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Aliases for SLIT1 Gene

Aliases for SLIT1 Gene

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

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. Among its related pathways are Developmental Biology and Spinal Cord Injury. GO annotations related to this gene include calcium ion binding and Roundabout binding. An important paralog of this gene is SLIT2.

UniProtKB/Swiss-Prot 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 , fRNAdb sequence ontologies and piRNA Summary for SLIT1 Gene

Genomics for SLIT1 Gene

Regulatory Elements for SLIT1 Gene

Enhancers for SLIT1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH10G097217 0.9 Ensembl ENCODE 32.7 -32.5 -32484 1.3 JUN JUNB CEBPG ATF3 GATA2 EED ETV6 FOS CREM SLIT1 SLIT1-AS1 ARHGAP19 EXOSC1 LOC105378447 PIR51669
GH10G097326 1.6 Ensembl ENCODE dbSUPER 15.2 -142.7 -142741 3.8 PKNOX1 FOXA2 MLX ARID4B FEZF1 DMAP1 YY1 ZNF263 SP5 ZNF592 SLIT1 LOC105378448 FRAT1
GH10G097331 1.4 ENCODE dbSUPER 16.6 -147.7 -147724 4.9 HDGF HNRNPUL1 FOXA2 ARNT CREB3L1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 EXOSC1 SLIT1 R3HCC1L ARHGAP19 NPM1P26 LCOR RPL13AP5 ENSG00000230928 LOC105378448 FRAT1
GH10G097291 1.1 ENCODE 18.7 -106.7 -106705 3.2 HDGF HNRNPUL1 PKNOX1 MLX ARID4B SIN3A FEZF1 ZNF2 ZBTB7B YY1 SLIT1 ARHGAP19 LOXL4 ENSG00000230928 RPL12P27 ARHGAP19-SLIT1 ENSG00000231398
GH10G097318 1.4 ENCODE dbSUPER 12.7 -134.3 -134253 4.0 FOXA2 ARNT ARID4B SIN3A FEZF1 ZNF2 YY1 ZNF143 ZNF207 FOS ARHGAP19 SLIT1 FRAT1 LOC105378448
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SLIT1 on UCSC Golden Path with GeneCards custom track

Genomic Location for SLIT1 Gene

Chromosome:
10
Start:
96,998,038 bp from pter
End:
97,185,926 bp from pter
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, isoforms=2192, isoforms=2406, isoforms=2571, Asn630, Asn762, isoforms=801, Asn806, Asn1026, isoforms=1079, isoforms=1189, Asn1259, and isoforms=1306
  • 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

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SLIT1: view

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

Function for SLIT1 Gene

Molecular function for SLIT1 Gene

GENATLAS Biochemistry:
SLIT Drosophila homolog 1,expressed in the brain,ligand of GPC1,involved in histogenesis of central nervous system and in brain diseases
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.

LifeMap Function Summary for SLIT1 Gene

Gene Ontology (GO) - Molecular Function for SLIT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding NAS 9813312
GO:0048495 Roundabout binding 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

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
extracellular 5
plasma membrane 3
mitochondrion 1
endoplasmic reticulum 1
lysosome 1

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 NAS 9813312
GO:0005623 cell IEA --
genes like me logo Genes that share ontologies with SLIT1: view

Pathways & Interactions for SLIT1 Gene

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

SIGNOR curated interactions for SLIT1 Gene

Activates:

Gene Ontology (GO) - Biological Process for SLIT1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007275 multicellular organism development IEA --
GO:0007399 nervous system development IEA --
GO:0007409 axonogenesis IEA --
GO:0007411 axon guidance IDA 11748139
GO:0008045 motor neuron axon guidance IMP 16162649
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, Topoisomerase II inhibitor 1269
Hydrochlorothiazide Approved, Vet_approved Pharma Inhibition, Inhibitor 413
genes like me logo Genes that share compounds with SLIT1: view

Transcripts for SLIT1 Gene

Unigene Clusters for SLIT1 Gene

Slit homolog 1 (Drosophila):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

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
ECgene alternative splicing isoforms for
SLIT1

Expression for SLIT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP 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, PaxDb, MaxQB, and MOPED for SLIT1 Gene



NURSA nuclear receptor signaling pathways regulating expression of SLIT1 Gene:

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)
genes like me logo Genes that share expression patterns with SLIT1: view

Primer Products

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 34
  • 99.56 (n)
dog
(Canis familiaris)
Mammalia SLIT1 34 35
  • 91.16 (n)
cow
(Bos Taurus)
Mammalia SLIT1 34 35
  • 90.79 (n)
mouse
(Mus musculus)
Mammalia Slit1 34 16 35
  • 89.22 (n)
rat
(Rattus norvegicus)
Mammalia Slit1 34
  • 89.16 (n)
oppossum
(Monodelphis domestica)
Mammalia SLIT1 35
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SLIT1 35
  • 89 (a)
OneToOne
chicken
(Gallus gallus)
Aves SLIT1 34
  • 80.56 (n)
lizard
(Anolis carolinensis)
Reptilia SLIT1 35
  • 84 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia slit1 34
  • 75.07 (n)
African clawed frog
(Xenopus laevis)
Amphibia slit1-prov 34
zebrafish
(Danio rerio)
Actinopterygii slit1a 34 35
  • 72.2 (n)
slit1b 35
  • 67 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta sli 36 35
  • 42 (a)
CG15388 36
  • 41 (a)
CG5195 36
  • 24 (a)
worm
(Caenorhabditis elegans)
Secernentea slt-1 35
  • 39 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 45 (a)
ManyToMany
Species where no ortholog for SLIT1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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 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)

Paralogs for SLIT1 Gene

Paralogs for SLIT1 Gene

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

genes like me logo Genes that share paralogs with SLIT1: view

Variants for SLIT1 Gene

Sequence variations from dbSNP and Humsavar for SLIT1 Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type
rs1000009477 -- 97,065,284(+) CTAGA(A/G)GTGGC intron-variant
rs1000032250 -- 97,106,586(+) TGGGA(A/G)GTAGG intron-variant
rs1000036980 -- 97,000,808(+) CGTTC(C/T)GCACT utr-variant-3-prime
rs1000046143 -- 97,042,068(+) TATTC(G/T)TAGAG intron-variant
rs1000055406 -- 97,148,392(+) CAAGC(A/G)ATCCT intron-variant

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)

Relevant External Links for SLIT1 Gene

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

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

Disorders for SLIT1 Gene

Relevant External Links for SLIT1

Genetic Association Database (GAD)
SLIT1
Human Genome Epidemiology (HuGE) Navigator
SLIT1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SLIT1

No disorders were found for SLIT1 Gene.

No data available for MalaCards , 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 Res. Mol. Brain Res. 1998) 2 3 4 22 64
  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 64
  3. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PMID: 16385451) Grupe A. … Goate A. (Am. J. Hum. Genet. 2006) 3 46 64
  4. Conserved modularity and potential for alternate splicing in mouse and human Slit genes. (PMID: 12141424) Little M. … Teasdale R.D. (Int. J. Dev. Biol. 2002) 3 4 64
  5. Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PMID: 12168954) Nakajima D. … Nagase T. (DNA Res. 2002) 3 4 64

Products for SLIT1 Gene

Sources for SLIT1 Gene

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