BDNF-AS

Summary

BDNF-AS (BDNF antisense RNA, HGNC:20608) is a long non-coding RNA gene on chromosome 11p14.1.

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:20608
Approved symbol	BDNF-AS
Name	BDNF antisense RNA
Location	11p14.1
Locus type	RNA, long non-coding
Status	Approved
Aliases	BT2A, BT2B, BT2C, BT2D, NCRNA00049, BDNF-AS1, BDNFAS
Ensembl gene	ENSG00000245573
Ensembl biotype	lncRNA
OMIM	611468
Entrez	497258
RNAcentral	URS000075E443 — lncRNA, 2322 nt, 1 organism(s)

Gene structure

Transcript identifiers

Ensembl transcripts: 57 — 56 lncRNA, 1 retained_intron

ENST00000499008, ENST00000499568, ENST00000500662, ENST00000501176, ENST00000501663, ENST00000502161, ENST00000530313, ENST00000530686, ENST00000532965, ENST00000650703, ENST00000650815, ENST00000650855, ENST00000650862, ENST00000650864, ENST00000650880, ENST00000650954, ENST00000651026, ENST00000651103, ENST00000651123, ENST00000651152, ENST00000651193, ENST00000651218, ENST00000651238, ENST00000651252, ENST00000651264, ENST00000651437, ENST00000651518, ENST00000651592, ENST00000651635, ENST00000651707, ENST00000651742, ENST00000651756, ENST00000651796, ENST00000651905, ENST00000651926, ENST00000651944, ENST00000651990, ENST00000651997, ENST00000652063, ENST00000652133, ENST00000652138, ENST00000652172, ENST00000652212, ENST00000652244, ENST00000652325, ENST00000652425, ENST00000652516, ENST00000652574, ENST00000652594, ENST00000652636, ENST00000652663, ENST00000652673, ENST00000652754, ENST00000660080, ENST00000666532, ENST00000715843, ENST00000715844

RefSeq mRNA: 0 — MANE Select: None

Canonical transcript exons

ENST00000499008 — 8 exons

Exon	Start	End
ENSE00001960616	27540020	27540116
ENSE00001961138	27676982	27677805
ENSE00001965598	27675297	27676140
ENSE00001971167	27659171	27659228
ENSE00001972935	27584269	27584337
ENSE00001977826	27639845	27640005
ENSE00001982188	27506852	27506898
ENSE00001991082	27658241	27658462

Expression profiles

Bgee: expression breadth ubiquitous, 165 present calls, max score 87.99.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 4.2833 / max 84.5843, expressed in 1543 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
113550	3.8867	1449
113551	0.3913	200
113555	0.0053	1

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
C1 segment of cervical spinal cord	UBERON:0006469	87.99	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	85.13	gold quality
spinal cord	UBERON:0002240	83.71	gold quality
prefrontal cortex	UBERON:0000451	80.63	gold quality
anterior cingulate cortex	UBERON:0009835	80.61	gold quality
amygdala	UBERON:0001876	80.51	gold quality
putamen	UBERON:0001874	79.60	gold quality
Brodmann (1909) area 9	UBERON:0013540	79.34	gold quality
right frontal lobe	UBERON:0002810	78.98	gold quality
caudate nucleus	UBERON:0001873	78.79	gold quality
nucleus accumbens	UBERON:0001882	78.62	gold quality
hypothalamus	UBERON:0001898	78.57	gold quality
sural nerve	UBERON:0015488	77.54	gold quality
right uterine tube	UBERON:0001302	77.38	gold quality
calcaneal tendon	UBERON:0003701	77.00	gold quality
stromal cell of endometrium	CL:0002255	76.92	gold quality
right adrenal gland cortex	UBERON:0035827	76.87	gold quality
right adrenal gland	UBERON:0001233	76.67	gold quality
islet of Langerhans	UBERON:0000006	76.05	gold quality
left adrenal gland	UBERON:0001234	76.03	gold quality
left adrenal gland cortex	UBERON:0035825	75.79	gold quality
substantia nigra	UBERON:0002038	75.08	gold quality
tibial nerve	UBERON:0001323	74.68	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	74.19	gold quality
bone marrow cell	CL:0002092	74.00	gold quality
adrenal gland	UBERON:0002369	73.84	gold quality
neocortex	UBERON:0001950	73.66	gold quality
adenohypophysis	UBERON:0002196	73.54	gold quality
adrenal cortex	UBERON:0001235	73.53	gold quality
apex of heart	UBERON:0002098	73.42	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	6.54

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): EGR3, SSRP1, TXK

Literature-anchored findings (GeneRIF, showing 12)

• One variant in BDNF-AS was significantly associated with long-term visual memory. (PMID:28304362)
• Study show that high concentrations of D-glucose induced significant apoptosis in human retinal pigment epithelial (RPE) cells in vitro. With treatment of 50 mM D-glucose, BDNF was markedly downregulated whereas BDNF-AS upregulated. Overall, results suggest that BDNF-AS, through inverse regulation of BDNF, might play a critical role in the process of D-glucose-induced apoptosis in diabetic retinopathy. (PMID:28657668)
• Downregulated BDNF-AS in prostate cancer patients could be a potential prognostic biomarker for predicating poor prognosis and survival. (PMID:29710528)
• These results provide evidence on polymorphism of BDNF / BDNFOS gene associated with Lumbar disc herniation risk in Chinese Han population. (PMID:30143695)
• The multivariate analysis suggested low expression of BDNF-AS was an independent unfavorable prognostic factor for overall survival in osteosarcoma patients (PMID:30352834)
• Association of calcium and dairy product consumption with childhood obesity and the presence of a Brain Derived Neurotropic Factor-Antisense (BDNF-AS) polymorphism. (PMID:30501916)
• Upregulation of BDNF-AS is associated with a significant decrease in BDNF expression and increased recruitment of EZH2. The results suggest an important role for BDNF-AS in the regulation of synaptic plasticity via epigenetic reprogramming in the amygdala of alcohol use disorders subjects who began drinking during adolescence. (PMID:30728347)
• effect of lncRNA BDNF-AS in colorectal cancer (CRC) and revealed that lncRNA BDNF-AS expression is negatively correlated with the aggressive biological behaviour of CRC; further investigation demonstrated that lncRNA BDNF-AS functioned as a tumour suppressor in CRC progression by suppressing GSK-3beta expression through binding to EZH2 and H3K27me3 with the GSK-3beta promoter, shedding light on the diagnosis and therap… (PMID:31062382)
• Blood and tissue levels of lncRNAs in periodontitis. (PMID:32372456)
• WDFY3-AS2, BDNF-AS and AFAP1-AS1 as potential prognostic factors for patients with triple-negative breast tumors (PMID:32401758)
• Expression of BDNF-Associated lncRNAs in Treatment-Resistant Schizophrenia Patients. (PMID:33403596)
• LncRNA BDNF-AS as ceRNA regulates the miR-9-5p/BACE1 pathway affecting neurotoxicity in Alzheimer’s disease. (PMID:34990931)

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.