Human Gene NTF3 (ENST00000423158.4_10) from GENCODE V47lift37

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Description: neurotrophin 3, transcript variant 1 (from RefSeq NM_001102654.2)
Gencode Transcript: ENST00000423158.4_10
Gencode Gene: ENSG00000185652.12_13
Transcript (Including UTRs)
Position: hg19 chr12:5,541,274-5,604,465 Size: 63,192 Total Exon Count: 2 Strand: +
Coding Region
Position: hg19 chr12:5,541,491-5,604,154 Size: 62,664 Coding Exon Count: 2

Page Index	Sequence and Links	UniProtKB Comments	Primers	MalaCards	CTD
Gene Alleles	RNA-Seq Expression	RNA Structure	Protein Structure	Other Species	GO Annotations
mRNA Descriptions	Pathways	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr12:5,541,274-5,604,465)			mRNA (may differ from genome)		Protein (270 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	Malacards	MGI	OMIM	PubMed	Reactome
UniProtKB	Wikipedia	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: NTF3_HUMAN 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; SUBCELLULAR LOCATION: Secreted. 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

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Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
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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 D001564 Benzo(a)pyrene D011188 Potassium D013749 Tetrachlorodibenzodioxin D014212 Tretinoin D014635 Valproic Acid C014024 2,4,5,2',4',5'-hexachlorobiphenyl C093973 2-(2-amino-3-methoxyphenyl)-4H-1-benzopyran-4-one C085911 2-(4-morpholinyl)-8-phenyl-4H-1-benzopyran-4-one C023035 3,4,5,3',4'-pentachlorobiphenyl D015120 6-Aminonicotinamide D015122 6-Mercaptopurine D000082 Acetaminophen D020106 Acrylamide D000643 Ammonium Chloride D000661 Amphetamine D001554 Benzene D003994 Bucladesine D000001 Calcimycin D002518 Ceramides D004390 Chlorpyrifos D002927 Cimetidine D003520 Cyclophosphamide D003993 Dibutyl Phthalate D004051 Diethylhexyl Phthalate D004052 Diethylnitrosamine D017259 Dimaprit D004298 Dopamine D004837 Epinephrine D004958 Estradiol D015738 Famotidine D005557 Formaldehyde D005576 Forskolin D005839 Gentamicins D006632 Histamine D006861 Hydrogen Peroxide D007545 Isoproterenol C063302 KN 62 D007649 Ketamine D008094 Lithium D009151 Mustard Gas C063509 N-(2-(4-bromocinnamylamino)ethyl)-5-isoquinolinesulfonamide D018377 Neurotransmitter Agents D009638 Norepinephrine C009618 O,O-diethyl O-3,5,6-trichloro-2-pyridyl phosphate D037342 Pertussis Toxin D010672 Phenytoin D010862 Pilocarpine D011374 Progesterone D011738 Pyrilamine D012601 Scopolamine Hydrobromide D012999 Soman D019311 Staurosporine D013311 Streptozocin D013755 Tetradecanoylphorbol Acetate D014050 Toluene D014241 Trichloroethylene D014311 Triprolidine D024483 Vitamin K 3 D014992 Xylenes C496492 abrine D019324 beta-Naphthoflavone C006780 bisphenol A C115705 ciproxifan C014476 diethyl maleate C077430 imetit C016517 indole-3-carbinol C118995 methylhistaprodifen C006253 pirinixic acid C052075 thioperamide C009687 wortmannin

Common Gene Haplotype Alleles


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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

mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-60.34	217	-0.278	Picture	PostScript	Text
3' UTR	-50.60	311	-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
PF19338 - Neutrophin-3 N-terminus

SCOP Domains:
57501 - Cystine-knot cytokines

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


Front	Top	Side

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.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details	Gene Details
Gene Sorter	Gene Sorter
	RGD	Ensembl

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


	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, uc319slr.1, uc319slr.2 UCSC ID: ENST00000423158.4_10 RefSeq Accession: NM_001102654.2 Protein: P20783 (aka NTF3_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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