NTF3 (neurotrophin 3) - Rat Genome Database

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Gene: NTF3 (neurotrophin 3) Sus scrofa
Analyze
Symbol: NTF3
Name: neurotrophin 3
RGD ID: 13882259
Description: ENCODES a protein that exhibits nerve growth factor binding (ortholog); INVOLVED IN axon guidance (ortholog); brain development (ortholog); enteric nervous system development (ortholog); ASSOCIATED WITH Alzheimer's disease (ortholog); asthma (ortholog); autistic disorder (ortholog); FOUND IN cytoplasmic vesicle (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: neurotrophin-3; NT-3; NT3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl565,052,517 - 65,123,788 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1565,052,608 - 65,122,645 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2567,204,186 - 67,204,959 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of GTPase activity  (IEA)
activation of MAPK activity  (IEA)
activation of protein kinase B activity  (IEA)
axon guidance  (ISO)
brain development  (ISO)
enteric nervous system development  (ISO)
epidermis development  (ISO)
generation of neurons  (ISO)
glial cell fate determination  (ISO)
induction of positive chemotaxis  (IEA)
mechanoreceptor differentiation  (ISO)
memory  (IBA)
modulation of chemical synaptic transmission  (IBA,ISO)
myelination  (ISO)
negative regulation of neuron apoptotic process  (IBA,ISO)
negative regulation of peptidyl-tyrosine phosphorylation  (IEA)
nerve development  (IBA,ISO)
nerve growth factor signaling pathway  (IBA)
nervous system development  (ISO)
neuromuscular synaptic transmission  (ISO)
neuron development  (ISO)
neuron projection morphogenesis  (IBA)
peripheral nervous system development  (IBA,ISO)
positive chemotaxis  (IEA)
positive regulation of actin cytoskeleton reorganization  (IEA)
positive regulation of cell migration  (IEA)
positive regulation of cell population proliferation  (IEA)
positive regulation of glial cell differentiation  (ISO)
positive regulation of peptidyl-serine phosphorylation  (IBA,IEA)
positive regulation of peptidyl-tyrosine phosphorylation  (IEA)
positive regulation of receptor internalization  (IEA)
positive regulation of transcription by RNA polymerase II  (ISO)
regulation of apoptotic process  (ISO)
regulation of neuron apoptotic process  (ISO)
regulation of neuron differentiation  (IBA)
signal transduction  (IEA)
smooth muscle cell differentiation  (ISO)
transmembrane receptor protein tyrosine kinase signaling pathway  (IBA,IEA)

Cellular Component

Molecular Function

References

Genomics

Comparative Map Data
NTF3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl565,052,517 - 65,123,788 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1565,052,608 - 65,122,645 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2567,204,186 - 67,204,959 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NTF3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl125,432,108 - 5,521,536 (+)EnsemblGRCh38hg38GRCh38
GRCh38125,432,108 - 5,495,299 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37125,541,274 - 5,604,465 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36125,411,541 - 5,474,726 (+)NCBINCBI36hg18NCBI36
Build 34125,473,526 - 5,474,725NCBI
Celera127,162,184 - 7,225,194 (+)NCBI
Cytogenetic Map12p13.31NCBI
HuRef125,455,606 - 5,458,036 (+)NCBIHuRef
CHM1_1125,540,527 - 5,604,287 (+)NCBICHM1_1
Ntf3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396126,078,375 - 126,143,734 (-)NCBIGRCm39mm39
GRCm39 Ensembl6126,078,375 - 126,143,873 (-)Ensembl
GRCm386126,101,412 - 126,166,772 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6126,101,412 - 126,166,910 (-)EnsemblGRCm38mm10GRCm38
MGSCv376126,051,430 - 126,116,762 (-)NCBIGRCm37mm9NCBIm37
MGSCv366126,067,031 - 126,130,540 (-)NCBImm8
Celera6127,765,447 - 127,832,752 (-)NCBICelera
Cytogenetic Map6F3NCBI
cM Map660.45NCBI
Ntf3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24158,914,984 - 158,984,453 (-)NCBI
Rnor_6.0 Ensembl4158,636,884 - 158,705,886 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04158,636,883 - 158,705,886 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04225,638,801 - 225,707,719 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44162,435,781 - 162,506,961 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14162,680,717 - 162,751,897 (-)NCBI
Celera4147,640,921 - 147,710,546 (-)NCBICelera
Cytogenetic Map4q42NCBI
Ntf3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554133,207,123 - 3,273,491 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554133,207,669 - 3,273,371 (+)NCBIChiLan1.0ChiLan1.0
NTF3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1125,470,093 - 5,534,300 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl125,530,508 - 5,533,989 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0125,551,734 - 5,615,981 (+)NCBIMhudiblu_PPA_v0panPan3
NTF3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12739,383,017 - 39,454,613 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2739,383,152 - 39,454,601 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha277,231,693 - 7,233,370 (+)NCBI
ROS_Cfam_1.02739,739,752 - 39,811,227 (-)NCBI
UMICH_Zoey_3.12739,608,720 - 39,679,940 (-)NCBI
UNSW_CanFamBas_1.02739,650,338 - 39,721,747 (-)NCBI
UU_Cfam_GSD_1.0276,639,885 - 6,711,187 (+)NCBI
Ntf3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945103,495,858 - 103,555,782 (-)NCBI
SpeTri2.0NW_0049367092,163,510 - 2,223,429 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NTF3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1115,477,208 - 5,542,404 (+)NCBI
Ntf3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248602,416,448 - 2,479,216 (+)NCBI


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium
Low 4 3 3 4 2 4 2 2 2
Below cutoff 6 1 1 10 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000051645   ⟹   ENSSSCP00000051700
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl565,052,517 - 65,122,019 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000071319   ⟹   ENSSSCP00000063295
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl565,052,750 - 65,056,253 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000077033   ⟹   ENSSSCP00000070892
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl565,052,609 - 65,122,019 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000085180   ⟹   ENSSSCP00000062768
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl565,052,611 - 65,123,788 (-)Ensembl
RefSeq Acc Id: NM_001123152   ⟹   NP_001116624
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1565,052,923 - 65,053,696 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090891   ⟹   XP_020946550
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1565,052,608 - 65,122,644 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090892   ⟹   XP_020946551
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1565,052,608 - 65,121,719 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021090893   ⟹   XP_020946552
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1565,052,608 - 65,122,645 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001116624 (Get FASTA)   NCBI Sequence Viewer  
  XP_020946550 (Get FASTA)   NCBI Sequence Viewer  
  XP_020946551 (Get FASTA)   NCBI Sequence Viewer  
  XP_020946552 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ABI97170 (Get FASTA)   NCBI Sequence Viewer  
  Q06AV0 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_020946552   ⟸   XM_021090893
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_020946550   ⟸   XM_021090891
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020946551   ⟸   XM_021090892
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: NP_001116624   ⟸   NM_001123152
- Peptide Label: precursor
- UniProtKB: Q06AV0 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSSSCP00000051700   ⟸   ENSSSCT00000051645
RefSeq Acc Id: ENSSSCP00000062768   ⟸   ENSSSCT00000085180
RefSeq Acc Id: ENSSSCP00000063295   ⟸   ENSSSCT00000071319
RefSeq Acc Id: ENSSSCP00000070892   ⟸   ENSSSCT00000077033
Protein Domains
NGF


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000033544 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000051700 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000062768 UniProtKB/TrEMBL
  ENSSSCP00000063295 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000070892 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000051645 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000071319 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000077033 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000085180 UniProtKB/TrEMBL
Gene3D-CATH 2.10.90.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Cystine-knot_cytokine UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nerve_growth_factor-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nerve_growth_factor-rel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nerve_growth_factor_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neurotrophin-3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report ssc:100144493 UniProtKB/Swiss-Prot
NCBI Gene NTF3 ENTREZGENE
PANTHER PTHR11589 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11589:SF4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam NGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PIRSF NGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS NEUROTROPHN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE NGF_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NGF_2 UniProtKB/Swiss-Prot
SMART NGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57501 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A287B6J8_PIG UniProtKB/TrEMBL
  A0A5G2QHH1_PIG UniProtKB/TrEMBL
  A0A5G2QL24_PIG UniProtKB/TrEMBL
  NTF3_PIG UniProtKB/Swiss-Prot, ENTREZGENE
VGNC ID VGNC:90928 ENTREZGENE