Human Gene NTRK3 (ENST00000394480.6) from GENCODE V44
  Description: Homo sapiens neurotrophic receptor tyrosine kinase 3 (NTRK3), transcript variant 2, mRNA. (from RefSeq NM_002530)
RefSeq Summary (NM_002530): This gene encodes a member of the neurotrophic tyrosine receptor kinase (NTRK) family. This kinase is a membrane-bound receptor that, upon neurotrophin binding, phosphorylates itself and members of the MAPK pathway. Signalling through this kinase leads to cell differentiation and may play a role in the development of proprioceptive neurons that sense body position. Mutations in this gene have been associated with medulloblastomas, secretory breast carcinomas and other cancers. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2011].
Gencode Transcript: ENST00000394480.6
Gencode Gene: ENSG00000140538.17
Transcript (Including UTRs)
   Position: hg38 chr15:87,859,751-88,256,747 Size: 396,997 Total Exon Count: 19 Strand: -
Coding Region
   Position: hg38 chr15:87,876,935-88,256,153 Size: 379,219 Coding Exon Count: 17 

Page IndexSequence and LinksPrimersMalaCardsCTDRNA-Seq Expression
Microarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsPathwaysOther Names
Methods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:87,859,751-88,256,747)mRNA (may differ from genome)Protein (825 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCLynxMalacardsMGIOMIMPubMed
UniProtKBWikipediaBioGrid CRISPR DB

-  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: NTRK3
Diseases sorted by gene-association score: cerebral sarcoma* (350), differentiated thyroid carcinoma* (350), congenital mesoblastic nephroma* (266), congenital fibrosarcoma (25), pediatric fibrosarcoma (18), fibrosarcoma (17), breast secretory carcinoma (17), cellular congenital mesoblastic nephroma (17), adult fibrosarcoma (16), adult mesoblastic nephroma (16), birth defects (13), medulloblastoma (12), childhood medulloblastoma (9), mast-cell leukemia (9), gastrointestinal stromal tumor (9), spindle cell sarcoma (9), type c thymoma (8), adenocarcinoma (7), hypertrophic pyloric stenosis (7), anhidrosis (7), pyloric stenosis (6), malignant mesenchymoma (5), mast cell neoplasm (5), polymorphous low-grade adenocarcinoma (5), infratentorial cancer (5), cerebral cavernous malformations-2 (4), tetralogy of fallot (2), hirschsprung disease 1 (2), breast cancer (2), connective tissue cancer (1)
* = Manually curated disease association

-  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: 20.62 RPKM in Artery - Tibial
Total median expression: 185.87 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 -148.90322-0.462 Picture PostScript Text
3' UTR -5107.9017184-0.297 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.

-  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 BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Descriptions from all associated GenBank mRNAs
  S76475 - trkC [human, brain, mRNA, 2715 nt].
AK297160 - Homo sapiens cDNA FLJ60676 complete cds, highly similar to NT-3 growth factor receptor precursor (EC 2.7.10.1).
AF052184 - Homo sapiens clone 24817 mRNA sequence.
U05012 - Homo sapiens receptor tyrosine kinase TrkC (NTRK3) mRNA, complete cds.
AK313646 - Homo sapiens cDNA, FLJ94223.
KJ534904 - Homo sapiens clone NTRK3_iso-B_adult-A01 neurotrophic tyrosine kinase receptor type 3 isoform B (NTRK3) mRNA, partial cds, alternatively spliced.
KJ534905 - Homo sapiens clone NTRK3_iso-C_adult-A02 neurotrophic tyrosine kinase receptor type 3 isoform C (NTRK3) mRNA, partial cds, alternatively spliced.
KJ534906 - Homo sapiens clone NTRK3_iso-D_fetal-F07 neurotrophic tyrosine kinase receptor type 3 isoform D (NTRK3) mRNA, partial cds, alternatively spliced.
KJ535052 - Homo sapiens clone NTRK3_iso-A_fetal-F14 neurotrophic tyrosine kinase receptor type 3 isoform A (NTRK3) mRNA, complete cds, alternatively spliced.
AK302504 - Homo sapiens cDNA FLJ55664 complete cds, highly similar to NT-3 growth factor receptor precursor (EC2.7.10.1).
AK309695 - Homo sapiens cDNA, FLJ99736.
S76476 - trkC {alternatively spliced} [human, brain, mRNA, 2225 nt].
BC013693 - Homo sapiens neurotrophic tyrosine kinase, receptor, type 3, mRNA (cDNA clone MGC:17113 IMAGE:4181574), complete cds.
BT007291 - Homo sapiens neurotrophic tyrosine kinase, receptor, type 3 mRNA, complete cds.
KJ897266 - Synthetic construct Homo sapiens clone ccsbBroadEn_06660 NTRK3 gene, encodes complete protein.
AB384872 - Synthetic construct DNA, clone: pF1KB3902, Homo sapiens NTRK3 gene for NT-3 growth factor receptor precursor, complete cds, without stop codon, in Flexi system.
AF125809 - Homo sapiens neurotrophic receptor tyrosine kinase-ETS related protein fusion protein (NTRK3-ETV6 fusion) mRNA, partial cds.
CU680654 - Synthetic construct Homo sapiens gateway clone IMAGE:100020771 5' read NTRK3 mRNA.
AL109700 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 51358.
AK094929 - Homo sapiens cDNA FLJ37610 fis, clone BRCOC2011398.
AL109696 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 21920.
DQ571824 - Homo sapiens piRNA piR-31936, complete sequence.
DQ571825 - Homo sapiens piRNA piR-31937, complete sequence.
DQ571826 - Homo sapiens piRNA piR-31938, complete sequence.
AF041811 - Homo sapiens ETS related protein-growth factor receptor tyrosine kinase fusion proteins (ETV6-NTRK3 fusion) mRNA, partial cds.
JD399712 - Sequence 380736 from Patent EP1572962.
JD132828 - Sequence 113852 from Patent EP1572962.
JD398540 - Sequence 379564 from Patent EP1572962.
JD528175 - Sequence 509199 from Patent EP1572962.
JD314872 - Sequence 295896 from Patent EP1572962.
AF125808 - Homo sapiens ETS related protein-neurotrophic receptor tyrosine kinase fusion protein (ETV6-NTRK3 fusion) mRNA, partial cds.
AY065844 - Homo sapiens truncated receptor tyrosine kinase TrkC mRNA, partial cds.
AF058390 - Homo sapiens neurotrophin 3 receptor truncated isoform (NTRK3) mRNA, partial cds.
DQ323596 - Homo sapiens clone 5 tyrosine kinase receptor isoform C mRNA, partial cds.
AF058389 - Homo sapiens neurotrophin 3 receptor (NTRK3) mRNA, partial cds.
BC128249 - Homo sapiens olfactory receptor, family 1, subfamily A, member 1, mRNA (cDNA clone IMAGE:40114772).
JD235415 - Sequence 216439 from Patent EP1572962.

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

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000394480.1, ENST00000394480.2, ENST00000394480.3, ENST00000394480.4, ENST00000394480.5, NM_002530, uc002bmf.1, uc002bmf.2, uc002bmf.3, X5D7M5
UCSC ID: ENST00000394480.6
RefSeq Accession: NM_002530
CCDS: CCDS10340.1, CCDS32322.1, CCDS58399.1

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