Aliases for SLIT1 Gene

Aliases for SLIT1 Gene

  • Slit Guidance Ligand 1 2 3 5
  • MEGF4 2 3 4
  • Multiple Epidermal Growth Factor-Like Domains Protein 4 3 4
  • Multiple EGF-Like Domains Protein 4 3 4
  • Slit Homolog 1 Protein 3 4
  • Slit-1 2 4
  • SLIL1 3 4
  • SLIT3 2 3
  • Slit (Drosophila) Homolog 1 2
  • Slit Homolog 1 (Drosophila) 2
  • Slit Homolog 1 3
  • KIAA0813 4
  • SLIT-1 3
  • SLIT1 5

External Ids for SLIT1 Gene

Previous HGNC Symbols for SLIT1 Gene

  • SLIL1

Previous GeneCards Identifiers for SLIT1 Gene

  • GC10M097651
  • GC10M097991
  • GC10M098889
  • GC10M098422
  • GC10M098425
  • GC10M098747
  • GC10M092385

Summaries for SLIT1 Gene

GeneCards Summary for SLIT1 Gene

SLIT1 (Slit Guidance Ligand 1) is a Protein Coding gene. Diseases associated with SLIT1 include Hepatic Adenomas, Familial and Diaphragm Disease. Among its related pathways are Development Slit-Robo signaling and Guidance Cues and Growth Cone Motility. Gene Ontology (GO) annotations related to this gene include calcium ion binding and Roundabout binding. An important paralog of this gene is SLIT2.

UniProtKB/Swiss-Prot Summary for SLIT1 Gene

  • Thought to act as molecular guidance cue in cellular migration, and function appears to be mediated by interaction with roundabout homolog receptors. During neural development involved in axonal navigation at the ventral midline of the neural tube and projection of axons to different regions (By similarity). SLIT1 and SLIT2 together seem to be essential for midline guidance in the forebrain by acting as repulsive signal preventing inappropriate midline crossing by axons projecting from the olfactory bulb.

Gene Wiki entry for SLIT1 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SLIT1 Gene

Genomics for SLIT1 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SLIT1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH10J097185 Promoter/Enhancer 1.8 EPDnew Ensembl CraniofacialAtlas dbSUPER 604.9 +0.4 358 0.8 PRDM10 ZNF692 ZIC2 ZSCAN4 POLR2A PATZ1 ZNF501 EZH2 ZNF341 ZNF561 SLIT1 lnc-FRAT1-5 EXOSC1 RF00017-761 ARHGAP19-SLIT1 LCOR
GH10J097186 Promoter 0.9 EPDnew 600.7 -0.1 -138 0.1 ZNF692 ZSCAN4 PATZ1 ZNF501 EZH2 KLF9 SP2 ZNF524 KLF7 ZXDB SLIT1 lnc-FRAT1-5 EXOSC1 piR-48820-014 ARHGAP19 ARHGAP19-SLIT1
GH10J097188 Enhancer 0.7 dbSUPER 600.7 -0.8 -750 1.1 ZNF692 ZSCAN4 EZH2 KLF9 ZNF524 ZXDB ZBTB26 ZFHX2 KLF8 ZNF189 SLIT1 lnc-FRAT1-5 EXOSC1 piR-48820-014 ARHGAP19 ARHGAP19-SLIT1
GH10J097291 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas 18.7 -106.6 -106552 3.4 SP1 HNRNPL CREB1 PRDM10 ZNF629 RFX1 SIX5 IKZF1 ZNF692 RCOR2 ARHGAP19 ARHGAP19-SLIT1 SLIT1 LOXL4 ENSG00000230928 RPL12P27 piR-49732-051
GH10J097222 Promoter/Enhancer 1.1 EPDnew Ensembl ENCODE 33.5 -37.8 -37842 3.2 RFX1 HDAC1 RAD21 HMBOX1 CTBP1 MYNN SPI1 SMAD5 DPF2 SIN3A ARHGAP19 SLIT1 SLIT1-AS1 piR-34946-002 RF00017-762 LOC105378447 ARHGAP19-SLIT1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SLIT1 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SLIT1

Top Transcription factor binding sites by QIAGEN in the SLIT1 gene promoter:
  • AREB6
  • NRSF form 1
  • NRSF form 2

Genomic Locations for SLIT1 Gene

Genomic Locations for SLIT1 Gene
chr10:96,998,038-97,185,959
(GRCh38/hg38)
Size:
187,922 bases
Orientation:
Minus strand
chr10:98,757,795-98,945,683
(GRCh37/hg19)
Size:
187,889 bases
Orientation:
Minus strand

Genomic View for SLIT1 Gene

Genes around SLIT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SLIT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SLIT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLIT1 Gene

Proteins for SLIT1 Gene

  • Protein details for SLIT1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75093-SLIT1_HUMAN
    Recommended name:
    Slit homolog 1 protein
    Protein Accession:
    O75093
    Secondary Accessions:
    • Q5T0V1
    • Q8WWZ2
    • Q9UIL7

    Protein attributes for SLIT1 Gene

    Size:
    1534 amino acids
    Molecular mass:
    167926 Da
    Quaternary structure:
    • Interacts with ROBO1 and GREM1.
    SequenceCaution:
    • Sequence=BAA32465.3; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for SLIT1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SLIT1 Gene

Post-translational modifications for SLIT1 Gene

  • Glycosylation at Asn72, Asn192, Asn406, Asn571, Asn630, Asn762, Asn801, Asn806, Asn1026, Asn1079, Asn1189, Asn1259, and Asn1306
  • Modification sites at PhosphoSitePlus

Other Protein References for SLIT1 Gene

No data available for DME Specific Peptides for SLIT1 Gene

Domains & Families for SLIT1 Gene

Gene Families for SLIT1 Gene

Human Protein Atlas (HPA):
  • Predicted secreted proteins

Protein Domains for SLIT1 Gene

InterPro:
Blocks:
  • Type II EGF-like signature
  • EGF-like calcium-binding
  • Leucine-rich repeat signature
  • Cysteine-rich flanking region, C-terminal
  • Laminin G
  • Cystine knot, C-terminal
ProtoNet:

Suggested Antigen Peptide Sequences for SLIT1 Gene

GenScript: Design optimal peptide antigens:
  • Slit homolog 1 (Drosophila) (A6H8V1_HUMAN)
  • Slit homolog 1 (Drosophila), isoform CRA_c (Q5T0V1_HUMAN)
  • Slit homolog 1 (Drosophila) (Q5T0V4_HUMAN)
  • Multiple epidermal growth factor-like domains protein 4 (SLIT1_HUMAN)
genes like me logo Genes that share domains with SLIT1: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SLIT1 Gene

Function for SLIT1 Gene

Molecular function for SLIT1 Gene

UniProtKB/Swiss-Prot Function:
Thought to act as molecular guidance cue in cellular migration, and function appears to be mediated by interaction with roundabout homolog receptors. During neural development involved in axonal navigation at the ventral midline of the neural tube and projection of axons to different regions (By similarity). SLIT1 and SLIT2 together seem to be essential for midline guidance in the forebrain by acting as repulsive signal preventing inappropriate midline crossing by axons projecting from the olfactory bulb.
GENATLAS Biochemistry:
SLIT Drosophila homolog 1,expressed in the brain,ligand of GPC1,involved in histogenesis of central nervous system and in brain diseases

LifeMap Function Summary for SLIT1 Gene

Phenotypes From GWAS Catalog for SLIT1 Gene

Gene Ontology (GO) - Molecular Function for SLIT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA,NAS 9813312
GO:0005515 protein binding IEA --
GO:0008201 heparin binding IBA 21873635
GO:0048495 Roundabout binding IBA,IPI 15207848
genes like me logo Genes that share ontologies with SLIT1: view
genes like me logo Genes that share phenotypes with SLIT1: view

Animal Models for SLIT1 Gene

MGI Knock Outs for SLIT1:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SLIT1

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SLIT1 Gene

Localization for SLIT1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLIT1 Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SLIT1 gene
Compartment Confidence
plasma membrane 4
extracellular 4
cytoskeleton 2
nucleus 2
mitochondrion 1
endoplasmic reticulum 1
endosome 1
cytosol 1
lysosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SLIT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005615 extracellular space IEA,NAS 9813312
genes like me logo Genes that share ontologies with SLIT1: view

Pathways & Interactions for SLIT1 Gene

PathCards logo

SuperPathways for SLIT1 Gene

SuperPathway Contained pathways
1 Developmental Biology
2 Axon guidance
3 Guidance Cues and Growth Cone Motility
-
4 Signaling by Slit
-
5 Netrin-1 signaling
genes like me logo Genes that share pathways with SLIT1: view

Pathways by source for SLIT1 Gene

1 BioSystems pathway for SLIT1 Gene
3 Reactome pathways for SLIT1 Gene
1 KEGG pathway for SLIT1 Gene
1 GeneGo (Thomson Reuters) pathway for SLIT1 Gene
  • Development Slit-Robo signaling
2 Qiagen pathways for SLIT1 Gene
  • Guidance Cues and Growth Cone Motility
  • Signaling by Slit

SIGNOR curated interactions for SLIT1 Gene

Activates:

Gene Ontology (GO) - Biological Process for SLIT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007097 nuclear migration IEA --
GO:0007275 multicellular organism development IEA --
GO:0007399 nervous system development IEA --
GO:0007409 axonogenesis IEA --
GO:0007411 axon guidance IEA,IDA 11748139
genes like me logo Genes that share ontologies with SLIT1: view

Drugs & Compounds for SLIT1 Gene

(2) Drugs for SLIT1 Gene - From: PharmGKB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Etoposide Approved Pharma Topo II inhibitor, Topoisomerase 2 Inhibitors 1461
Hydrochlorothiazide Approved, Vet_approved Pharma Inhibitor, Inhibition 453
genes like me logo Genes that share compounds with SLIT1: view

Transcripts for SLIT1 Gene

mRNA/cDNA for SLIT1 Gene

1 REFSEQ mRNAs :
8 NCBI additional mRNA sequence :
7 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SLIT1

Alternative Splicing Database (ASD) splice patterns (SP) for SLIT1 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16a · 16b
SP1: - - -
SP2: - -
SP3: - - - -
SP4: - - - - - - - -
SP5: -
SP6: -
SP7: -

Relevant External Links for SLIT1 Gene

GeneLoc Exon Structure for
SLIT1

Expression for SLIT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SLIT1 Gene

mRNA differential expression in normal tissues according to GTEx for SLIT1 Gene

This gene is overexpressed in Brain - Anterior cingulate cortex (BA24) (x7.3), Brain - Nucleus accumbens (basal ganglia) (x5.7), Brain - Frontal Cortex (BA9) (x5.2), Brain - Caudate (basal ganglia) (x5.0), Pituitary (x4.7), Brain - Hippocampus (x4.5), Brain - Cortex (x4.2), and Brain - Amygdala (x4.0).

Protein differential expression in normal tissues from HIPED for SLIT1 Gene

This gene is overexpressed in Vitreous humor (20.8), Bone (14.5), Urine (9.3), and Cerebrospinal fluid (7.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SLIT1 Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SLIT1

SOURCE GeneReport for Unigene cluster for SLIT1 Gene:

Hs.632082

mRNA Expression by UniProt/SwissProt for SLIT1 Gene:

O75093-SLIT1_HUMAN
Tissue specificity: Predominantly expressed in adult forebrain. Expressed in fetal brain, lung and kidney.

Evidence on tissue expression from TISSUES for SLIT1 Gene

  • Nervous system(4.9)
  • Skin(2.2)
  • Heart(2.1)
  • Kidney(2)
genes like me logo Genes that share expression patterns with SLIT1: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for SLIT1 Gene

Orthologs for SLIT1 Gene

This gene was present in the common ancestor of animals.

Orthologs for SLIT1 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SLIT1 30
  • 99.56 (n)
Dog
(Canis familiaris)
Mammalia SLIT1 30 31
  • 91.16 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia SLIT1 30 31
  • 90.79 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Slit1 30 17 31
  • 89.22 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Slit1 30
  • 89.16 (n)
Oppossum
(Monodelphis domestica)
Mammalia SLIT1 31
  • 89 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia SLIT1 31
  • 89 (a)
OneToOne
Chicken
(Gallus gallus)
Aves SLIT1 30
  • 80.56 (n)
Lizard
(Anolis carolinensis)
Reptilia SLIT1 31
  • 84 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia slit1 30
  • 75.07 (n)
African clawed frog
(Xenopus laevis)
Amphibia slit1-prov 30
Zebrafish
(Danio rerio)
Actinopterygii slit1a 30 31
  • 72.2 (n)
OneToMany
slit1b 31
  • 67 (a)
OneToMany
Fruit Fly
(Drosophila melanogaster)
Insecta sli 31 32
  • 43 (a)
OneToMany
CG15388 32
  • 41 (a)
CG5195 32
  • 24 (a)
Worm
(Caenorhabditis elegans)
Secernentea slt-1 31
  • 39 (a)
OneToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 45 (a)
ManyToMany
Species where no ortholog for SLIT1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for SLIT1 Gene

ENSEMBL:
Gene Tree for SLIT1 (if available)
TreeFam:
Gene Tree for SLIT1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SLIT1: view image

Paralogs for SLIT1 Gene

(6) SIMAP similar genes for SLIT1 Gene using alignment to 6 proteins:

  • SLIT1_HUMAN
  • A6H8V1_HUMAN
  • Q5T0V0_HUMAN
  • Q5T0V2_HUMAN
  • Q5T0V3_HUMAN
  • Q5T0V4_HUMAN
genes like me logo Genes that share paralogs with SLIT1: view

Variants for SLIT1 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SLIT1 Gene

SNP ID Clinical significance and condition Chr 10 pos Variation AA Info Type
768381 Benign: not provided 97,048,989(-) G/T SYNONYMOUS_VARIANT
773004 Benign: not provided 97,064,206(-) G/T SYNONYMOUS_VARIANT
778414 Benign: not provided 97,014,165(-) G/A INTRON_VARIANT
788431 Benign: not provided 97,014,161(-) G/T INTRON_VARIANT
rs2817673 - p.Pro824Leu

Additional dbSNP identifiers (rs#s) for SLIT1 Gene

Structural Variations from Database of Genomic Variants (DGV) for SLIT1 Gene

Variant ID Type Subtype PubMed ID
dgv963n100 CNV gain 25217958
esv1638639 CNV deletion 17803354
esv2739807 CNV deletion 23290073
esv2739818 CNV deletion 23290073
esv2759777 CNV loss 17122850
esv3624309 CNV loss 21293372
esv995571 CNV deletion 20482838
nsv1052931 CNV gain 25217958
nsv1110852 OTHER inversion 24896259
nsv1134046 CNV deletion 24896259
nsv1134047 CNV deletion 24896259
nsv7505 CNV insertion 18451855
nsv7506 CNV deletion 18451855
nsv831951 CNV gain 17160897

Variation tolerance for SLIT1 Gene

Residual Variation Intolerance Score: 3.59% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.62; 56.52% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SLIT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SLIT1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SLIT1 Gene

Disorders for SLIT1 Gene

MalaCards: The human disease database

(4) MalaCards diseases for SLIT1 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
hepatic adenomas, familial
  • liver cell adenomas, familial
diaphragm disease
  • abnormality of the diaphragm
diaphragmatic hernia, congenital
  • dih
aplastic anemia
  • aa
- elite association - COSMIC cancer census association via MalaCards
Search SLIT1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for SLIT1

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
genes like me logo Genes that share disorders with SLIT1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SLIT1 Gene

Publications for SLIT1 Gene

  1. Cloning and expressions of three mammalian homologues of Drosophila slit suggest possible roles for Slit in the formation and maintenance of the nervous system. (PMID: 9813312) Itoh A … Sakano S (Brain research. Molecular brain research 1998) 2 3 4 23
  2. Identification of high-molecular-weight proteins with multiple EGF-like motifs by motif-trap screening. (PMID: 9693030) Nakayama M … Ohara O (Genomics 1998) 2 3 4
  3. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PMID: 16385451) Grupe A … Goate A (American journal of human genetics 2006) 3 41
  4. Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PMID: 12168954) Nakajima D … Nagase T (DNA research : an international journal for rapid publication of reports on genes and genomes 2002) 3 4
  5. Slit proteins: molecular guidance cues for cells ranging from neurons to leukocytes. (PMID: 12200164) Wong K … Rao Y (Current opinion in genetics & development 2002) 3 4

Products for SLIT1 Gene

Sources for SLIT1 Gene