Format

Send to:

Choose Destination

SLIT1 slit guidance ligand 1 [ Homo sapiens (human) ]

Gene ID: 6585, updated on 22-Aug-2020

Summary

Official Symbol
SLIT1provided by HGNC
Official Full Name
slit guidance ligand 1provided by HGNC
Primary source
HGNC:HGNC:11085
See related
Ensembl:ENSG00000187122 MIM:603742
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
MEGF4; SLIL1; SLIT3; SLIT-1
Expression
Biased expression in brain (RPKM 15.8) and thyroid (RPKM 1.3) See more
Orthologs

Genomic context

See SLIT1 in Genome Data Viewer
Location:
10q24.1
Exon count:
37
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 10 NC_000010.11 (96998038..97185959, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (98757795..98945683, complement)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 4280 Neighboring gene ligand dependent nuclear receptor corepressor Neighboring gene high mobility group nucleosomal binding domain 2 pseudogene 35 Neighboring gene uncharacterized LOC105378444 Neighboring gene SLIT1 antisense RNA 1 Neighboring gene ARHGAP19-SLIT1 readthrough (NMD candidate) Neighboring gene uncharacterized LOC112268065 Neighboring gene uncharacterized LOC105378447 Neighboring gene Rho GTPase activating protein 19

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Gene-alcohol interactions identify several novel blood pressure loci including a promising locus near SLC16A9.
GeneReviews: Not available
Loci associated with N-glycosylation of human immunoglobulin G show pleiotropy with autoimmune diseases and haematological cancers.
GeneReviews: Not available
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
GeneReviews: Not available

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp160, precursor env HIV-1 gp160 interacts with SLIT1; predicted interaction to be relevant to viral egress at plasma membrane/extracellular matrix PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Readthrough ARHGAP19-SLIT1

Readthrough gene: ARHGAP19-SLIT1, Included gene: ARHGAP19

Homology

Clone Names

  • MGC164811

Gene Ontology Provided by GOA

Function Evidence Code Pubs
Roundabout binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Roundabout binding IPI
Inferred from Physical Interaction
more info
PubMed 
calcium ion binding NAS
Non-traceable Author Statement
more info
PubMed 
heparin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
axon extension involved in axon guidance IDA
Inferred from Direct Assay
more info
PubMed 
axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
axon guidance IDA
Inferred from Direct Assay
more info
PubMed 
NOT chemorepulsion involved in embryonic olfactory bulb interneuron precursor migration IDA
Inferred from Direct Assay
more info
PubMed 
dorsal/ventral axon guidance IEA
Inferred from Electronic Annotation
more info
 
forebrain morphogenesis NAS
Non-traceable Author Statement
more info
PubMed 
motor neuron axon guidance IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative chemotaxis IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of synapse assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
nuclear migration IEA
Inferred from Electronic Annotation
more info
 
retinal ganglion cell axon guidance IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
extracellular space NAS
Non-traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
slit homolog 1 protein
Names
multiple EGF-like domains protein 4
multiple epidermal growth factor-like domains protein 4
slit homolog 1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_003061.3NP_003052.2  slit homolog 1 protein precursor

    See identical proteins and their annotated locations for NP_003052.2

    Status: VALIDATED

    Source sequence(s)
    AL512424, BC028105, BC146761, CD671648
    Consensus CDS
    CCDS7453.1
    UniProtKB/Swiss-Prot
    O75093
    UniProtKB/TrEMBL
    A6H8V1
    Related
    ENSP00000266058.4, ENST00000266058.9
    Conserved Domains (9) summary
    smart00013
    Location:3364
    LRRNT; Leucine rich repeat N-terminal domain
    smart00082
    Location:866915
    LRRCT; Leucine rich repeat C-terminal domain
    smart00282
    Location:11891322
    LamG; Laminin G domain
    cd00054
    Location:10851119
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00116
    Location:87220
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:4362
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:334373
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:590649
    LRR_8; Leucine rich repeat
    cl15307
    Location:439469
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p13 Primary Assembly

    Range
    96998038..97185959 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Support Center