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SLIT1 (slit guidance ligand 1)

Identity

Alias_namesSLIL1
slit (Drosophila) homolog 1
slit homolog 1 (Drosophila)
Alias_symbol (synonym)slit1
MEGF4
Slit-1
SLIT3
Other aliasSLIT-1
HGNC (Hugo) SLIT1
LocusID (NCBI) 6585
Atlas_Id 50488
Location 10q24.1  [Link to chromosome band 10q24]
Location_base_pair Starts at 96998038 and ends at 97185926 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
PKD1 (16p13.3) / SLIT1 (10q24.1)SLIT1 (10q24.1) / FAM208B (10p15.1)SLIT1 (10q24.1) / RAB10 (2p23.3)
SLIT1 (10q24.1) / SFRP5 (10q24.2)TM9SF3 (10q24.1) / SLIT1 (10q24.1)SLIT1 10q24.1 / SFRP5 10q24.2
TM9SF3 10q24.1 / SLIT1 10q24.1

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)SLIT1   11085
Cards
Entrez_Gene (NCBI)SLIT1  6585  slit guidance ligand 1
AliasesMEGF4; SLIL1; SLIT-1; SLIT3
GeneCards (Weizmann)SLIT1
Ensembl hg19 (Hinxton)ENSG00000187122 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000187122 [Gene_View]  chr10:96998038-97185926 [Contig_View]  SLIT1 [Vega]
ICGC DataPortalENSG00000187122
TCGA cBioPortalSLIT1
AceView (NCBI)SLIT1
Genatlas (Paris)SLIT1
WikiGenes6585
SOURCE (Princeton)SLIT1
Genetics Home Reference (NIH)SLIT1
Genomic and cartography
GoldenPath hg38 (UCSC)SLIT1  -     chr10:96998038-97185926 -  10q24.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SLIT1  -     10q24.1   [Description]    (hg19-Feb_2009)
EnsemblSLIT1 - 10q24.1 [CytoView hg19]  SLIT1 - 10q24.1 [CytoView hg38]
Mapping of homologs : NCBISLIT1 [Mapview hg19]  SLIT1 [Mapview hg38]
OMIM603742   
Gene and transcription
Genbank (Entrez)AB011537 AB017167 AY029183 BC028105 BC139909
RefSeq transcript (Entrez)NM_003061
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SLIT1
Cluster EST : UnigeneHs.632082 [ NCBI ]
CGAP (NCI)Hs.632082
Alternative Splicing GalleryENSG00000187122
Gene ExpressionSLIT1 [ NCBI-GEO ]   SLIT1 [ EBI - ARRAY_EXPRESS ]   SLIT1 [ SEEK ]   SLIT1 [ MEM ]
Gene Expression Viewer (FireBrowse)SLIT1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6585
GTEX Portal (Tissue expression)SLIT1
Human Protein AtlasENSG00000187122-SLIT1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO75093   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO75093  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO75093
Splice isoforms : SwissVarO75093
PhosPhoSitePlusO75093
Domaine pattern : Prosite (Expaxy)CTCK_1 (PS01185)    CTCK_2 (PS01225)    EGF_1 (PS00022)    EGF_2 (PS01186)    EGF_3 (PS50026)    EGF_CA (PS01187)    LAM_G_DOMAIN (PS50025)    LRR (PS51450)   
Domains : Interpro (EBI)ConA-like_dom    Cys-rich_flank_reg_C    Cys_knot_C    EGF-like_Ca-bd_dom    EGF-like_CS    EGF-like_dom    EGF-type_Asp/Asn_hydroxyl_site    EGF_Ca-bd_CS    Fol_N    Growth_fac_rcpt_    L_dom-like    Laminin_G    Leu-rich_rpt    Leu-rich_rpt_typical-subtyp    LRRNT   
Domain families : Pfam (Sanger)EGF (PF00008)    hEGF (PF12661)    Laminin_G_2 (PF02210)    LRR_8 (PF13855)    LRRCT (PF01463)    LRRNT (PF01462)   
Domain families : Pfam (NCBI)pfam00008    pfam12661    pfam02210    pfam13855    pfam01463    pfam01462   
Domain families : Smart (EMBL)CT (SM00041)  EGF (SM00181)  EGF_CA (SM00179)  FOLN (SM00274)  LamG (SM00282)  LRR_TYP (SM00369)  LRRCT (SM00082)  LRRNT (SM00013)  
Conserved Domain (NCBI)SLIT1
DMDM Disease mutations6585
Blocks (Seattle)SLIT1
SuperfamilyO75093
Human Protein Atlas [tissue]ENSG00000187122-SLIT1 [tissue]
Peptide AtlasO75093
HPRD04773
IPIIPI00296434   IPI00409702   IPI00871419   IPI00515035   IPI00514446   
Protein Interaction databases
DIP (DOE-UCLA)O75093
IntAct (EBI)O75093
FunCoupENSG00000187122
BioGRIDSLIT1
STRING (EMBL)SLIT1
ZODIACSLIT1
Ontologies - Pathways
QuickGOO75093
Ontology : AmiGOcalcium ion binding  extracellular space  cell  axon guidance  motor neuron axon guidance  chemorepulsion involved in embryonic olfactory bulb interneuron precursor migration  retinal ganglion cell axon guidance  dorsal/ventral axon guidance  establishment of nucleus localization  Roundabout binding  axon extension involved in axon guidance  forebrain morphogenesis  negative chemotaxis  negative regulation of synapse assembly  
Ontology : EGO-EBIcalcium ion binding  extracellular space  cell  axon guidance  motor neuron axon guidance  chemorepulsion involved in embryonic olfactory bulb interneuron precursor migration  retinal ganglion cell axon guidance  dorsal/ventral axon guidance  establishment of nucleus localization  Roundabout binding  axon extension involved in axon guidance  forebrain morphogenesis  negative chemotaxis  negative regulation of synapse assembly  
Pathways : KEGGAxon guidance   
NDEx NetworkSLIT1
Atlas of Cancer Signalling NetworkSLIT1
Wikipedia pathwaysSLIT1
Orthology - Evolution
OrthoDB6585
GeneTree (enSembl)ENSG00000187122
Phylogenetic Trees/Animal Genes : TreeFamSLIT1
HOVERGENO75093
HOGENOMO75093
Homologs : HomoloGeneSLIT1
Homology/Alignments : Family Browser (UCSC)SLIT1
Gene fusions - Rearrangements
Fusion : MitelmanPKD1/SLIT1 [16p13.3/10q24.1]  [t(10;16)(q24;p13)]  
Fusion : MitelmanSLIT1/SFRP5 [10q24.1/10q24.2]  [t(10;10)(q24;q24)]  
Fusion : MitelmanTM9SF3/SLIT1 [10q24.1/10q24.1]  [t(10;10)(q24;q24)]  
Fusion: TCGA_MDACCSLIT1 10q24.1 SFRP5 10q24.2 GBM
Fusion: TCGA_MDACCTM9SF3 10q24.1 SLIT1 10q24.1 BRCA
Tumor Fusion PortalSLIT1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSLIT1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SLIT1
dbVarSLIT1
ClinVarSLIT1
1000_GenomesSLIT1 
Exome Variant ServerSLIT1
ExAC (Exome Aggregation Consortium)ENSG00000187122
GNOMAD BrowserENSG00000187122
Genetic variants : HAPMAP6585
Genomic Variants (DGV)SLIT1 [DGVbeta]
DECIPHERSLIT1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSLIT1 
Mutations
ICGC Data PortalSLIT1 
TCGA Data PortalSLIT1 
Broad Tumor PortalSLIT1
OASIS PortalSLIT1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSLIT1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSLIT1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SLIT1
DgiDB (Drug Gene Interaction Database)SLIT1
DoCM (Curated mutations)SLIT1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SLIT1 (select a term)
intoGenSLIT1
Cancer3DSLIT1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM603742   
Orphanet
DisGeNETSLIT1
MedgenSLIT1
Genetic Testing Registry SLIT1
NextProtO75093 [Medical]
TSGene6585
GENETestsSLIT1
Target ValidationSLIT1
Huge Navigator SLIT1 [HugePedia]
snp3D : Map Gene to Disease6585
BioCentury BCIQSLIT1
ClinGenSLIT1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6585
Chemical/Pharm GKB GenePA35938
Clinical trialSLIT1
Miscellaneous
canSAR (ICR)SLIT1 (select the gene name)
Probes
Litterature
PubMed22 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSLIT1
EVEXSLIT1
GoPubMedSLIT1
iHOPSLIT1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 21 14:35:30 CET 2017

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