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SLIT3 slit guidance ligand 3 [ Homo sapiens (human) ]

Gene ID: 6586, updated on 11-Jun-2021

Summary

Official Symbol
SLIT3provided by HGNC
Official Full Name
slit guidance ligand 3provided by HGNC
Primary source
HGNC:HGNC:11087
See related
Ensembl:ENSG00000184347 MIM:603745
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
MEGF5; SLIL2; SLIT1; slit2; Slit-3
Summary
The protein encoded by this gene is secreted, likely interacting with roundabout homolog receptors to effect cell migration. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Dec 2012]
Expression
Broad expression in fat (RPKM 23.0), gall bladder (RPKM 21.4) and 22 other tissues See more
Orthologs
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Genomic context

See SLIT3 in Genome Data Viewer
Location:
5q34-q35.1
Exon count:
37
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (168661740..169301139, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (168088745..168728143, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene microRNA 103a-1 Neighboring gene microRNA 103b-1 Neighboring gene pantothenate kinase 3 Neighboring gene ribosomal protein L10 pseudogene 9 Neighboring gene SLIT3 antisense RNA 2 Neighboring gene microRNA 218-2 Neighboring gene uncharacterized LOC107986470 Neighboring gene uncharacterized LOC105377713 Neighboring gene uncharacterized LOC107986472 Neighboring gene SLIT3 antisense RNA 1 Neighboring gene uncharacterized LOC105377712 Neighboring gene microRNA 585 Neighboring gene uncharacterized LOC105377714 Neighboring gene uncharacterized LOC105377715 Neighboring gene RNA, U6 small nuclear 477, pseudogene Neighboring gene spindle apparatus coiled-coil protein 1

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
Hundreds of variants clustered in genomic loci and biological pathways affect human height.
GeneReviews: Not available
Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci.
GeneReviews: Not available
Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche.
GeneReviews: Not available

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ10764

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables Roundabout binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables Roundabout binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables calcium ion binding NAS
Non-traceable Author Statement
more info
PubMed 
enables heparin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
involved_in Roundabout signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in aortic valve morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in apoptotic process involved in luteolysis IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in atrioventricular valve morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in axon extension involved in axon guidance IDA
Inferred from Direct Assay
more info
PubMed 
involved_in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in axon guidance IDA
Inferred from Direct Assay
more info
PubMed 
involved_in cellular response to hormone stimulus IEP
Inferred from Expression Pattern
more info
PubMed 
NOT involved_in chemorepulsion involved in embryonic olfactory bulb interneuron precursor migration IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in negative chemotaxis IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of cell growth IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of cell population proliferation IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of chemokine-mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of gene expression IEA
Inferred from Electronic Annotation
more info
 
involved_in response to cortisol IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in ventricular septum morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
located_in extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
located_in mitochondrion NAS
Non-traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
slit homolog 3 protein
Names
multiple EGF-like domains protein 5
multiple epidermal growth factor-like domains protein 5
slit homolog 3

NCBI Reference Sequences (RefSeq)

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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.

Genomic

  1. NG_033081.1 RefSeqGene

    Range
    5001..644396
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001271946.2NP_001258875.2  slit homolog 3 protein isoform 1 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC008409, AC008479, AC011365, AC027311, AC094081
    Consensus CDS
    CCDS64311.1
    Related
    ENSP00000332164.8, ENST00000332966.8
    Conserved Domains (10) summary
    TIGR00864
    Location:636714
    PCC; polycystin cation channel protein
    smart00013
    Location:3364
    LRRNT; Leucine rich repeat N-terminal domain
    smart00282
    Location:11881321
    LamG; Laminin G domain
    COG4886
    Location:62220
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    cd00054
    Location:10811117
    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 ...
    sd00033
    Location:6486
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00008
    Location:11301160
    EGF; EGF-like domain
    pfam13855
    Location:776835
    LRR_8; Leucine rich repeat
    NF033189
    Location:107478
    internalin_A; class 1 internalin InlA
    cl21545
    Location:14731528
    GHB_like; Glycoprotein hormone beta chain homologues
  2. NM_003062.4NP_003053.2  slit homolog 3 protein isoform 2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site at the 5' end of an exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC008409, AC008479, AC011365, AC027311, AC094081
    Consensus CDS
    CCDS4369.1
    Related
    ENSP00000430333.2, ENST00000519560.6

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    168661740..169301139 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017009779.1XP_016865268.1  slit homolog 3 protein isoform X1

    Related
    ENSP00000384890.4, ENST00000404867.7
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