Human Gene NTF3 (ENST00000423158.4) from GENCODE V44
  Description: Homo sapiens neurotrophin 3 (NTF3), transcript variant 1, mRNA. (from RefSeq NM_001102654)
RefSeq Summary (NM_001102654): The protein encoded by this gene is a member of the neurotrophin family, that controls survival and differentiation of mammalian neurons. This protein is closely related to both nerve growth factor and brain-derived neurotrophic factor. It may be involved in the maintenance of the adult nervous system, and may affect development of neurons in the embryo when it is expressed in human placenta. NTF3-deficient mice generated by gene targeting display severe movement defects of the limbs. The mature peptide of this protein is identical in all mammals examined including human, pig, rat and mouse. [provided by RefSeq, Jul 2008].
Gencode Transcript: ENST00000423158.4
Gencode Gene: ENSG00000185652.12
Transcript (Including UTRs)
   Position: hg38 chr12:5,432,108-5,495,299 Size: 63,192 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg38 chr12:5,432,325-5,494,988 Size: 62,664 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr12:5,432,108-5,495,299)mRNA (may differ from genome)Protein (270 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Neurotrophin-3; Short=NT-3; AltName: Full=HDNF; AltName: Full=Nerve growth factor 2; Short=NGF-2; AltName: Full=Neurotrophic factor; Flags: Precursor;
FUNCTION: Seems to promote the survival of visceral and proprioceptive sensory neurons.
INTERACTION: P23560:BDNF; NbExp=1; IntAct=EBI-1025994, EBI-1026003;
TISSUE SPECIFICITY: Brain and peripheral tissues.
POLYMORPHISM: Variant Glu-76 (frequently reported as Glu-63) was thought to be associated with severe forms of schizophrenia. This does not seem to be the case.
SIMILARITY: Belongs to the NGF-beta family.

-  Primer design for this transcript

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

-  MalaCards Disease Associations
  MalaCards Gene Search: NTF3
Diseases sorted by gene-association score: hypochondriasis (15), diabetic polyneuropathy (12), diabetic neuropathy (11), diabetic autonomic neuropathy (11), demyelinating disease (9), pediatric fibrosarcoma (8), neuroaxonal dystrophy (8), sensory peripheral neuropathy (7), hypoglycemic coma (6), congenital fibrosarcoma (6), bipolar disorder (5), charcot-marie-tooth disease, type 1e (5), charcot-marie-tooth disease, type 4d (4), schizophrenia (4), hydrocephalus (3), medulloblastoma (2), attention deficit-hyperactivity disorder (2), hirschsprung disease 1 (1), autistic disorder (1), parkinson disease, late-onset (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 7.62 RPKM in Artery - Tibial
Total median expression: 52.92 RPKM

View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -60.34217-0.278 Picture PostScript Text
3' UTR -50.60311-0.163 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR020408 - Nerve_growth_factor-like
IPR002072 - Nerve_growth_factor-rel
IPR019846 - Nerve_growth_factor_CS
IPR015578 - Neurotrophin-3

Pfam Domains:
PF00243 - Nerve growth factor family

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1B8K - X-ray MuPIT 1BND - X-ray MuPIT 1NT3 - X-ray MuPIT 3BUK - X-ray MuPIT

ModBase Predicted Comparative 3D Structure on P20783
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
Protein SequenceProtein SequenceProtein Sequence   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005102 receptor binding
GO:0005165 neurotrophin receptor binding
GO:0005166 neurotrophin p75 receptor binding
GO:0005515 protein binding
GO:0008083 growth factor activity
GO:0042056 chemoattractant activity

Biological Process:
GO:0000187 activation of MAPK activity
GO:0002092 positive regulation of receptor internalization
GO:0007165 signal transduction
GO:0007169 transmembrane receptor protein tyrosine kinase signaling pathway
GO:0007267 cell-cell signaling
GO:0007399 nervous system development
GO:0008284 positive regulation of cell proliferation
GO:0010469 regulation of receptor activity
GO:0030335 positive regulation of cell migration
GO:0032148 activation of protein kinase B activity
GO:0033138 positive regulation of peptidyl-serine phosphorylation
GO:0042981 regulation of apoptotic process
GO:0043524 negative regulation of neuron apoptotic process
GO:0045664 regulation of neuron differentiation
GO:0048812 neuron projection morphogenesis
GO:0050731 positive regulation of peptidyl-tyrosine phosphorylation
GO:0050732 negative regulation of peptidyl-tyrosine phosphorylation
GO:0050918 positive chemotaxis
GO:0050930 induction of positive chemotaxis
GO:0090630 activation of GTPase activity
GO:2000251 positive regulation of actin cytoskeleton reorganization

Cellular Component:
GO:0005576 extracellular region
GO:0031410 cytoplasmic vesicle

-  Descriptions from all associated GenBank mRNAs
  AK293895 - Homo sapiens cDNA FLJ54849 complete cds, highly similar to Neurotrophin-3 precursor.
X53655 - H.sapiens mRNA for NGF-2.
E03081 - cDNA encoding polypeptide having human nerve growth factor activity.
E03588 - DNA encoding human NGF-like peptide.
KJ897265 - Synthetic construct Homo sapiens clone ccsbBroadEn_06659 NTF3 gene, encodes complete protein.
BC069773 - Homo sapiens neurotrophin 3, mRNA (cDNA clone MGC:97337 IMAGE:7262589), complete cds.
BC107075 - Homo sapiens neurotrophin 3, mRNA (cDNA clone MGC:129711 IMAGE:40027045), complete cds.
AB464638 - Synthetic construct DNA, clone: pF1KB9812, Homo sapiens NTF3 gene for neurotrophin 3, without stop codon, in Flexi system.
CU687004 - Synthetic construct Homo sapiens gateway clone IMAGE:100022593 5' read NTF3 mRNA.
HQ448451 - Synthetic construct Homo sapiens clone IMAGE:100071879; CCSB014027_02 neurotrophin 3 (NTF3) gene, encodes complete protein.
KJ891717 - Synthetic construct Homo sapiens clone ccsbBroadEn_01111 NTF3 gene, encodes complete protein.
CR541906 - Homo sapiens full open reading frame cDNA clone RZPDo834G0233D for gene NTF3, neurotrophin 3; complete cds, incl. stopcodon.
E03587 - DNA encoding human NGF-like peptide.
E07862 - DNA encoding the pro region,NGF2/NT-3 and its vicinity.
JD037564 - Sequence 18588 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04010 - MAPK signaling pathway
hsa04722 - Neurotrophin signaling pathway

Reactome (by CSHL, EBI, and GO)

Protein P20783 (Reactome details) participates in the following event(s):

R-HSA-9025033 NTF3 binds NTRK2 (TRKB)
R-NUL-9025059 NTF3 binds Ntrk2
R-HSA-9026366 NTF3-bound NTRK2 dimerizes
R-NUL-9026386 NTF3-bound Ntrk2 dimerizes
R-HSA-9025046 NTF3 activates NTRK2 (TRKB) signaling
R-HSA-9006115 Signaling by NTRK2 (TRKB)
R-HSA-166520 Signaling by NTRKs
R-HSA-9006934 Signaling by Receptor Tyrosine Kinases
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: B7Z1T5, ENST00000423158.1, ENST00000423158.2, ENST00000423158.3, NM_001102654, NTF3_HUMAN, P20783, Q6FH50, uc001qnk.1, uc001qnk.2, uc001qnk.3, uc001qnk.4, uc001qnk.5, uc001qnk.6
UCSC ID: ENST00000423158.4
RefSeq Accession: NM_001102654
Protein: P20783 (aka NTF3_HUMAN)
CCDS: CCDS8538.1, CCDS44806.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.