Slit3 (slit guidance ligand 3) - Rat Genome Database

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Gene: Slit3 (slit guidance ligand 3) Rattus norvegicus
Analyze
Symbol: Slit3
Name: slit guidance ligand 3
RGD ID: 69311
Description: Predicted to enable Roundabout binding activity and heparin binding activity. Involved in spinal cord development. Predicted to be located in extracellular space. Biomarker of congenital diaphragmatic hernia. Orthologous to human SLIT3 (slit guidance ligand 3); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Megf5; multiple EGF-like domains protein 5; multiple epidermal growth factor-like domains 5; multiple epidermal growth factor-like domains protein 5; slit (Drosophila) homolog 3; slit homolog 3 (Drosophila); slit homolog 3 protein; slit-3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81020,075,929 - 20,660,704 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1020,076,021 - 20,660,704 (+)EnsemblGRCr8
mRatBN7.21019,571,798 - 20,156,634 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1019,571,684 - 20,156,634 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1024,327,438 - 24,913,272 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01023,815,979 - 24,401,801 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01019,295,723 - 19,880,358 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01019,924,200 - 20,517,918 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1020,320,878 - 20,518,518 (+)Ensemblrn6Rnor6.0
Rnor_5.01019,801,599 - 20,392,415 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41019,983,166 - 20,576,689 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1019,201,522 - 19,782,964 (+)NCBICelera
RGSC_v3.11020,098,220 - 20,577,738 (+)NCBI
Cytogenetic Map10q12NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2,4-dinitrotoluene  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
7,12-dimethyltetraphene  (ISO)
acetaldehyde  (ISO)
acetic acid [2-[[(5-nitro-2-thiazolyl)amino]-oxomethyl]phenyl] ester  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aripiprazole  (EXP)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
CGP 52608  (ISO)
chlormequat chloride  (EXP)
chlorpyrifos  (EXP)
choline  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
daunorubicin  (ISO)
dexamethasone  (ISO)
dibutyl phthalate  (ISO)
diethyl phthalate  (ISO)
diisobutyl phthalate  (ISO)
diisononyl phthalate  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
flusilazole  (ISO)
folic acid  (ISO)
fonofos  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
furan  (EXP)
genistein  (ISO)
gentamycin  (EXP)
glyphosate  (EXP)
indometacin  (ISO)
isotretinoin  (ISO)
L-methionine  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
mercury atom  (ISO)
mercury dibromide  (ISO)
mercury(0)  (ISO)
methapyrilene  (ISO)
methoxychlor  (EXP)
mifepristone  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N,N-diethyl-m-toluamide  (EXP)
nickel atom  (ISO)
nitrofen  (EXP)
okadaic acid  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
panobinostat  (ISO)
parathion  (ISO)
permethrin  (EXP)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
propanal  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sunitinib  (ISO)
temozolomide  (ISO)
terbufos  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
troglitazone  (ISO)
tunicamycin  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Slit proteins bind Robo receptors and have an evolutionarily conserved role in repulsive axon guidance. Brose K, etal., Cell 1999 Mar 19;96(6):795-806.
2. Upregulation of Slit-2 and Slit-3 gene expressions in the nitrofen-induced hypoplastic lung. Doi T, etal., J Pediatr Surg. 2009 Nov;44(11):2092-5. doi: 10.1016/j.jpedsurg.2009.02.068.
3. 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.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Dual trafficking of Slit3 to mitochondria and cell surface demonstrates novel localization for Slit protein. Little MH, etal., Am J Physiol Cell Physiol 2001 Aug;281(2):C486-95.
6. Spatiotemporal expression patterns of slit and robo genes in the rat brain. Marillat V, etal., J Comp Neurol. 2002 Jan 7;442(2):130-55.
7. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
8. Identification of high-molecular-weight proteins with multiple EGF-like motifs by motif-trap screening. Nakayama M, etal., Genomics 1998 Jul 1;51(1):27-34.
9. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
10. GOA pipeline RGD automated data pipeline
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. Comprehensive gene review and curation RGD comprehensive gene curation
14. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
15. Expression of netrin-1, slit-1 and slit-3 but not of slit-2 after cerebellar and spinal cord lesions. Wehrle R, etal., Eur J Neurosci. 2005 Nov;22(9):2134-44.
Additional References at PubMed
PMID:11748139   PMID:12954717   PMID:14550534   PMID:15091338   PMID:15207848   PMID:16840550   PMID:18566128   PMID:18755265   PMID:18829537   PMID:19741192   PMID:22206666   PMID:24006456  
PMID:25691540   PMID:28363469   PMID:35318077  


Genomics

Comparative Map Data
Slit3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81020,075,929 - 20,660,704 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1020,076,021 - 20,660,704 (+)EnsemblGRCr8
mRatBN7.21019,571,798 - 20,156,634 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1019,571,684 - 20,156,634 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1024,327,438 - 24,913,272 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01023,815,979 - 24,401,801 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01019,295,723 - 19,880,358 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01019,924,200 - 20,517,918 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1020,320,878 - 20,518,518 (+)Ensemblrn6Rnor6.0
Rnor_5.01019,801,599 - 20,392,415 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41019,983,166 - 20,576,689 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1019,201,522 - 19,782,964 (+)NCBICelera
RGSC_v3.11020,098,220 - 20,577,738 (+)NCBI
Cytogenetic Map10q12NCBI
SLIT3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385168,661,740 - 169,301,139 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5168,661,740 - 169,301,139 (-)Ensemblhg38GRCh38
GRCh375168,088,745 - 168,728,143 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365168,025,857 - 168,660,554 (-)NCBIBuild 36Build 36hg18NCBI36
Build 345168,025,856 - 168,660,554NCBI
Celera5164,128,856 - 164,759,439 (-)NCBICelera
Cytogenetic Map5q34-q35.1NCBI
HuRef5163,187,021 - 163,825,867 (-)NCBIHuRef
CHM1_15167,521,662 - 168,160,538 (-)NCBICHM1_1
T2T-CHM13v2.05169,196,497 - 169,836,714 (-)NCBIT2T-CHM13v2.0
Slit3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391135,012,283 - 35,599,334 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1135,012,051 - 35,599,334 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381135,121,456 - 35,708,507 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1135,121,224 - 35,708,507 (+)Ensemblmm10GRCm38
MGSCv371134,934,958 - 35,522,009 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361134,964,879 - 35,551,735 (+)NCBIMGSCv36mm8
Celera1138,900,451 - 39,489,864 (+)NCBICelera
Cytogenetic Map11A4NCBI
cM Map1120.29NCBI
Slit3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540821,722,632 - 22,322,917 (-)Ensembl
ChiLan1.0NW_00495540821,719,487 - 22,322,958 (-)NCBIChiLan1.0ChiLan1.0
SLIT3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24163,822,402 - 164,461,801 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15161,966,392 - 162,604,913 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05164,029,432 - 164,664,156 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15170,793,386 - 171,425,236 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5170,793,731 - 171,425,242 (-)EnsemblpanPan2panpan1.1
SLIT3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1442,506,680 - 43,099,053 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl442,508,426 - 43,094,714 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha442,466,027 - 43,055,860 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0442,928,562 - 43,521,077 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl442,928,887 - 43,516,993 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1442,700,926 - 43,290,974 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0442,893,778 - 43,485,410 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0443,399,255 - 43,991,187 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Slit3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721396,574,901 - 97,136,840 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936622565,346 - 752,299 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936622191,165 - 756,552 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLIT3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1654,553,426 - 55,220,296 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11654,551,536 - 55,221,427 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21659,123,810 - 59,790,312 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLIT3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12370,890,096 - 71,524,002 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2370,885,737 - 71,106,703 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660347,156,377 - 7,794,096 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slit3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473320,683,814 - 21,291,088 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473320,683,680 - 21,293,663 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Slit3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1918,295,966 - 18,884,171 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Slit3
5130 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:44
Count of miRNA genes:32
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000009714
Prediction methods: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
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101577675460776754Rat
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)10666092373950353Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10589381150893811Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10589381150893811Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)101465354159653541Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101553301273695498Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10687714251877142Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135730538Rat
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10130004247Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)101993920764939207Rat
737823Alc12Alcohol consumption QTL 124.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)101774978420796344Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)101803578263035782Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1092219745922197Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)10210370847103708Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10589381150893811Rat
2298495Eae23Experimental allergic encephalomyelitis QTL 2316.93nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis duration (CMO:0001424)101617552561175525Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101866841963668419Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)102011061465110614Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138832698Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10666111835509383Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101803578263035782Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101499153586964295Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014991535107713808Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014991535107556066Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)102011061465110614Rat

Markers in Region
D10Mit16  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81020,110,614 - 20,110,705 (+)Marker Load Pipeline
mRatBN7.21019,606,483 - 19,606,574 (+)MAPPERmRatBN7.2
Rnor_6.01019,958,696 - 19,958,786NCBIRnor6.0
Rnor_5.01019,835,926 - 19,836,016UniSTSRnor5.0
RGSC_v3.41020,018,844 - 20,018,935RGDRGSC3.4
RGSC_v3.41020,018,845 - 20,018,935UniSTSRGSC3.4
Celera1019,236,271 - 19,236,361UniSTS
RGSC_v3.11020,019,893 - 20,019,984RGD
SHRSP x BN Map1020.45UniSTS
SHRSP x BN Map1020.45RGD
FHH x ACI Map1014.0RGD
Cytogenetic Map10q12UniSTS
D10Rat45  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21019,815,919 - 19,816,042 (+)MAPPERmRatBN7.2
Rnor_6.01020,169,909 - 20,170,031NCBIRnor6.0
Rnor_5.01020,046,344 - 20,046,466UniSTSRnor5.0
RGSC_v3.41020,233,007 - 20,233,129UniSTSRGSC3.4
RGSC_v3.41020,233,004 - 20,233,281RGDRGSC3.4
Celera1019,443,769 - 19,443,891UniSTS
RGSC_v3.11020,234,056 - 20,234,178RGD
RH 3.4 Map10214.43RGD
RH 3.4 Map10214.43UniSTS
RH 2.0 Map10220.8RGD
SHRSP x BN Map1021.6RGD
FHH x ACI Map1014.0RGD
Cytogenetic Map10q12UniSTS
D10Rat113  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81020,074,644 - 20,074,883 (+)Marker Load Pipeline
mRatBN7.21019,570,513 - 19,570,752 (+)MAPPERmRatBN7.2
Rnor_6.01019,922,916 - 19,923,154NCBIRnor6.0
Rnor_5.01019,800,315 - 19,800,553UniSTSRnor5.0
RGSC_v3.41019,981,830 - 19,982,189RGDRGSC3.4
RGSC_v3.41019,981,882 - 19,982,120UniSTSRGSC3.4
Celera1019,200,238 - 19,200,476UniSTS
RGSC_v3.11019,982,931 - 19,983,169RGD
RH 3.4 Map10214.43RGD
RH 3.4 Map10214.43UniSTS
RH 2.0 Map10217.1RGD
SHRSP x BN Map1020.49RGD
FHH x ACI Map1014.03RGD
Cytogenetic Map10q12UniSTS
D11Mit186  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21019,685,116 - 19,685,266 (+)MAPPERmRatBN7.2
Rnor_6.01020,037,355 - 20,037,504NCBIRnor6.0
Rnor_5.01019,913,800 - 19,913,949UniSTSRnor5.0
RGSC_v3.41020,098,080 - 20,098,229UniSTSRGSC3.4
Celera1019,313,598 - 19,313,747UniSTS
Cytogenetic Map10q12UniSTS
RH143863  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21020,007,320 - 20,007,473 (+)MAPPERmRatBN7.2
Rnor_6.01020,367,558 - 20,367,710NCBIRnor6.0
Rnor_5.01020,242,006 - 20,242,158UniSTSRnor5.0
RGSC_v3.41020,426,280 - 20,426,432UniSTSRGSC3.4
Celera1019,633,830 - 19,633,982UniSTS
Cytogenetic Map10q12UniSTS
BF399581  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21019,858,250 - 19,858,445 (+)MAPPERmRatBN7.2
Rnor_6.01020,212,230 - 20,212,424NCBIRnor6.0
Rnor_5.01020,089,093 - 20,089,287UniSTSRnor5.0
RGSC_v3.41020,276,570 - 20,276,764UniSTSRGSC3.4
Celera1019,486,121 - 19,486,315UniSTS
Cytogenetic Map10q12UniSTS
BF405181  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21019,779,588 - 19,779,797 (+)MAPPERmRatBN7.2
Rnor_6.01020,131,797 - 20,132,005NCBIRnor6.0
Rnor_5.01020,008,232 - 20,008,440UniSTSRnor5.0
RGSC_v3.41020,194,057 - 20,194,265UniSTSRGSC3.4
Celera1019,407,950 - 19,408,158UniSTS
Cytogenetic Map10q12UniSTS
BE108987  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21019,904,217 - 19,904,416 (+)MAPPERmRatBN7.2
Rnor_6.01020,258,085 - 20,258,283NCBIRnor6.0
Rnor_5.01020,134,869 - 20,135,067UniSTSRnor5.0
RGSC_v3.41020,322,623 - 20,322,821UniSTSRGSC3.4
Celera1019,531,834 - 19,532,032UniSTS
Cytogenetic Map10q12UniSTS
RH138151  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21019,720,770 - 19,720,999 (+)MAPPERmRatBN7.2
Rnor_6.01020,073,026 - 20,073,254NCBIRnor6.0
Rnor_5.01019,949,481 - 19,949,709UniSTSRnor5.0
RGSC_v3.41020,134,211 - 20,134,439UniSTSRGSC3.4
Celera1019,349,245 - 19,349,473UniSTS
Cytogenetic Map10q12UniSTS
BG373360  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21020,070,297 - 20,070,508 (+)MAPPERmRatBN7.2
Rnor_6.01020,430,508 - 20,430,718NCBIRnor6.0
Rnor_5.01020,305,005 - 20,305,215UniSTSRnor5.0
RGSC_v3.41020,489,279 - 20,489,489UniSTSRGSC3.4
Celera1019,696,795 - 19,697,005UniSTS
RH 3.4 Map10215.32UniSTS
Cytogenetic Map10q12UniSTS
AU048637  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21019,606,415 - 19,606,644 (+)MAPPERmRatBN7.2
Rnor_6.01019,958,628 - 19,958,856NCBIRnor6.0
Rnor_5.01019,835,858 - 19,836,086UniSTSRnor5.0
RGSC_v3.41020,018,777 - 20,019,005UniSTSRGSC3.4
Celera1019,236,203 - 19,236,431UniSTS
Cytogenetic Map10q12UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
17 13 73 164 91 90 59 56 59 6 341 163 13 147 94 97 31 20 20

Sequence


Ensembl Acc Id: ENSRNOT00000009714   ⟹   ENSRNOP00000009714
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1020,076,021 - 20,660,704 (+)Ensembl
mRatBN7.2 Ensembl1019,571,684 - 20,156,634 (+)Ensembl
Rnor_6.0 Ensembl1020,320,878 - 20,518,518 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000147826   ⟹   ENSRNOP00000103735
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1020,076,021 - 20,660,704 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000155829   ⟹   ENSRNOP00000103650
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1020,076,021 - 20,660,704 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000165965   ⟹   ENSRNOP00000101263
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1020,076,208 - 20,660,704 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000172853   ⟹   ENSRNOP00000110025
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1020,076,348 - 20,660,704 (+)Ensembl
RefSeq Acc Id: NM_031321   ⟹   NP_112611
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81020,075,929 - 20,660,704 (+)NCBI
mRatBN7.21019,571,798 - 20,156,634 (+)NCBI
Rnor_6.01019,924,200 - 20,517,918 (+)NCBI
Rnor_5.01019,801,599 - 20,392,415 (+)NCBI
RGSC_v3.41019,983,166 - 20,576,689 (+)RGD
Celera1019,201,522 - 19,782,964 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_112611 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAA32461 (Get FASTA)   NCBI Sequence Viewer  
  EDM04090 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000009714
GenBank Protein O88280 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_112611   ⟸   NM_031321
- Peptide Label: precursor
- UniProtKB: O88280 (UniProtKB/Swiss-Prot),   F1LQL9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000009714   ⟸   ENSRNOT00000009714
Ensembl Acc Id: ENSRNOP00000103735   ⟸   ENSRNOT00000147826
Ensembl Acc Id: ENSRNOP00000110025   ⟸   ENSRNOT00000172853
Ensembl Acc Id: ENSRNOP00000101263   ⟸   ENSRNOT00000165965
Ensembl Acc Id: ENSRNOP00000103650   ⟸   ENSRNOT00000155829
Protein Domains
CTCK   EGF-like   Laminin G   Laminin G-like   LRRCT   LRRNT

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O88280-F1-model_v2 AlphaFold O88280 1-1523 view protein structure

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:69311 AgrOrtholog
BioCyc Gene G2FUF-25558 BioCyc
Ensembl Genes ENSRNOG00000007377 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000009714 ENTREZGENE
Gene3D-CATH 2.60.120.200 UniProtKB/Swiss-Prot
  3.80.10.10 UniProtKB/Swiss-Prot
  Laminin UniProtKB/Swiss-Prot
InterPro ConA-like_dom_sf UniProtKB/Swiss-Prot
  Cys-rich_flank_reg_C UniProtKB/Swiss-Prot
  Cys_knot_C UniProtKB/Swiss-Prot
  EGF-like_Ca-bd_dom UniProtKB/Swiss-Prot
  EGF-like_dom UniProtKB/Swiss-Prot
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/Swiss-Prot
  EGF_Ca-bd_CS UniProtKB/Swiss-Prot
  Growth_fac_rcpt_cys_sf UniProtKB/Swiss-Prot
  Laminin_G UniProtKB/Swiss-Prot
  Leu-rich_rpt UniProtKB/Swiss-Prot
  Leu-rich_rpt_typical-subtyp UniProtKB/Swiss-Prot
  LRR_dom_sf UniProtKB/Swiss-Prot
  LRRNT UniProtKB/Swiss-Prot
  Notch/Slit_guidance UniProtKB/Swiss-Prot
KEGG Report rno:83467 UniProtKB/Swiss-Prot
NCBI Gene 83467 ENTREZGENE
PANTHER SLIT HOMOLOG UniProtKB/Swiss-Prot
  SLIT HOMOLOG 3 PROTEIN UniProtKB/Swiss-Prot
Pfam EGF UniProtKB/Swiss-Prot
  Laminin_G_2 UniProtKB/Swiss-Prot
  LRR_8 UniProtKB/Swiss-Prot
  LRRCT UniProtKB/Swiss-Prot
  LRRNT UniProtKB/Swiss-Prot
PhenoGen Slit3 PhenoGen
PROSITE CTCK_1 UniProtKB/Swiss-Prot
  CTCK_2 UniProtKB/Swiss-Prot
  EGF_1 UniProtKB/Swiss-Prot
  EGF_2 UniProtKB/Swiss-Prot
  EGF_3 UniProtKB/Swiss-Prot
  EGF_CA UniProtKB/Swiss-Prot
  LAM_G_DOMAIN UniProtKB/Swiss-Prot
  LRR UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000007377 RatGTEx
SMART EGF UniProtKB/Swiss-Prot
  EGF_CA UniProtKB/Swiss-Prot
  LamG UniProtKB/Swiss-Prot
  LRR_BAC UniProtKB/Swiss-Prot
  LRR_SD22 UniProtKB/Swiss-Prot
  LRR_TYP UniProtKB/Swiss-Prot
  LRRCT UniProtKB/Swiss-Prot
  LRRNT UniProtKB/Swiss-Prot
  SM00041 UniProtKB/Swiss-Prot
Superfamily-SCOP EGF/Laminin UniProtKB/Swiss-Prot
  L domain-like UniProtKB/Swiss-Prot
  SSF49899 UniProtKB/Swiss-Prot
  SSF57184 UniProtKB/Swiss-Prot
TIGR TC207770
UniProt A0ABK0L033_RAT UniProtKB/TrEMBL
  A0ABK0L3I0_RAT UniProtKB/TrEMBL
  A0ABK0LGR5_RAT UniProtKB/TrEMBL
  A0ABK0LQ99_RAT UniProtKB/TrEMBL
  A6HDI5_RAT UniProtKB/TrEMBL
  F1LQL9 ENTREZGENE, UniProtKB/TrEMBL
  O88280 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-01 Slit3  slit guidance ligand 3  Slit3  slit homolog 3 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Slit3  slit homolog 3 (Drosophila)      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference