SLIT1 (slit guidance ligand 1) - Rat Genome Database

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Gene: SLIT1 (slit guidance ligand 1) Chlorocebus sabaeus
Analyze
Symbol: SLIT1
Name: slit guidance ligand 1
RGD ID: 18348845
Description: ENCODES a protein that exhibits heparan sulfate proteoglycan binding (ortholog); INVOLVED IN axon guidance (ortholog); axonogenesis (ortholog); chemorepulsion involved in embryonic olfactory bulb interneuron precursor migration (ortholog); ASSOCIATED WITH Brain Injuries (ortholog); genetic disease (ortholog); Monomelic Amyotrophy (ortholog); FOUND IN extracellular space (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: slit homolog 1 protein
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1990,166,710 - 90,357,983 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl990,172,578 - 90,237,256 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604851,061,333 - 51,250,208 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SLIT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1990,166,710 - 90,357,983 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl990,172,578 - 90,237,256 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604851,061,333 - 51,250,208 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
SLIT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381096,998,038 - 97,185,959 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1096,998,038 - 97,185,959 (-)EnsemblGRCh38hg38GRCh38
GRCh371098,757,795 - 98,945,716 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361098,750,601 - 98,935,653 (-)NCBINCBI36Build 36hg18NCBI36
Build 341098,750,600 - 98,935,653NCBI
Celera1092,499,394 - 92,687,283 (-)NCBICelera
Cytogenetic Map10q24.1NCBI
HuRef1092,385,891 - 92,573,726 (-)NCBIHuRef
CHM1_11099,040,092 - 99,227,937 (-)NCBICHM1_1
T2T-CHM13v2.01097,878,923 - 98,066,822 (-)NCBIT2T-CHM13v2.0
Slit1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391941,586,263 - 41,735,714 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1941,588,696 - 41,732,104 (-)EnsemblGRCm39 Ensembl
GRCm381941,597,824 - 41,747,275 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1941,600,257 - 41,743,665 (-)EnsemblGRCm38mm10GRCm38
MGSCv371941,674,747 - 41,818,346 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361941,653,570 - 41,797,167 (-)NCBIMGSCv36mm8
Celera1942,398,288 - 42,542,154 (-)NCBICelera
Cytogenetic Map19C3NCBI
cM Map1934.99NCBI
Slit1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81250,358,917 - 250,507,476 (-)NCBIGRCr8
mRatBN7.21240,409,559 - 240,558,127 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1240,409,561 - 240,558,127 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1248,552,721 - 248,697,784 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01255,249,868 - 255,394,935 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01247,902,887 - 248,047,946 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01260,843,481 - 260,992,366 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1260,843,483 - 260,992,366 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01268,298,678 - 268,445,090 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41246,813,909 - 246,964,408 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11246,928,385 - 247,078,883 (-)NCBI
Celera1236,249,200 - 236,395,640 (-)NCBICelera
Cytogenetic Map1q54NCBI
Slit1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555073,201,556 - 3,365,471 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555073,204,135 - 3,365,319 (-)NCBIChiLan1.0ChiLan1.0
SLIT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v28108,910,729 - 109,098,440 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan110108,916,049 - 109,103,762 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01093,618,550 - 93,806,263 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11097,116,073 - 97,303,406 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1097,119,133 - 97,303,095 (-)Ensemblpanpan1.1panPan2
SLIT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12810,351,758 - 10,519,322 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2810,351,821 - 10,519,313 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2810,535,122 - 10,702,300 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02810,673,425 - 10,840,914 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2810,673,458 - 10,840,953 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12810,335,078 - 10,502,567 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02810,395,529 - 10,563,416 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02810,536,093 - 10,703,522 (-)NCBIUU_Cfam_GSD_1.0
Slit1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721336,388,622 - 36,543,449 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366362,427,736 - 2,582,578 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366362,427,738 - 2,582,565 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLIT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14108,446,004 - 108,624,302 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114108,446,003 - 108,624,508 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214118,083,559 - 118,149,597 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Slit1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247378,460,508 - 8,632,302 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247378,458,444 - 8,632,316 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 16 51
Low 4 15 9
Below cutoff 7 4

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_007963730 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACDXN010000016 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCSAT00000003921   ⟹   ENSCSAP00000002193
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl990,172,578 - 90,237,256 (-)Ensembl
RefSeq Acc Id: XM_007963730   ⟹   XP_007961921
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1990,166,710 - 90,357,983 (-)NCBI
Vero_WHO_p1.0NW_02366604851,061,333 - 51,250,208 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007961921 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000002193.1
Reference Protein Sequences
RefSeq Acc Id: XP_007961921   ⟸   XM_007963730
- UniProtKB: A0A0D9R0Q4 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000002193   ⟸   ENSCSAT00000003921


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000005970 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000003921.1 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_CS UniProtKB/TrEMBL
  EGF-like_dom UniProtKB/TrEMBL
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/TrEMBL
  EGF_Ca-bd_CS UniProtKB/TrEMBL
  Fol_N 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
NCBI Gene SLIT1 ENTREZGENE
PANTHER SLIT HOMOLOG UniProtKB/TrEMBL
  SLIT HOMOLOG 1 PROTEIN UniProtKB/TrEMBL
Pfam EGF UniProtKB/TrEMBL
  hEGF 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
  FOLN UniProtKB/TrEMBL
  LamG 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
UniProt A0A0D9R0Q4 ENTREZGENE, UniProtKB/TrEMBL