SLIT3 (slit guidance ligand 3) - Rat Genome Database

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Gene: SLIT3 (slit guidance ligand 3) Canis lupus familiaris
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Symbol: SLIT3
Name: slit guidance ligand 3
RGD ID: 12211135
Description: ENCODES a protein that exhibits calcium ion binding (inferred); Roundabout binding (inferred); INVOLVED IN chemorepulsion involved in embryonic olfactory bulb interneuron precursor migration (ortholog); spinal cord development (ortholog); ASSOCIATED WITH atrial fibrillation (ortholog); Brain Injuries (ortholog); congenital diaphragmatic hernia (ortholog); FOUND IN extracellular space (inferred); membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: slit homolog 3; slit homolog 3 protein
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
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 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha442,466,027 - 43,055,860 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0442,928,562 - 43,521,077 (+)NCBIROS_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_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:17146174   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha442,466,027 - 43,055,860 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0442,928,562 - 43,521,077 (+)NCBIROS_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_1.0
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 (-)EnsemblGRCh38hg38GRCh38
GRCh375168,088,745 - 168,728,143 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365168,025,857 - 168,660,554 (-)NCBINCBI36Build 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 Ensembl
GRCm381135,121,456 - 35,708,507 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1135,121,224 - 35,708,507 (+)EnsemblGRCm38mm10GRCm38
MGSCv371134,934,958 - 35,522,009 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361134,964,879 - 35,551,735 (+)NCBIMGSCv36mm8
Celera1138,900,451 - 39,489,864 (+)NCBICelera
Cytogenetic Map11A4NCBI
cM Map1120.29NCBI
Slit3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81020,075,929 - 20,660,704 (+)NCBIGRCr8
mRatBN7.21019,571,798 - 20,156,634 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1019,571,684 - 20,156,634 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1024,327,438 - 24,913,272 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01023,815,979 - 24,401,801 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01019,295,723 - 19,880,358 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01019,924,200 - 20,517,918 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1020,320,878 - 20,518,518 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01019,801,599 - 20,392,415 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41019,983,166 - 20,576,689 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11020,098,220 - 20,577,738 (+)NCBI
Celera1019,201,522 - 19,782,964 (+)NCBICelera
Cytogenetic Map10q12NCBI
Slit3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540821,722,632 - 22,322,917 (-)EnsemblChiLan1.0
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 (-)Ensemblpanpan1.1panPan2
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 (+)EnsemblSpeTri2.0SpeTri2.0 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 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473320,683,680 - 21,293,663 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SLIT3
6185 total Variants

Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
6 5 5 23 22 16 6 6 6 6 33 22 12 14 10

Sequence


Ensembl Acc Id: ENSCAFT00000026988   ⟹   ENSCAFP00000025090
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl442,873,378 - 43,094,714 (+)Ensembl
Ensembl Acc Id: ENSCAFT00000092459   ⟹   ENSCAFP00000050921
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl442,508,426 - 43,094,714 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845005329   ⟹   ENSCAFP00845004244
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl442,928,887 - 43,516,993 (+)Ensembl
RefSeq Acc Id: XM_038474327   ⟹   XP_038330255
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1442,700,926 - 43,290,974 (+)NCBI
RefSeq Acc Id: XM_038501639   ⟹   XP_038357567
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha442,466,027 - 43,055,860 (+)NCBI
RefSeq Acc Id: XM_038535455   ⟹   XP_038391383
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0443,399,255 - 43,991,187 (+)NCBI
RefSeq Acc Id: XM_038598068   ⟹   XP_038453996
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0442,893,778 - 43,485,410 (+)NCBI
RefSeq Acc Id: XM_038662376   ⟹   XP_038518304
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0442,928,562 - 43,521,077 (+)NCBI
Ensembl Acc Id: ENSCAFP00000050921   ⟸   ENSCAFT00000092459
Ensembl Acc Id: ENSCAFP00000025090   ⟸   ENSCAFT00000026988
RefSeq Acc Id: XP_038330255   ⟸   XM_038474327
RefSeq Acc Id: XP_038453996   ⟸   XM_038598068
RefSeq Acc Id: XP_038518304   ⟸   XM_038662376
- UniProtKB: A0A8I3MRE2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038357567   ⟸   XM_038501639
- UniProtKB: A0A8C0LQV8 (UniProtKB/TrEMBL),   A0A8P0P0P5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038391383   ⟸   XM_038535455
- UniProtKB: A0A8C0LQV8 (UniProtKB/TrEMBL),   A0A8P0P0P5 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSCAFP00845004244   ⟸   ENSCAFT00845005329
Protein Domains
CTCK   EGF-like   Laminin G


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000017027 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030000043 UniProtKB/TrEMBL
  ENSCAFG00845002910 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000092459.2 UniProtKB/TrEMBL
  ENSCAFT00030000119.1 UniProtKB/TrEMBL
  ENSCAFT00845005329 ENTREZGENE
  ENSCAFT00845005329.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.200 UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/TrEMBL
  Laminin UniProtKB/TrEMBL
InterPro ConA-like_dom_sf UniProtKB/TrEMBL
  Cys-rich_flank_reg_C UniProtKB/TrEMBL
  Cys_knot_C UniProtKB/TrEMBL
  EGF-like_Ca-bd_dom UniProtKB/TrEMBL
  EGF-like_dom UniProtKB/TrEMBL
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/TrEMBL
  EGF_Ca-bd_CS UniProtKB/TrEMBL
  Growth_fac_rcpt_cys_sf UniProtKB/TrEMBL
  Laminin_G UniProtKB/TrEMBL
  Leu-rich_rpt UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
  Neurexin-related_CASP UniProtKB/TrEMBL
  Notch/Slit_guidance UniProtKB/TrEMBL
NCBI Gene SLIT3 ENTREZGENE
PANTHER NEUREXIN-4 UniProtKB/TrEMBL
  PIKACHURIN-LIKE PROTEIN UniProtKB/TrEMBL
  PROTEIN SLIT UniProtKB/TrEMBL
  SLIT HOMOLOG UniProtKB/TrEMBL
Pfam EGF UniProtKB/TrEMBL
  Laminin_G_2 UniProtKB/TrEMBL
  LRR_8 UniProtKB/TrEMBL
  LRRCT UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
PROSITE ASX_HYDROXYL UniProtKB/TrEMBL
  CTCK_1 UniProtKB/TrEMBL
  CTCK_2 UniProtKB/TrEMBL
  EGF_1 UniProtKB/TrEMBL
  EGF_2 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
  LAM_G_DOMAIN UniProtKB/TrEMBL
  LRR UniProtKB/TrEMBL
SMART EGF UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
  LamG UniProtKB/TrEMBL
  LRR_RI UniProtKB/TrEMBL
  LRR_SD22 UniProtKB/TrEMBL
  LRR_TYP UniProtKB/TrEMBL
  LRRCT UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
  SM00041 UniProtKB/TrEMBL
Superfamily-SCOP EGF/Laminin UniProtKB/TrEMBL
  L domain-like UniProtKB/TrEMBL
  SSF49899 UniProtKB/TrEMBL
  SSF57184 UniProtKB/TrEMBL
UniProt A0A8C0LQV8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MRE2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0P0P5 ENTREZGENE
  Q59I56_CANLF UniProtKB/TrEMBL
UniProt Secondary A0A8P0P0P5 UniProtKB/TrEMBL
VGNC ID VGNC:46505 ENTREZGENE