NGFR (nerve growth factor receptor) - Rat Genome Database

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Gene: NGFR (nerve growth factor receptor) Sus scrofa
Analyze
Symbol: NGFR
Name: nerve growth factor receptor
RGD ID: 14241969
Description: ENCODES a protein that exhibits amyloid-beta binding (ortholog); identical protein binding (ortholog); nerve growth factor binding (ortholog); INVOLVED IN axon guidance (ortholog); cellular response to oxidative stress (ortholog); central nervous system development (ortholog); ASSOCIATED WITH Alzheimer's disease (ortholog); asthma (ortholog); atherosclerosis (ortholog); FOUND IN cell surface (ortholog); clathrin-coated endocytic vesicle (ortholog); coated vesicle (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: NGR; tumor necrosis factor receptor superfamily member 16
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 Ensembl1225,699,427 - 25,720,357 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11225,699,410 - 25,720,355 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21225,702,140 - 25,722,387 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of cysteine-type endopeptidase activity involved in apoptotic process  (IEA)
apoptotic process  (IEA)
axon guidance  (IEA,ISO)
cellular glucose homeostasis  (IEA)
cellular response to amyloid-beta  (IEA)
cellular response to oxidative stress  (ISO)
central nervous system development  (IEA,ISO)
circadian regulation of gene expression  (IEA)
circadian rhythm  (ISO)
detection of temperature stimulus  (IEA,ISO)
dorsal aorta development  (IEA)
glucose homeostasis  (ISO)
hair follicle morphogenesis  (IEA,ISO)
intracellular protein transport  (IEA)
negative regulation of angiogenesis  (ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis  (IEA)
negative regulation of cell migration  (IEA)
negative regulation of dendritic spine development  (ISO)
negative regulation of fibroblast growth factor receptor signaling pathway  (IEA,ISO)
negative regulation of hair follicle development  (IEA,ISO)
negative regulation of mitochondrial depolarization  (ISO)
negative regulation of neuron apoptotic process  (ISO)
negative regulation of neuron projection development  (ISO)
nerve development  (IEA,ISO)
neuron apoptotic process  (IEA)
positive regulation of apoptotic process  (ISO)
positive regulation of apoptotic signaling pathway  (IEA,ISO)
positive regulation of excitatory postsynaptic potential  (ISO)
positive regulation of fibroblast proliferation  (IEA,ISO)
positive regulation of MAPK cascade  (ISO)
positive regulation of myelination  (ISO)
positive regulation of neural precursor cell proliferation  (ISO)
positive regulation of neuron death  (ISO)
positive regulation of neuron differentiation  (ISO)
positive regulation of neuron projection development  (ISO)
positive regulation of odontogenesis of dentin-containing tooth  (IEA,ISO)
positive regulation of pri-miRNA transcription by RNA polymerase II  (IEA)
positive regulation of protein kinase B signaling  (ISO)
positive regulation of protein localization to nucleus  (IEA)
positive regulation of Rho protein signal transduction  (ISO)
positive regulation of synaptic transmission, cholinergic  (ISO)
positive regulation of synaptic transmission, glutamatergic  (ISO)
regulation of cell death  (ISO)
regulation of gene expression  (ISO)
regulation of reactive oxygen species metabolic process  (ISO)
response to lipopolysaccharide  (ISO)
response to wounding  (ISO)
Rho protein signal transduction  (IBA)
sensory perception of pain  (ISO)
signal transduction  (IEA,ISO)
skeletal muscle cell differentiation  (ISO)
skin development  (ISO)

References
Additional References at PubMed
PMID:21502727  


Genomics

Comparative Map Data
NGFR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1225,699,427 - 25,720,357 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11225,699,410 - 25,720,355 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21225,702,140 - 25,722,387 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NGFR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1749,495,293 - 49,515,008 (+)EnsemblGRCh38hg38GRCh38
GRCh381749,495,293 - 49,515,008 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371747,572,655 - 47,592,370 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361744,927,666 - 44,947,360 (+)NCBINCBI36hg18NCBI36
Build 341744,927,665 - 44,947,360NCBI
Celera1744,027,660 - 44,047,391 (+)NCBI
Cytogenetic Map17q21.33NCBI
HuRef1742,937,638 - 42,957,366 (+)NCBIHuRef
CHM1_11747,637,800 - 47,657,550 (+)NCBICHM1_1
Ngfr
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391195,459,644 - 95,478,524 (-)NCBIGRCm39mm39
GRCm39 Ensembl1195,459,644 - 95,478,561 (-)Ensembl
GRCm381195,568,818 - 95,587,698 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1195,568,818 - 95,587,735 (-)EnsemblGRCm38mm10GRCm38
MGSCv371195,430,132 - 95,449,012 (-)NCBIGRCm37mm9NCBIm37
MGSCv361195,384,908 - 95,403,788 (-)NCBImm8
Celera11105,207,524 - 105,226,387 (-)NCBICelera
Cytogenetic Map11DNCBI
cM Map1159.01NCBI
Ngfr
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21080,515,287 - 80,533,518 (-)NCBI
Rnor_6.0 Ensembl1083,389,847 - 83,408,061 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01083,389,828 - 83,408,061 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01083,198,396 - 83,216,629 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41084,262,804 - 84,281,006 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11084,277,173 - 84,295,376 (-)NCBI
Celera1079,287,338 - 79,305,497 (-)NCBICelera
Cytogenetic Map10q26NCBI
Ngfr
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545112,030,252 - 12,047,305 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545112,030,303 - 12,047,305 (-)NCBIChiLan1.0ChiLan1.0
NGFR
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1178,075,301 - 8,094,966 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl178,075,316 - 8,094,966 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0178,089,600 - 8,109,361 (-)NCBIMhudiblu_PPA_v0panPan3
NGFR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1925,598,468 - 25,621,021 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl925,601,074 - 25,623,274 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha925,057,204 - 25,079,762 (+)NCBI
ROS_Cfam_1.0926,393,929 - 26,416,386 (+)NCBI
UMICH_Zoey_3.1925,161,801 - 25,184,255 (+)NCBI
UNSW_CanFamBas_1.0925,420,950 - 25,443,499 (+)NCBI
UU_Cfam_GSD_1.0925,550,245 - 25,572,703 (+)NCBI
Ngfr
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560225,017,882 - 25,037,009 (+)NCBI
SpeTri2.0NW_00493649012,038,500 - 12,057,257 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NGFR
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11669,894,000 - 69,914,209 (+)NCBI
ChlSab1.1 Ensembl1669,894,139 - 69,912,189 (+)Ensembl
Ngfr
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247955,623,686 - 5,639,545 (+)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 1 2 1 5 1 1 1
Below cutoff 6 2 1 8 2 1

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_021067136 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AEMK02000080 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSSCT00000019102   ⟹   ENSSSCP00000018596
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1225,699,427 - 25,720,356 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000083732   ⟹   ENSSSCP00000063963
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1225,699,427 - 25,720,357 (+)Ensembl
RefSeq Acc Id: XM_021067136   ⟹   XP_020922795
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11225,699,410 - 25,720,355 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_020922795 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_020922795   ⟸   XM_021067136
- Sequence:
RefSeq Acc Id: ENSSSCP00000018596   ⟸   ENSSSCT00000019102
RefSeq Acc Id: ENSSSCP00000063963   ⟸   ENSSSCT00000083732
Protein Domains
Death   TNFR-Cys


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000017548 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000018596 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000063963 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000019102 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000083732 UniProtKB/TrEMBL
InterPro DEATH-like_dom_sf UniProtKB/TrEMBL
  Death_domain UniProtKB/TrEMBL
  TNFR/NGFR_Cys_rich_reg UniProtKB/TrEMBL
  TNFR16_TM UniProtKB/TrEMBL
  TNFR_16 UniProtKB/TrEMBL
  TNFRSF16_N UniProtKB/TrEMBL
NCBI Gene NGFR ENTREZGENE
Pfam Death UniProtKB/TrEMBL
  TNFR_16_TM UniProtKB/TrEMBL
  TNFR_c6 UniProtKB/TrEMBL
PRINTS TNFACTORR16 UniProtKB/TrEMBL
PROSITE DEATH_DOMAIN UniProtKB/TrEMBL
  TNFR_NGFR_1 UniProtKB/TrEMBL
  TNFR_NGFR_2 UniProtKB/TrEMBL
SMART DEATH UniProtKB/TrEMBL
  TNFR UniProtKB/TrEMBL
Superfamily-SCOP SSF47986 UniProtKB/TrEMBL
UniProt A0A5G2QPF5_PIG UniProtKB/TrEMBL
  F1RVT6_PIG UniProtKB/TrEMBL
VGNC ID VGNC:90733 ENTREZGENE