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Aliases for BDNF Gene

Aliases for BDNF Gene

  • Brain-Derived Neurotrophic Factor 2 3
  • Neurotrophin 2 3
  • Abrineurin 3 4
  • ANON2 3 6
  • BULN2 3 6

External Ids for BDNF Gene

Summaries for BDNF Gene

Entrez Gene Summary for BDNF Gene

  • The protein encoded by this gene is a member of the nerve growth factor family. It is induced by cortical neurons, and is necessary for survival of striatal neurons in the brain. Expression of this gene is reduced in both Alzheimer's and Huntington disease patients. This gene may play a role in the regulation of stress response and in the biology of mood disorders. Multiple transcript variants encoding distinct isoforms have been described for this gene. [provided by RefSeq, Jan 2009]

GeneCards Summary for BDNF Gene

BDNF (Brain-Derived Neurotrophic Factor) is a Protein Coding gene. Diseases associated with BDNF include reversible cerebral vasoconstriction syndrome and cannabis abuse. Among its related pathways are MAPK signaling pathway and NF-KappaB Family Pathway. GO annotations related to this gene include growth factor activity 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, PI 3-K and PLCgamma signaling pathways. There are four members of the Trk family; TrkA, TrkB and TrkC and a related p75NTR receptor. p75NTR lacks tyrosine kinase activity and signals via NF-kappaB activation. Each family member binds different neurotrophins with varying affinities. TrkA potently binds nerve growth factor (NGF) and is involved in differentiation and survival of neurons and in control of gene expression of enzymes involved in neurotransmitter synthesis. TrkB has highest affinity for brain-derived neurotrophic factor (BDNF) and is involved in neuronal plasticity, longterm potentiation and apoptosis of CNS neurons. TrkC is activated by neurotrophin-3 (NT-3) and is found on proprioceptive sensory neurons. p75NTR binds neurotrophin precursors with high affinity and retains low affinity to the mature cleaved forms. TrkA was originally identified as an oncogene as it is commonly mutated in cancers, particularly colon and thyroid carcinomas.

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

Genomic Location for BDNF Gene

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

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for BDNF Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for BDNF Gene

Regulatory Elements for BDNF Gene

Transcription factor binding sites by QIAGEN in the BDNF gene promoter:

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

Proteomics data for BDNF Gene at MOPED

Post-translational modifications for BDNF Gene

No data available for DME Specific Peptides for BDNF Gene

Domains for BDNF Gene

Gene Families for BDNF Gene

HGNC:

UniProtKB/Swiss-Prot:

BDNF_HUMAN
Family:
  • Belongs to the NGF-beta family.:
    • P23560
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

It affects the following cells:
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:0005102 receptor binding --
GO:0005169 neurotrophin TRKB receptor binding IBA --
GO:0005515 protein binding --
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

Animal Models for BDNF Gene

MGI Knock Outs for BDNF:

miRNA for BDNF Gene

miRTarBase miRNAs that target BDNF

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

Localization for BDNF Gene

Subcellular locations from UniProtKB/Swiss-Prot for BDNF Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for BDNF Gene COMPARTMENTS Subcellular localization image for BDNF gene
Compartment Confidence
extracellular 5
cytoskeleton 3
nucleus 3
endoplasmic reticulum 2
mitochondrion 2
plasma membrane 2
cytosol 1
endosome 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:0005615 extracellular space IEA --
GO:0005737 cytoplasm ISS --
GO:0008021 synaptic vesicle IEA --
GO:0016023 cytoplasmic membrane-bounded vesicle IBA --
genes like me logo Genes that share ontologies with BDNF: view

Pathways for BDNF Gene

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

Gene Ontology (GO) - Biological Process for BDNF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001657 ureteric bud development IEA --
GO:0001662 behavioral fear response IEA --
GO:0001666 response to hypoxia IEA --
GO:0002544 chronic inflammatory response IEA --
GO:0006120 mitochondrial electron transport, NADH to ubiquinone IEA --
genes like me logo Genes that share ontologies with BDNF: view

Compounds for BDNF Gene

(5) Tocris Compounds for BDNF Gene

Compound Action Cas Number
7,8-Dihydroxyflavone TrkB agonist [38183-03-8]
ANA 12 TrkB receptor antagonist [219766-25-3]
BDNF (human) Activates TrkB and p75 receptors [218441-99-7]
GNF 5837 Potent Trk inhibitor; inhibits TrkA, TrkB and TrkC [1033769-28-6]
TLQP 21 VGF-derived peptide [869988-94-3]

(157) Novoseek inferred chemical compound relationships for BDNF Gene

Compound -log(P) Hits PubMed IDs
k252a 87 37
tyrosine 72.2 117
nmda 62.3 133
glutamate 58.8 141
dopamine 54.2 103

(11) PharmGKB related drug/compound annotations for BDNF Gene

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:

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 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 (4.1).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for BDNF Gene

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 expressions 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 36
  • 99.46 (n)
  • 100 (a)
BDNF 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia BDNF 36
  • 92.17 (n)
  • 97.17 (a)
BDNF 37
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia BDNF 36
  • 93.66 (n)
  • 98.38 (a)
BDNF 37
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Bdnf 36
  • 92.26 (n)
  • 97.64 (a)
Bdnf 16
Bdnf 37
  • 96 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia BDNF 37
  • 87 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia BDNF 37
  • 96 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Bdnf 36
  • 92.26 (n)
  • 97.64 (a)
chicken
(Gallus gallus)
Aves BDNF 36
  • 85.91 (n)
  • 91.87 (a)
BDNF 37
  • 92 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia BDNF 37
  • 87 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia bdnf-A 36
tropical clawed frog
(Silurana tropicalis)
Amphibia bdnf 36
  • 82.65 (n)
  • 88.11 (a)
zebrafish
(Danio rerio)
Actinopterygii bdnf 36
  • 76.39 (n)
  • 80.83 (a)
bdnf 37
  • 70 (a)
OneToOne
Species with no ortholog for BDNF:
  • 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

Selected 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

Polymorphic Variants from UniProtKB/Swiss-Prot for BDNF Gene

P23560-BDNF_HUMAN
Variations in BDNF are associated with susceptibility to bulimia nervosa 2 (BULN2) [MIM:610269]. Several genes with an essential role in the regulation of eating behavior and body weight are considered candidates involved in the etiology of eating disorders (ED), but no relevant susceptibility genes with a major effect on anorexia nervosa (AN) or bulimia nervosa (BN) have been identified. BDNF has been implicated in the regulation of food intake and body weight in rodents. A strong association has been reported of the Met-66 allele of the Val-66-Met BDNF variant with restricting AN (ANR) and low minimum body mass index in Spanish patients. Met-66 variant is strongly associated to all ED subtypes (AN, ANR, binge-eating/purging AN and BN) in European patients. Another single nucleotide polymorphism located in the promoter region of the BDNF gene showed an effect on BN and late age at onset of weight loss. These are two variants associated with the pathophysiology of ED in different populations. These variants support a role for BDNF in the susceptibility to aberrant eating behaviors

Sequence variations from dbSNP and Humsavar for BDNF Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type MAF
rs962368 -- 27,712,931(-) aaaaa(A/G)aaaga intron-variant
rs962369 -- 27,712,873(-) ACTCA(A/G)CTCTC intron-variant
rs988748 -- 27,703,198(-) GGTCT(C/G)TGGGG intron-variant, upstream-variant-2KB
rs1829469 -- 27,709,009(-) TCTAC(C/T)AAAAC intron-variant
rs2030323 -- 27,706,992(-) TTAAA(G/T)GGAGT intron-variant

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

Variant ID Type Subtype PubMed ID
nsv832095 CNV Gain 17160897
nsv819223 CNV Gain 19587683

Relevant External Links for BDNF Gene

HapMap Linkage Disequilibrium report
BDNF
Human Gene Mutation Database (HGMD)
BDNF

Disorders for BDNF Gene

(4) OMIM Diseases for BDNF Gene (113505)

UniProtKB/Swiss-Prot

BDNF_HUMAN
  • 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.

(91) Novoseek inferred disease relationships for BDNF Gene

Disease -log(P) Hits PubMed IDs
neurodegenerative diseases 69.9 41
bipolar disorder 68.6 98
major depression 67.5 94
mood disorders 67.4 79
schizophrenia 62 208

Relevant External Links for BDNF

Genetic Association Database (GAD)
BDNF
Human Genome Epidemiology (HuGE) Navigator
BDNF
genes like me logo Genes that share disorders with BDNF: view

Publications for BDNF Gene

  1. Sequence variants of the brain-derived neurotrophic factor (BDNF) gene are strongly associated with obsessive-compulsive disorder. (PMID: 12836135) Hall D. … Karayiorgou M. (Am. J. Hum. Genet. 2003) 3 4 23 49
  2. 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 23 49
  3. Effect of the brain-derived neurotrophic factor and the apolipoprotein E polymorphisms on disease progression in preclinical Alzheimer's disease. (PMID: 18786162) Hashimoto R. … Ohnishi T. (Genes Brain Behav. 2009) 3 23 49
  4. Association study of candidate variants from brain-derived neurotrophic factor and dystrobrevin-binding protein 1 with neuroticism, anxiety, and depression. (PMID: 18797396) Wray N.R. … Martin N.G. (Psychiatr. Genet. 2008) 3 23 49
  5. Brain-derived neurotrophic factor Val/Met polymorphism and bipolar disorder. Association of the Met allele with suicidal behavior of bipolar patients. (PMID: 18843195) Kim B. … Joo Y.H. (Neuropsychobiology 2008) 3 23 49

Products for BDNF Gene

  • Addgene plasmids for BDNF

Sources for BDNF Gene

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