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Aliases for BDNF Gene

Aliases for BDNF Gene

  • Brain Derived Neurotrophic Factor 2 3 5
  • Neurotrophin 2 3
  • Abrineurin 3 4
  • Brain-Derived Neurotrophic Factor 3
  • ANON2 3
  • BULN2 3

External Ids for BDNF Gene

Previous GeneCards Identifiers for BDNF Gene

  • GC11P029056
  • GC11M028453
  • GC11M027715
  • GC11M027640
  • GC11M027633
  • GC11M027374
  • GC11M027676

Summaries for BDNF Gene

Entrez Gene Summary for BDNF Gene

  • This gene encodes a member of the nerve growth factor family of proteins. Alternative splicing results in multiple transcript variants, at least one of which encodes a preproprotein that is proteolytically processed to generate the mature protein. Binding of this protein to its cognate receptor promotes neuronal survival in the adult brain. Expression of this gene is reduced in Alzheimer's, Parkinson's, and Huntington's disease patients. This gene may play a role in the regulation of the stress response and in the biology of mood disorders. [provided by RefSeq, Nov 2015]

GeneCards Summary for BDNF Gene

BDNF (Brain Derived Neurotrophic Factor) is a Protein Coding gene. Diseases associated with BDNF include Central Hypoventilation Syndrome, Congenital and Anorexia Nervosa. Among its related pathways are Activation of cAMP-Dependent PKA and GPCR Pathway. GO annotations related to this gene include receptor binding and neurotrophin TRKB receptor binding. An important paralog of this gene is NTF3.

UniProtKB/Swiss-Prot for BDNF Gene

  • During development, promotes the survival and differentiation of selected neuronal populations of the peripheral and central nervous systems. Participates in axonal growth, pathfinding and in the modulation of dendritic growth and morphology. Major regulator of synaptic transmission and plasticity at adult synapses in many regions of the CNS. The versatility of BDNF is emphasized by its contribution to a range of adaptive neuronal responses including long-term potentiation (LTP), long-term depression (LTD), certain forms of short-term synaptic plasticity, as well as homeostatic regulation of intrinsic neuronal excitability.

Tocris Summary for BDNF Gene

  • Trk (neurotrophin) receptors are single transmembrane catalytic receptors with intracellular tyrosine kinase activity. Trk receptors are coupled to the Ras, Cdc42/Rac/RhoG, MAPK, PI3K and PLCgamma signaling pathways. Four members of the Trk family have been identified.

Gene Wiki entry for BDNF Gene

No data available for PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for BDNF Gene

Genomics for BDNF Gene

Regulatory Elements for BDNF Gene

Enhancers for BDNF Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH11F028565 1.3 FANTOM5 Ensembl ENCODE 10.1 -844.6 -844561 2.2 GTF2F1 JUN MAX BRCA1 RFX5 POLR2A SMC3 FOS TCF7L2 NFE2L2 BDNF GC11M028547 LOC105376602
GH11F027696 1 ENCODE 11.1 +22.7 22681 6.3 PKNOX1 SIN3A GLIS2 ZNF263 SP3 MIER2 REST SMARCA4 ZNF585B GLIS1 LIN7C BDNF GC11P027695
GH11F028105 1.6 FANTOM5 ENCODE 5.9 -386.6 -386551 6.2 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ZFP64 ARID4B SIN3A DMAP1 ZNF2 LINC00678 ENSG00000255094 CBX3P1 RPS25P1 ENSG00000249867 METTL15 BDNF KIF18A GC11M028129
GH11F027717 1.2 FANTOM5 ENCODE 6.6 +3.3 3349 2.0 TBP PKNOX1 SIN3A GLIS2 EGR2 CEBPB REST ZEB2 ZNF341 GLIS1 LIN7C BDNF GC11P027695
GH11F027753 0.6 ENCODE 11 -32.3 -32318 1.3 ZFHX2 GLIS1 KDM1A TCF7L2 NFE2L2 EGR2 BDNF GC11M027756 GC11M027711
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around BDNF on UCSC Golden Path with GeneCards custom track

Promoters for BDNF Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001569180 -642 601 ZNF76 ZIC2 ZFHX2 GLIS2 POLR2A PATZ1 SCRT2 ZNF600 ZBTB20 EZH2

Genomic Location for BDNF Gene

Chromosome:
11
Start:
27,654,893 bp from pter
End:
27,722,058 bp from pter
Size:
67,166 bases
Orientation:
Minus strand

Genomic View for BDNF Gene

Genes around BDNF on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
BDNF Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for BDNF Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for BDNF Gene

Proteins for BDNF Gene

  • Protein details for BDNF Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P23560-BDNF_HUMAN
    Recommended name:
    Brain-derived neurotrophic factor
    Protein Accession:
    P23560
    Secondary Accessions:
    • A7LA85
    • A7LA92
    • D3DQZ2
    • Q598Q1
    • Q6DN19
    • Q6YNR2
    • Q6YNR3
    • Q9BYY7
    • Q9UC24

    Protein attributes for BDNF Gene

    Size:
    247 amino acids
    Molecular mass:
    27818 Da
    Quaternary structure:
    • Monomers and homodimers. Binds to NTRK2/TRKB.

    Three dimensional structures from OCA and Proteopedia for BDNF Gene

    Alternative splice isoforms for BDNF Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for BDNF Gene

Post-translational modifications for BDNF Gene

Antibody Products

  • Abcam antibodies for BDNF

No data available for DME Specific Peptides for BDNF Gene

Domains & Families for BDNF Gene

Gene Families for BDNF Gene

Graphical View of Domain Structure for InterPro Entry

P23560

UniProtKB/Swiss-Prot:

BDNF_HUMAN :
  • Belongs to the NGF-beta family.
Family:
  • Belongs to the NGF-beta family.
genes like me logo Genes that share domains with BDNF: view

Function for BDNF Gene

Molecular function for BDNF Gene

GENATLAS Biochemistry:
brain-derived neurotrophic factor (neurotrophin 2) ligand for NTRK2 (TRKB),expressed in retina and the anterior segment of the developing eye
UniProtKB/Swiss-Prot Function:
During development, promotes the survival and differentiation of selected neuronal populations of the peripheral and central nervous systems. Participates in axonal growth, pathfinding and in the modulation of dendritic growth and morphology. Major regulator of synaptic transmission and plasticity at adult synapses in many regions of the CNS. The versatility of BDNF is emphasized by its contribution to a range of adaptive neuronal responses including long-term potentiation (LTP), long-term depression (LTD), certain forms of short-term synaptic plasticity, as well as homeostatic regulation of intrinsic neuronal excitability.

LifeMap Function Summary for BDNF Gene

BDNF as growth factor is involved in stem cell differentiation protocols towards the derivation of the following cells:

Gene Ontology (GO) - Molecular Function for BDNF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005169 neurotrophin TRKB receptor binding IBA --
GO:0008083 growth factor activity IEA --
genes like me logo Genes that share ontologies with BDNF: view
genes like me logo Genes that share phenotypes with BDNF: view

Human Phenotype Ontology for BDNF Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for BDNF Gene

MGI Knock Outs for BDNF:

Animal Model Products

Clone Products

  • Addgene plasmids for BDNF

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for BDNF Gene

Localization for BDNF Gene

Subcellular locations from UniProtKB/Swiss-Prot for BDNF Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for BDNF gene
Compartment Confidence
extracellular 5
mitochondrion 5
nucleus 5
plasma membrane 3
cytoskeleton 3
endoplasmic reticulum 2
cytosol 2
endosome 2
lysosome 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for BDNF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IBA --
GO:0005737 cytoplasm ISS --
GO:0048471 perinuclear region of cytoplasm ISS --
genes like me logo Genes that share ontologies with BDNF: view

Pathways & Interactions for BDNF Gene

genes like me logo Genes that share pathways with BDNF: view

SIGNOR curated interactions for BDNF Gene

Activates:

Gene Ontology (GO) - Biological Process for BDNF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007267 cell-cell signaling IBA --
GO:0007399 nervous system development TAS 2236018
GO:0007411 axon guidance TAS 19036963
GO:0007416 synapse assembly IDA 19036963
GO:0010832 negative regulation of myotube differentiation ISS --
genes like me logo Genes that share ontologies with BDNF: view

Drugs & Compounds for BDNF Gene

(178) Drugs for BDNF Gene - From: DrugBank, PharmGKB, ClinicalTrials, ApexBio, Tocris, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Citalopram Approved Pharma 503
Dopamine Approved Pharma Full agonist, Agonist 3759
Escitalopram Approved, Investigational Pharma 0
Ethanol Approved Pharma 2043
Fluoxetine Approved, Vet_approved Pharma Channel blocker 235

(56) Additional Compounds for BDNF Gene - From: Novoseek and Tocris

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
HIOC
314054-36-9

(5) Tocris Compounds for BDNF Gene

Compound Action Cas Number
ANA 12 TrkB receptor antagonist 219766-25-3
BDNF (human) Activates TrkB and p75 receptors 218441-99-7
Cyclotraxin B TrkB receptor antagonist 1203586-72-4
HIOC Selective TrkB receptor agonist; neuroprotectant 314054-36-9
LM 22A4 Potent TrkB agonist 37988-18-4

(1) ApexBio Compounds for BDNF Gene

Compound Action Cas Number
3-Nitropropionic acid 504-88-1
genes like me logo Genes that share compounds with BDNF: view

Transcripts for BDNF Gene

mRNA/cDNA for BDNF Gene

(19) REFSEQ mRNAs :
(43) Additional mRNA sequences :
(6) Selected AceView cDNA sequences:
(19) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for BDNF Gene

Brain-derived neurotrophic factor:
Representative Sequences:

Clone Products

  • Addgene plasmids for BDNF

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for BDNF Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8a · 8b · 8c · 8d · 8e
SP1: - - - -
SP2: - - -
SP3: - -
SP4: -
SP5: - - - - - - - - -
SP6: - - - - - - - -
SP7: - - - - - - -
SP8: - - - - - -
SP9: - - - - -
SP10:

Relevant External Links for BDNF Gene

GeneLoc Exon Structure for
BDNF
ECgene alternative splicing isoforms for
BDNF

Expression for BDNF Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for BDNF Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for BDNF Gene

This gene is overexpressed in Brain - Cerebellar Hemisphere (x4.1).

Protein differential expression in normal tissues from HIPED for BDNF Gene

This gene is overexpressed in Platelet (41.3) and Peripheral blood mononuclear cells (27.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for BDNF Gene



Protein tissue co-expression partners for BDNF Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of BDNF Gene:

BDNF

SOURCE GeneReport for Unigene cluster for BDNF Gene:

Hs.502182

mRNA Expression by UniProt/SwissProt for BDNF Gene:

P23560-BDNF_HUMAN
Tissue specificity: Brain. Highly expressed in hippocampus, amygdala, cerebral cortex and cerebellum. Also expressed in heart, lung, skeletal muscle, testis, prostate and placenta.
genes like me logo Genes that share expression patterns with BDNF: view

Orthologs for BDNF Gene

This gene was present in the common ancestor of chordates.

Orthologs for BDNF Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia BDNF 34 35
  • 99.46 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia BDNF 35
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia BDNF 34 35
  • 93.66 (n)
mouse
(Mus musculus)
Mammalia Bdnf 34 16 35
  • 92.26 (n)
rat
(Rattus norvegicus)
Mammalia Bdnf 34
  • 92.26 (n)
cow
(Bos Taurus)
Mammalia BDNF 34 35
  • 92.17 (n)
oppossum
(Monodelphis domestica)
Mammalia BDNF 35
  • 87 (a)
OneToOne
chicken
(Gallus gallus)
Aves BDNF 34 35
  • 85.91 (n)
lizard
(Anolis carolinensis)
Reptilia BDNF 35
  • 87 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia bdnf 34
  • 82.65 (n)
African clawed frog
(Xenopus laevis)
Amphibia bdnf-A 34
zebrafish
(Danio rerio)
Actinopterygii bdnf 34 35
  • 76.39 (n)
Species where no ortholog for BDNF was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for BDNF Gene

ENSEMBL:
Gene Tree for BDNF (if available)
TreeFam:
Gene Tree for BDNF (if available)

Paralogs for BDNF Gene

Paralogs for BDNF Gene

(5) SIMAP similar genes for BDNF Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with BDNF: view

Variants for BDNF Gene

Sequence variations from dbSNP and Humsavar for BDNF Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs8192466 Congenital central hypoventilation syndrome (CCHS) [MIM:209880], Pathogenic 27,658,560(-) GATGA(C/T)CATCC intron-variant, reference, missense
rs2353512 Benign 27,658,115(-) ACGGC(A/G)GCAGA intron-variant, reference, synonymous-codon
rs66866077 Benign 27,699,390(-) GGGAA(A/G)AGGAA intron-variant, reference, missense
rs6265 other 27,658,369(-) AACAC(A/G)TGATA nc-transcript-variant, reference, missense
rs1013402 -- 27,690,834(-) TTTTA(C/T)AAATT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for BDNF Gene

Variant ID Type Subtype PubMed ID
nsv951324 CNV deletion 24416366
nsv832095 CNV gain 17160897
nsv819223 CNV gain 19587683
nsv474533 CNV novel sequence insertion 20440878
nsv1070945 CNV deletion 25765185
nsv1070019 CNV deletion 25765185

Variation tolerance for BDNF Gene

Residual Variation Intolerance Score: 39.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.79; 86.77% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for BDNF Gene

Human Gene Mutation Database (HGMD)
BDNF
SNPedia medical, phenotypic, and genealogical associations of SNPs for
BDNF

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for BDNF Gene

Disorders for BDNF Gene

MalaCards: The human disease database

(78) MalaCards diseases for BDNF Gene - From: OMIM, ClinVar, GeneTests, Orphanet, Swiss-Prot, DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
central hypoventilation syndrome, congenital
  • central hypoventilation syndrome, congenital, with or without hirschsprung disease
anorexia nervosa
  • anorexia nervosa 2
bulimia nervosa, age of onset of weight loss in
  • bulimia nervosa 1
obsessive-compulsive disorder
  • obsessive-compulsive disorder, protection against
bipolar disorder
  • bipolar depression
- elite association - COSMIC cancer census association via MalaCards
Search BDNF in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

BDNF_HUMAN
  • Bulimia nervosa 2 (BULN2) [MIM:610269]: A psychiatric disorder characterized by eating an unusually large amount of food in a short period of time, followed by inappropriate acts (purging) to avert weight gain. Compensatory behavior includes self-induced vomiting, laxative abuse, and excessive exercise. {ECO:0000269 PubMed:15115760}. Note=Disease susceptibility is associated with variations affecting the gene represented in this entry.
  • Congenital central hypoventilation syndrome (CCHS) [MIM:209880]: Rare disorder characterized by abnormal control of respiration in the absence of neuromuscular or lung disease, or an identifiable brain stem lesion. A deficiency in autonomic control of respiration results in inadequate or negligible ventilatory and arousal responses to hypercapnia and hypoxemia. {ECO:0000269 PubMed:11840487}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for BDNF

Genetic Association Database (GAD)
BDNF
Human Genome Epidemiology (HuGE) Navigator
BDNF
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
BDNF
genes like me logo Genes that share disorders with BDNF: view

No data available for Genatlas for BDNF Gene

Publications for BDNF Gene

  1. Brain-derived neurotrophic factor and obesity in the WAGR syndrome. (PMID: 18753648) Han J.C. … Yanovski J.A. (N. Engl. J. Med. 2008) 3 4 22 46 64
  2. Met carriers of BDNF Val66Met genotype show increased N-acetylaspartate concentration in the anterior cingulate cortex. (PMID: 19683059) Gallinat J. … Lang U.E. (Neuroimage 2010) 3 22 46 64
  3. The effect of depression, BDNF gene val66met polymorphism and gender on serum BDNF levels. (PMID: 19589373) Ozan E. … Akarsu N. (Brain Res. Bull. 2010) 3 22 46 64
  4. Brain-derived neurotrophic factor ( BDNF) gene: no major impact on antidepressant treatment response. (PMID: 19236730) Domschke K. … Baune B.T. (Int. J. Neuropsychopharmacol. 2010) 3 22 46 64
  5. BDNF val66met influences time to onset of levodopa induced dyskinesia in Parkinson's disease. (PMID: 18977816) Foltynie T. … Bhatia K.P. (J. Neurol. Neurosurg. Psychiatr. 2009) 3 22 46 64

Products for BDNF Gene

  • Addgene plasmids for BDNF

Sources for BDNF Gene

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