Nrp1 (neuropilin 1) - Rat Genome Database

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Gene: Nrp1 (neuropilin 1) Rattus norvegicus
Analyze
Symbol: Nrp1
Name: neuropilin 1
RGD ID: 621588
Description: Exhibits semaphorin receptor activity. Involved in negative regulation of axon extension involved in axon guidance and response to wounding. Localizes to cell surface; growth cone; and neuronal cell body. Orthologous to human NRP1 (neuropilin 1); PARTICIPATES IN vascular endothelial growth factor signaling pathway; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: neuropilin; neuropilin-1; Nrp; vascular endothelial cell growth factor 165 receptor
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21956,359,455 - 56,514,628 (+)NCBI
Rnor_6.0 Ensembl1961,332,351 - 61,485,858 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01961,332,351 - 61,486,166 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01971,984,687 - 72,138,092 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41958,332,004 - 58,487,686 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11958,337,063 - 58,492,741 (+)NCBI
Celera1955,693,756 - 55,846,090 (+)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
1,1-dichloroethene  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,3',5-triiodo-L-thyronine  (EXP)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
8-Br-cAMP  (ISO)
acetaldehyde  (ISO)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
antimycin A  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bicalutamide  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol A diglycidyl ether  (ISO)
bisphenol F  (ISO)
butanal  (ISO)
calcitriol  (ISO)
capsaicin  (EXP)
carbamazepine  (ISO)
carbon nanotube  (ISO)
choline  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
cobalt dichloride  (EXP,ISO)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
cyclophosphamide  (EXP,ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
depsipeptide  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dibutyl phthalate  (EXP,ISO)
diclofenac  (ISO)
dicrotophos  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
disulfiram  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
enzacamene  (ISO)
ethanol  (EXP,ISO)
ferric oxide  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
furan  (EXP)
gemcitabine  (ISO)
genistein  (ISO)
gentamycin  (EXP)
graphite  (EXP)
hypochlorous acid  (ISO)
indoles  (EXP)
indometacin  (ISO)
L-methionine  (ISO)
leflunomide  (EXP,ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
melphalan  (ISO)
mercury dibromide  (ISO)
methotrexate  (ISO)
N-acetylsphingosine  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (EXP)
naproxen  (EXP)
nickel dichloride  (ISO)
nitrobenzenes  (EXP)
oxaliplatin  (EXP,ISO)
p-menthan-3-ol  (ISO)
paclitaxel  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
PD 0325901  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (EXP,ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (ISO)
propiconazole  (ISO)
Ptaquiloside  (ISO)
quercetin  (ISO)
rotenone  (ISO)
sarin  (ISO)
SB 431542  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
simvastatin  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
Soman  (EXP)
sphingosine 1-phosphate  (ISO)
succimer  (ISO)
sumatriptan  (EXP)
sunitinib  (ISO)
tamoxifen  (ISO)
Tesaglitazar  (EXP)
testosterone  (EXP)
tetrachloromethane  (ISO)
thalidomide  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
toluene  (EXP)
toluene 2,4-diisocyanate  (ISO)
topotecan  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
troglitazone  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
actin cytoskeleton reorganization  (ISO)
angiogenesis  (ISO)
angiogenesis involved in coronary vascular morphogenesis  (ISO)
artery morphogenesis  (ISO)
axon extension involved in axon guidance  (ISO)
axon guidance  (ISO)
axonal fasciculation  (ISO)
axonogenesis involved in innervation  (ISO)
basal dendrite arborization  (ISO)
basal dendrite development  (ISO)
branching involved in blood vessel morphogenesis  (ISO)
branchiomotor neuron axon guidance  (ISO)
cardiac neural crest cell migration involved in outflow tract morphogenesis  (ISO)
cell migration  (ISO)
cell migration involved in sprouting angiogenesis  (ISO)
cellular response to hepatocyte growth factor stimulus  (ISO)
cellular response to vascular endothelial growth factor stimulus  (ISO)
commissural neuron axon guidance  (ISO)
coronary artery morphogenesis  (ISO)
dendrite development  (ISO)
dichotomous subdivision of terminal units involved in salivary gland branching  (ISO)
dorsal root ganglion morphogenesis  (ISO)
endothelial cell chemotaxis  (ISO)
endothelial cell migration  (ISO)
facial nerve structural organization  (ISO)
facioacoustic ganglion development  (ISO)
gonadotrophin-releasing hormone neuronal migration to the hypothalamus  (ISO)
heart development  (ISO)
hepatocyte growth factor receptor signaling pathway  (ISO)
integrin-mediated signaling pathway  (ISO)
motor neuron axon guidance  (ISO)
motor neuron migration  (ISO,ISS)
negative regulation of axon extension  (ISO)
negative regulation of axon extension involved in axon guidance  (IMP,ISO)
negative regulation of extrinsic apoptotic signaling pathway  (ISO)
negative regulation of neuron apoptotic process  (ISO)
nerve development  (ISO)
nervous system development  (NAS)
neural crest cell migration involved in autonomic nervous system development  (ISO)
neuron development  (ISO)
neuron migration  (ISO)
neuropilin signaling pathway  (ISO)
otic placode development  (ISO)
outflow tract septum morphogenesis  (ISO)
platelet-derived growth factor receptor signaling pathway  (ISO)
positive chemotaxis  (ISO)
positive regulation of actin cytoskeleton reorganization  (ISO)
positive regulation of angiogenesis  (ISO)
positive regulation of axon extension involved in axon guidance  (ISO)
positive regulation of cell migration involved in sprouting angiogenesis  (ISO)
positive regulation of endothelial cell migration  (ISO)
positive regulation of ERK1 and ERK2 cascade  (ISO)
positive regulation of filopodium assembly  (ISO)
positive regulation of focal adhesion assembly  (ISO)
positive regulation of peptidyl-tyrosine phosphorylation  (ISO)
positive regulation of phosphorylation  (ISO)
positive regulation of retinal ganglion cell axon guidance  (ISO)
positive regulation of stress fiber assembly  (ISO)
positive regulation of substrate adhesion-dependent cell spreading  (ISO)
postsynapse organization  (ISO)
protein localization to early endosome  (ISO)
regulation of axon extension involved in axon guidance  (ISO)
regulation of catalytic activity  (IEA)
regulation of Cdc42 protein signal transduction  (ISO)
regulation of retinal ganglion cell axon guidance  (ISO)
renal artery morphogenesis  (ISO)
response to wounding  (IEP)
retina vasculature morphogenesis in camera-type eye  (ISO)
retinal ganglion cell axon guidance  (ISO)
semaphorin-plexin signaling pathway  (ISO)
semaphorin-plexin signaling pathway involved in axon guidance  (ISO)
semaphorin-plexin signaling pathway involved in neuron projection guidance  (ISO)
sensory neuron axon guidance  (ISO)
sprouting angiogenesis  (ISO)
substrate adhesion-dependent cell spreading  (ISO)
substrate-dependent cell migration, cell extension  (ISO)
sympathetic ganglion development  (ISO)
sympathetic nervous system development  (ISO)
sympathetic neuron projection extension  (ISO)
sympathetic neuron projection guidance  (ISO)
toxin transport  (ISO)
trigeminal ganglion development  (ISO)
trigeminal nerve morphogenesis  (ISO)
trigeminal nerve structural organization  (ISO)
vascular endothelial growth factor receptor signaling pathway  (ISO)
VEGF-activated neuropilin signaling pathway  (ISO)
VEGF-activated neuropilin signaling pathway involved in axon guidance  (ISO)
ventral trunk neural crest cell migration  (ISO)
vestibulocochlear nerve structural organization  (ISO)
viral entry into host cell  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:9529250   PMID:9753685   PMID:10705382   PMID:12477932   PMID:12591607   PMID:12852851   PMID:15094469   PMID:15126502   PMID:15239958   PMID:15376331   PMID:15489334   PMID:15604101  
PMID:15677725   PMID:15695515   PMID:15737738   PMID:15814794   PMID:16502470   PMID:16540575   PMID:16906543   PMID:17428830   PMID:17626059   PMID:17983687   PMID:18356247   PMID:18436584  
PMID:18632792   PMID:18804103   PMID:19325129   PMID:19386662   PMID:20524965   PMID:20888378   PMID:20956519   PMID:21059704   PMID:21245381   PMID:21423176   PMID:21658587   PMID:21828096  
PMID:21852397   PMID:22206666   PMID:22683681   PMID:22790009   PMID:23049211   PMID:23315162   PMID:23621014   PMID:23639442   PMID:23716698   PMID:24401374   PMID:24863063   PMID:25244320  
PMID:25416424   PMID:26051942   PMID:26053665   PMID:26410366   PMID:26503042   PMID:26509169   PMID:29088765   PMID:29457037   PMID:31505169  


Genomics

Comparative Map Data
Nrp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21956,359,455 - 56,514,628 (+)NCBI
Rnor_6.0 Ensembl1961,332,351 - 61,485,858 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01961,332,351 - 61,486,166 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01971,984,687 - 72,138,092 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41958,332,004 - 58,487,686 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11958,337,063 - 58,492,741 (+)NCBI
Celera1955,693,756 - 55,846,090 (+)NCBICelera
Cytogenetic Map19q12NCBI
NRP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1033,177,492 - 33,336,262 (-)EnsemblGRCh38hg38GRCh38
GRCh381033,177,493 - 33,334,667 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371033,466,421 - 33,623,595 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361033,506,432 - 33,663,839 (-)NCBINCBI36hg18NCBI36
Build 341033,506,432 - 33,663,476NCBI
Celera1033,231,763 - 33,389,179 (-)NCBI
Cytogenetic Map10p11.22NCBI
HuRef1033,186,444 - 33,343,500 (-)NCBIHuRef
CHM1_11033,468,091 - 33,625,451 (-)NCBICHM1_1
Nrp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398129,085,072 - 129,231,957 (+)NCBIGRCm39mm39
GRCm39 Ensembl8129,085,085 - 129,229,844 (+)Ensembl
GRCm388128,358,591 - 128,505,476 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8128,358,604 - 128,503,363 (+)EnsemblGRCm38mm10GRCm38
MGSCv378130,882,973 - 131,029,376 (+)NCBIGRCm37mm9NCBIm37
MGSCv368131,228,923 - 131,389,437 (+)NCBImm8
Celera8132,685,332 - 132,831,714 (+)NCBICelera
Cytogenetic Map8E2NCBI
cM Map875.78NCBI
Nrp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554624,101,999 - 4,241,012 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554624,101,997 - 4,241,012 (+)NCBIChiLan1.0ChiLan1.0
NRP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11033,883,162 - 34,039,645 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1033,883,173 - 34,039,648 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01033,298,918 - 33,456,466 (-)NCBIMhudiblu_PPA_v0panPan3
NRP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.123,416,062 - 3,553,929 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl23,413,821 - 3,552,483 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha23,515,185 - 3,653,323 (+)NCBI
ROS_Cfam_1.023,710,166 - 3,848,420 (+)NCBI
UMICH_Zoey_3.123,489,029 - 3,627,209 (+)NCBI
UNSW_CanFamBas_1.023,524,020 - 3,661,782 (+)NCBI
UU_Cfam_GSD_1.023,642,794 - 3,780,784 (+)NCBI
Nrp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934412,194,941 - 12,335,217 (-)NCBI
SpeTri2.0NW_0049365741,694,433 - 1,834,720 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NRP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1056,280,363 - 56,430,777 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11056,280,673 - 56,430,832 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21061,651,758 - 61,802,358 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NRP1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1932,474,787 - 32,632,746 (-)NCBI
ChlSab1.1 Ensembl932,474,309 - 32,633,101 (-)Ensembl
Vero_WHO_p1.0NW_02366605641,535,637 - 41,695,579 (-)NCBI
Nrp1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248058,438,485 - 8,574,845 (+)NCBI

Position Markers
D19Got121  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21956,483,791 - 56,484,006 (+)MAPPER
Rnor_6.01961,455,318 - 61,455,532NCBIRnor6.0
Rnor_5.01972,107,244 - 72,107,458UniSTSRnor5.0
RGSC_v3.41958,458,412 - 58,458,626UniSTSRGSC3.4
Celera1955,817,358 - 55,817,572UniSTS
Cytogenetic Map19q12UniSTS
D19Got141  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21956,468,387 - 56,468,544 (+)MAPPER
Rnor_6.01961,439,915 - 61,440,071NCBIRnor6.0
Rnor_5.01972,091,841 - 72,091,997UniSTSRnor5.0
RGSC_v3.41958,443,009 - 58,443,165UniSTSRGSC3.4
Celera1955,802,134 - 55,802,290UniSTS
Cytogenetic Map19q12UniSTS
RH127171  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21956,416,744 - 56,416,981 (+)MAPPER
Rnor_6.01961,389,662 - 61,389,898NCBIRnor6.0
Rnor_5.01972,041,877 - 72,042,113UniSTSRnor5.0
RGSC_v3.41958,390,825 - 58,391,061UniSTSRGSC3.4
Celera1955,750,447 - 55,750,683UniSTS
Cytogenetic Map19q12UniSTS
UniSTS:465488  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21956,512,021 - 56,512,410 (+)MAPPER
Rnor_6.01961,483,560 - 61,483,948NCBIRnor6.0
Rnor_5.01972,135,486 - 72,135,874UniSTSRnor5.0
RGSC_v3.41958,487,133 - 58,487,521UniSTSRGSC3.4
Celera1955,845,537 - 55,845,925UniSTS
Cytogenetic Map19q12UniSTS
Nrp1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21956,478,437 - 56,478,754 (+)MAPPER
Rnor_6.01961,449,964 - 61,450,280NCBIRnor6.0
Rnor_5.01972,101,890 - 72,102,206UniSTSRnor5.0
RGSC_v3.41958,453,058 - 58,453,374UniSTSRGSC3.4
Celera1955,812,004 - 55,812,320UniSTS
Cytogenetic Map19q12UniSTS
D17S1155  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21956,493,103 - 56,494,527 (+)MAPPER
Rnor_6.01961,464,630 - 61,466,053NCBIRnor6.0
Rnor_5.01972,116,556 - 72,117,979UniSTSRnor5.0
RGSC_v3.41958,467,726 - 58,469,149UniSTSRGSC3.4
Cytogenetic Map19q12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19243296362275575Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191899398262275575Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191917749562275575Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)192140778762275575Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192481825762275575Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)193299439262275575Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:172
Count of miRNA genes:130
Interacting mature miRNAs:149
Transcripts:ENSRNOT00000014492
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 43 36 22 17 22 8 9 70 35 34 11 8
Low 3 21 19 2 19 2 4 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000014492   ⟹   ENSRNOP00000014492
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1961,332,351 - 61,484,108 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000080465   ⟹   ENSRNOP00000075034
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1961,334,168 - 61,485,858 (+)Ensembl
RefSeq Acc Id: NM_145098   ⟹   NP_659566
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21956,359,455 - 56,512,575 (+)NCBI
Rnor_6.01961,332,351 - 61,484,113 (+)NCBI
Rnor_5.01971,984,687 - 72,138,092 (+)NCBI
RGSC_v3.41958,332,004 - 58,487,686 (+)RGD
Celera1955,693,756 - 55,846,090 (+)RGD
Sequence:
RefSeq Acc Id: XM_006255825   ⟹   XP_006255887
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21956,360,759 - 56,514,628 (+)NCBI
Rnor_6.01961,333,560 - 61,486,166 (+)NCBI
Rnor_5.01971,984,687 - 72,138,092 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006255826   ⟹   XP_006255888
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21956,361,202 - 56,514,628 (+)NCBI
Rnor_6.01961,334,102 - 61,486,166 (+)NCBI
Rnor_5.01971,984,687 - 72,138,092 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006255827   ⟹   XP_006255889
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21956,361,202 - 56,514,628 (+)NCBI
Rnor_6.01961,334,103 - 61,486,166 (+)NCBI
Rnor_5.01971,984,687 - 72,138,092 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_659566   ⟸   NM_145098
- Peptide Label: precursor
- UniProtKB: Q9QWJ9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006255887   ⟸   XM_006255825
- Peptide Label: isoform X1
- UniProtKB: Q9QWJ9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006255888   ⟸   XM_006255826
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006255889   ⟸   XM_006255827
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000075034   ⟸   ENSRNOT00000080465
RefSeq Acc Id: ENSRNOP00000014492   ⟸   ENSRNOT00000014492
Protein Domains
CUB   F5/8 type C   MAM

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13701262
Promoter ID:EPDNEW_R11781
Type:multiple initiation site
Name:Nrp1_2
Description:neuropilin 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11782  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01961,334,143 - 61,334,203EPDNEW
RGD ID:13701259
Promoter ID:EPDNEW_R11782
Type:initiation region
Name:Nrp1_1
Description:neuropilin 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11781  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01961,334,349 - 61,334,409EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621588 AgrOrtholog
Ensembl Genes ENSRNOG00000010744 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000014492 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000075034 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000014492 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000080465 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.120.260 UniProtKB/Swiss-Prot
  2.60.120.290 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7109697 IMAGE-MGC_LOAD
InterPro ConA-like_dom_sf UniProtKB/Swiss-Prot
  CUB_dom UniProtKB/Swiss-Prot
  FA58C UniProtKB/Swiss-Prot
  Galactose-bd-like_sf UniProtKB/Swiss-Prot
  MAM_dom UniProtKB/Swiss-Prot
  Neuropilin UniProtKB/Swiss-Prot
  Neuropilin_C UniProtKB/Swiss-Prot
  NRP1 UniProtKB/Swiss-Prot
  Sperma_CUB_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:246331 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93089 IMAGE-MGC_LOAD
NCBI Gene 246331 ENTREZGENE
PANTHER PTHR46806:SF4 UniProtKB/Swiss-Prot
Pfam CUB UniProtKB/Swiss-Prot
  DUF3481 UniProtKB/Swiss-Prot
  F5_F8_type_C UniProtKB/Swiss-Prot
  MAM UniProtKB/Swiss-Prot
PhenoGen Nrp1 PhenoGen
PIRSF Neuropilin UniProtKB/Swiss-Prot
PRINTS MAMDOMAIN UniProtKB/Swiss-Prot
PROSITE CUB UniProtKB/Swiss-Prot
  FA58C_1 UniProtKB/Swiss-Prot
  FA58C_2 UniProtKB/Swiss-Prot
  FA58C_3 UniProtKB/Swiss-Prot
  MAM_1 UniProtKB/Swiss-Prot
  MAM_2 UniProtKB/Swiss-Prot
SMART CUB UniProtKB/Swiss-Prot
  FA58C UniProtKB/Swiss-Prot
  MAM UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49785 UniProtKB/Swiss-Prot
  SSF49854 UniProtKB/Swiss-Prot
  SSF49899 UniProtKB/Swiss-Prot
UniProt NRP1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Nrp1  neuropilin 1  Nrp  neuropilin  Symbol and Name updated 1299863 APPROVED
2002-08-07 Nrp  neuropilin      Symbol and Name status set to provisional 70820 PROVISIONAL