17	gold quality
muscle of leg	UBERON:0001383	56.97	gold quality
body of pancreas	UBERON:0001150	56.94	gold quality
spleen	UBERON:0002106	56.88	gold quality
blood	UBERON:0000178	56.71	gold quality
right uterine tube	UBERON:0001302	56.63	gold quality
pituitary gland	UBERON:0000007	56.61	gold quality
gastrocnemius	UBERON:0001388	56.31	gold quality
gall bladder	UBERON:0002110	56.04	gold quality
left lobe of thyroid gland	UBERON:0001120	55.76	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	55.51	gold quality
anterior cingulate cortex	UBERON:0009835	55.43	gold quality
thyroid gland	UBERON:0002046	55.24	gold quality
prefrontal cortex	UBERON:0000451	55.13	gold quality
right frontal lobe	UBERON:0002810	54.76	gold quality
small intestine Peyer’s patch	UBERON:0003454	54.49	gold quality
amygdala	UBERON:0001876	54.48	gold quality
caecum	UBERON:0001153	54.43	gold quality
anatomical system	UBERON:0000467	54.18	gold quality
lymph node	UBERON:0000029	54.05	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	54.04	gold quality
caudate nucleus	UBERON:0001873	54.01	gold quality
right ovary	UBERON:0002118	53.97	gold quality
body of stomach	UBERON:0001161	53.94	gold quality
right lobe of thyroid gland	UBERON:0001119	53.93	gold quality
multicellular organism	UBERON:0000468	53.89	gold quality
material anatomical entity	UBERON:0000465	53.88	gold quality
upper lobe of left lung	UBERON:0008952	53.84	gold quality
small intestine	UBERON:0002108	53.80	gold quality
muscle layer of sigmoid colon	UBERON:0035805	53.79	gold quality
Brodmann (1909) area 9	UBERON:0013540	53.73	gold quality
stomach	UBERON:0000945	53.72	gold quality
tibial nerve	UBERON:0001323	53.60	gold quality
lower esophagus	UBERON:0013473	53.45	gold quality
nucleus accumbens	UBERON:0001882	53.34	gold quality
lower esophagus muscularis layer	UBERON:0035833	53.33	gold quality
esophagus	UBERON:0001043	53.22	gold quality
subcutaneous adipose tissue	UBERON:0002190	53.06	gold quality
mucosa of stomach	UBERON:0001199	52.99	gold quality
esophagus mucosa	UBERON:0002469	52.90	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	52.88	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	52.74	gold quality
upper lobe of lung	UBERON:0008948	52.54	gold quality
hypothalamus	UBERON:0001898	52.37	gold quality
liver	UBERON:0002107	52.29	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.77

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
MIR4645	ncRNA	100616285
LINC01011	ncRNA	401232
SERPINB6	protein-coding	5269
SERPINB9	protein-coding	5272
NQO2	protein-coding	4835
SERPINB9-AS1	ncRNA	101927730

Protein

Non-coding RNA — no protein product.

Function

Gene-set membership (MSigDB)

This non-coding RNA is a member of 9 curated MSigDB gene sets — regulatory-target and signature collections that include it (it has no protein-based pathway / GO / interaction data).

chr6p25, ALKBH3_TARGET_GENES, NAB2_TARGET_GENES, RYBP_TARGET_GENES, SALL4_TARGET_GENES, SAFB2_TARGET_GENES, DESCARTES_MAIN_FETAL_MUC13_DMBT1_POSITIVE_CELLS, ATXN7L3_TARGET_GENES, NR1H4_TARGET_GENES

Disease & clinical

No curated disease, variant, or cancer-driver associations.

Drugs & pharmacology

ncRNA–drug associations

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

2 ncRNA–drug associations:

Drug	Relation	Effect	Condition
Dexamethasone	drug_target	up-regulated	cell line (HepG2)
Panobinostat	drug_target	down-regulated	“cell line (SK-NEP-1, G401)”