Ntn1 (netrin 1) - Rat Genome Database

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Gene: Ntn1 (netrin 1) Rattus norvegicus
Analyze
Symbol: Ntn1
Name: netrin 1
RGD ID: 619809
Description: Involved in several processes, including positive regulation of axon extension; small GTPase-mediated signal transduction; and substrate-dependent cell migration, cell extension. Predicted to be located in several cellular components, including actin cytoskeleton; cytosol; and nucleoplasm. Predicted to be active in basement membrane and glutamatergic synapse. Human ortholog(s) of this gene implicated in congenital mirror movement disorder. Orthologous to human NTN1 (netrin 1); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: netrin-1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81053,398,852 - 53,597,595 (-)NCBIGRCr8
mRatBN7.21052,899,933 - 53,098,591 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1052,899,934 - 53,085,326 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1057,569,983 - 57,744,352 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01057,059,000 - 57,233,370 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01052,559,808 - 52,740,213 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01054,761,925 - 54,982,072 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1054,761,871 - 54,967,585 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01054,507,464 - 54,725,989 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41054,950,521 - 55,133,536 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11054,964,143 - 55,147,159 (-)NCBI
Celera1052,078,465 - 52,253,812 (-)NCBICelera
Cytogenetic Map10q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
17beta-estradiol  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
acetamide  (EXP)
actinomycin D  (ISO)
aflatoxin B1  (ISO)
ammonium chloride  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
benzo[e]pyrene  (ISO)
Benzo[k]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol A diglycidyl ether  (ISO)
bisphenol AF  (EXP)
bisphenol F  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP)
camptothecin  (ISO)
cantharidin  (ISO)
CGP 52608  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
cocaine  (EXP)
curcumin  (EXP)
DDT  (EXP)
dexamethasone  (ISO)
diazinon  (EXP)
dieldrin  (EXP)
doxorubicin  (ISO)
ethanol  (ISO)
folic acid  (ISO)
fulvestrant  (ISO)
fumonisin B1  (ISO)
indometacin  (ISO)
inulin  (ISO)
kainic acid  (EXP)
lipopolysaccharide  (ISO)
lithium chloride  (ISO)
malathion  (ISO)
maneb  (ISO)
methapyrilene  (ISO)
methoxychlor  (EXP)
methylmercury chloride  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (ISO)
nickel dichloride  (EXP)
Nutlin-3  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
pentanal  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
propanal  (ISO)
rimonabant  (ISO)
rotenone  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
streptozocin  (ISO)
sunitinib  (ISO)
tetrachloromethane  (ISO)
tetraphene  (ISO)
titanium dioxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
troglitazone  (ISO)
valproic acid  (ISO)
WIN 55212-2  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
actin cytoskeleton  (IEA,ISO)
basement membrane  (IBA,IEA,ISO)
cytoplasm  (ISO)
cytosol  (IEA,ISO)
extracellular region  (IEA,ISO,TAS)
glutamatergic synapse  (IEA,ISO)
nucleoplasm  (IEA,ISO)
synapse  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Widespread expression of netrin-1 by neurons and oligodendrocytes in the adult mammalian spinal cord. Manitt C, etal., J Neurosci 2001 Jun 1;21(11):3911-22.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. BIBF1120 (Vargatef) Inhibits Preretinal Neovascularization and Enhances Normal Vascularization in a Model of Vasoproliferative Retinopathy. Rivera JC, etal., Invest Ophthalmol Vis Sci. 2015 Dec;56(13):7897-907. doi: 10.1167/iovs.15-17146.
10. Conversion of a signal into forces for axon outgrowth through Pak1-mediated shootin1 phosphorylation. Toriyama M, etal., Curr Biol. 2013 Mar 18;23(6):529-34. doi: 10.1016/j.cub.2013.02.017. Epub 2013 Feb 28.
11. Key mechanisms underlying netrin-1 prevention of impaired spatial and object memory in Aß1-42 CA1-injected rats. Zamani E, etal., Clin Exp Pharmacol Physiol. 2018 Aug 1. doi: 10.1111/1440-1681.13020.
Additional References at PubMed
PMID:9143559   PMID:10704383   PMID:10908620   PMID:12051827   PMID:12679031   PMID:12819897   PMID:14750959   PMID:15737744   PMID:16267219   PMID:16439476   PMID:16481423   PMID:17086203  
PMID:17574219   PMID:17616930   PMID:17825258   PMID:17898206   PMID:17995930   PMID:18234888   PMID:18425773   PMID:18479186   PMID:18757743   PMID:18932228   PMID:19858080   PMID:20052412  
PMID:21726647   PMID:21820492   PMID:22323486   PMID:22997549   PMID:23230270   PMID:24174661   PMID:25240286   PMID:25834042   PMID:26116534   PMID:26482371   PMID:26787017   PMID:26818229  
PMID:27060954   PMID:27176224   PMID:28084632   PMID:28483977   PMID:28526701   PMID:28931811   PMID:28945198   PMID:30626732   PMID:30789913   PMID:31846437   PMID:32251100   PMID:32688140  
PMID:34576252   PMID:36786711   PMID:38538215  


Genomics

Comparative Map Data
Ntn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81053,398,852 - 53,597,595 (-)NCBIGRCr8
mRatBN7.21052,899,933 - 53,098,591 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1052,899,934 - 53,085,326 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1057,569,983 - 57,744,352 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01057,059,000 - 57,233,370 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01052,559,808 - 52,740,213 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01054,761,925 - 54,982,072 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1054,761,871 - 54,967,585 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01054,507,464 - 54,725,989 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41054,950,521 - 55,133,536 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11054,964,143 - 55,147,159 (-)NCBI
Celera1052,078,465 - 52,253,812 (-)NCBICelera
Cytogenetic Map10q24NCBI
NTN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38179,003,087 - 9,244,000 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl179,021,510 - 9,244,000 (+)EnsemblGRCh38hg38GRCh38
GRCh37178,924,827 - 9,147,317 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36178,865,584 - 9,088,042 (+)NCBINCBI36Build 36hg18NCBI36
Build 34178,865,583 - 9,084,078NCBI
Celera178,956,718 - 9,179,095 (+)NCBICelera
Cytogenetic Map17p13.1NCBI
HuRef178,823,748 - 9,046,260 (+)NCBIHuRef
CHM1_1178,934,056 - 9,156,348 (+)NCBICHM1_1
T2T-CHM13v2.0178,910,268 - 9,150,998 (+)NCBIT2T-CHM13v2.0
Ntn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391168,100,190 - 68,277,652 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1168,100,190 - 68,291,649 (-)EnsemblGRCm39 Ensembl
GRCm381168,209,364 - 68,386,826 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1168,209,364 - 68,400,823 (-)EnsemblGRCm38mm10GRCm38
MGSCv371168,022,866 - 68,200,328 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361168,029,201 - 68,202,315 (-)NCBIMGSCv36mm8
Celera1175,146,897 - 75,324,142 (-)NCBICelera
Cytogenetic Map11B3NCBI
cM Map1141.45NCBI
Ntn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554677,794,735 - 7,991,695 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554677,795,175 - 7,991,597 (-)NCBIChiLan1.0ChiLan1.0
NTN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21964,503,878 - 64,726,212 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11769,313,754 - 69,536,000 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01742,409,797 - 42,631,930 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11747,148,384 - 47,368,127 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1747,152,225 - 47,368,134 (-)Ensemblpanpan1.1panPan2
NTN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1533,654,723 - 33,825,832 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl533,637,142 - 33,825,899 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha533,791,096 - 33,962,030 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0533,758,267 - 33,929,266 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl533,757,152 - 33,929,220 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1533,725,541 - 33,896,204 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0533,683,225 - 33,853,961 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0533,859,633 - 34,030,422 (+)NCBIUU_Cfam_GSD_1.0
Ntn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560248,672,178 - 48,849,151 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365952,146,366 - 2,323,399 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365952,146,371 - 2,323,346 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NTN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1254,089,472 - 54,292,193 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11254,089,444 - 54,292,191 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21256,822,597 - 57,056,391 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NTN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1168,359,682 - 8,603,231 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl168,379,129 - 8,603,223 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605912,748,497 - 13,022,123 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ntn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478611,526,050 - 11,703,258 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478611,508,643 - 11,707,060 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ntn1
830 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:131
Count of miRNA genes:102
Interacting mature miRNAs:108
Transcripts:ENSRNOT00000005255
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103539245763642539Rat
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105057470795574707Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
152025229Scl83Serum cholesterol level QTL 834.33blood cholesterol amount (VT:0000180)103571058068663659Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103129743976297439Rat
152025227Bw195Body weight QTL 1955.73body mass (VT:0001259)104698969968663659Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)104944455181709989Rat
152025224Bw193Body weight QTL 1936.47body mass (VT:0001259)105166340575085664Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)104114263386142633Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042045676104670812Rat
2293679Bmd30Bone mineral density QTL 303.50.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
1578762Toxo1Toxoplasma gondii resistance QTL 1brain integrity trait (VT:0010579)percentage of study population displaying Toxoplasma gondii brain cysts at a point in time (CMO:0002028)105220003059378278Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104133325886333258Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104444169989441699Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104502965095600334Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102132980561345413Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103539226764155584Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102929950464155584Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)14232313287323132Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104444169989441699Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
2293652Bmd22Bone mineral density QTL 224.90.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)104232313287323132Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)105177294096772940Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1051770177107211142Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)103756507982565079Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102652195761345413Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)103756507982565079Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)101960648364606483Rat
70364Bp72Blood pressure QTL 72arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105112110096121100Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105177461295600334Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105178628291669536Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103397392178973921Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104194452678307017Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
2293705Bmd25Bone mineral density QTL 257.10.0001femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)104944455181709989Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040035094102359817Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
7207811Bmd90Bone mineral density QTL 905.2femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)104944455181709989Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103122402675632053Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104444169989441699Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104736947092369470Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)104287676679813922Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)101960648364606483Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat

Markers in Region
D10Rat59  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81053,456,215 - 53,456,361 (+)Marker Load Pipeline
mRatBN7.21052,957,296 - 52,957,442 (+)MAPPERmRatBN7.2
Rnor_6.01054,816,216 - 54,816,361NCBIRnor6.0
Rnor_5.01054,561,755 - 54,561,900UniSTSRnor5.0
RGSC_v3.41055,004,338 - 55,004,484RGDRGSC3.4
RGSC_v3.41055,004,339 - 55,004,484UniSTSRGSC3.4
RGSC_v3.11055,017,915 - 55,018,228RGD
Celera1052,132,256 - 52,132,401UniSTS
FHH x ACI Map1042.61UniSTS
FHH x ACI Map1042.61RGD
Cytogenetic Map10q24UniSTS
AU046514  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21053,067,284 - 53,067,487 (+)MAPPERmRatBN7.2
Rnor_6.01054,950,669 - 54,950,871NCBIRnor6.0
Rnor_5.01054,694,720 - 54,694,922UniSTSRnor5.0
RGSC_v3.41055,116,482 - 55,116,684UniSTSRGSC3.4
Celera1052,239,613 - 52,239,820UniSTS
Cytogenetic Map10q24UniSTS
ha2998  
Rat AssemblyChrPosition (strand)SourceJBrowse
RGSC_v3.41055,083,506 - 55,084,899UniSTSRGSC3.4
Cytogenetic Map10q24UniSTS
NZPR1680  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21053,079,913 - 53,081,309 (+)MAPPERmRatBN7.2
Rnor_6.01054,963,269 - 54,964,663NCBIRnor6.0
Rnor_5.01054,707,260 - 54,708,654UniSTSRnor5.0
RGSC_v3.41055,129,134 - 55,130,528UniSTSRGSC3.4
Cytogenetic Map10q24UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000005255   ⟹   ENSRNOP00000005255
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1052,899,934 - 53,085,326 (-)Ensembl
Rnor_6.0 Ensembl1054,761,871 - 54,967,585 (-)Ensembl
RefSeq Acc Id: NM_053731   ⟹   NP_446183
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81053,398,852 - 53,584,060 (-)NCBI
mRatBN7.21052,899,933 - 53,085,164 (-)NCBI
Rnor_6.01054,761,997 - 54,967,671 (-)NCBI
Rnor_5.01054,507,464 - 54,725,989 (-)NCBI
RGSC_v3.41054,950,521 - 55,133,536 (-)RGD
Celera1052,078,465 - 52,253,812 (-)RGD
Sequence:
RefSeq Acc Id: XM_006246568   ⟹   XP_006246630
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81053,398,853 - 53,597,595 (-)NCBI
mRatBN7.21052,899,933 - 53,098,591 (-)NCBI
Rnor_6.01054,761,925 - 54,982,072 (-)NCBI
Rnor_5.01054,507,464 - 54,725,989 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_446183 (Get FASTA)   NCBI Sequence Viewer  
  XP_006246630 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAK17014 (Get FASTA)   NCBI Sequence Viewer  
  CAA72188 (Get FASTA)   NCBI Sequence Viewer  
  EDM04807 (Get FASTA)   NCBI Sequence Viewer  
  EDM04808 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000005255.4
GenBank Protein Q924Z9 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_446183   ⟸   NM_053731
- Peptide Label: precursor
- UniProtKB: Q924Z9 (UniProtKB/Swiss-Prot),   F1LPC8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006246630   ⟸   XM_006246568
- Peptide Label: isoform X1
- UniProtKB: Q924Z9 (UniProtKB/Swiss-Prot),   F1LPC8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000005255   ⟸   ENSRNOT00000005255
Protein Domains
Laminin EGF-like   Laminin N-terminal   NTR

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619809 AgrOrtholog
BioCyc Gene G2FUF-24637 BioCyc
Ensembl Genes ENSRNOG00000003947 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000005255.4 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.120 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Galactose-binding domain-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Laminin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Galactose-bd-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Laminin/Netrin_ECM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Laminin_EGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Laminin_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Netrin_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Netrin_module_non-TIMP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TIMP-like_OB-fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:114523 UniProtKB/TrEMBL
NCBI Gene 114523 ENTREZGENE
PANTHER LAMININ SUBUNIT GAMMA-1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NETRIN/LAMININ-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Laminin_EGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Laminin_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NTR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ntn1 PhenoGen
PROSITE EGF_1 UniProtKB/Swiss-Prot
  EGF_LAM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_LAM_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LAMININ_NTER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NTR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003947 RatGTEx
SMART C345C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_Lam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LamNT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP EGF/Laminin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF49785 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF50242 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6HFK2_RAT UniProtKB/TrEMBL
  A6HFK3_RAT UniProtKB/TrEMBL
  F1LPC8 ENTREZGENE, UniProtKB/TrEMBL
  NET1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Ntn1  netrin 1      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Ntn1  netrin 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in spinal inteneurons, motoneurons, and oligodendrocytes in the adult spinal cord 633501