Slit1 slit guidance ligand 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Slit1provided by MGI
Official Full Name: slit guidance ligand 1provided by MGI
Primary source: MGI:MGI:1315203
See related: Ensembl:ENSMUSG00000025020 AllianceGenome:MGI:1315203
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Slil1; mKIAA0813
Summary: Enables Roundabout binding activity. Acts upstream of or within several processes, including axon guidance; nuclear migration; and tangential migration from the subventricular zone to the olfactory bulb. Located in extracellular space. Is expressed in several structures, including alimentary system; branchial arch; central nervous system; olfactory system; and retina. Orthologous to human SLIT1 (slit guidance ligand 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in whole brain E14.5 (RPKM 7.8), CNS E14 (RPKM 6.0) and 9 other tissues See more
Orthologs: human all
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Genomic context

Location:: 19 C3; 19 34.99 cM

Exon count:: 40

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	19	NC_000085.7 (41586263..41735714, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	19	NC_000085.6 (41597824..41747275, complement)

Chromosome 19 - NC_000085.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Slit1 inhibits ovarian follicle development and female fertility in micedagger.
Title: Slit1 inhibits ovarian follicle development and female fertility in mice†.
Contralateral migration of oculomotor neurons is regulated by Slit/Robo signaling. Results demonstrate that a migratory subset of motor neurons respond to floor plate-derived Slit repulsion to properly control the timing of contralateral migration.
Title: Contralateral migration of oculomotor neurons is regulated by Slit/Robo signaling.
While Slit1 and Robo2 are only expressed in peripheral axons and their cell bodies, Slit2, Slit3 and Robo1 are also expressed in satellite cells of the dorsal root ganglion, Schwann cells and fibroblasts of peripheral nerves.
Title: Expression patterns of Slit and Robo family members in adult mouse spinal cord and peripheral nervous system.
These observations from mutant Slit and Robo mice give great support for Slit/Robo role in neural crest cell migration during Enteric Nervous System development.
Title: Slit molecules prevent entrance of trunk neural crest cells in developing gut.
Data indicate the roles of Slit1/Robo1 and Netrin1/DCC signals in positioning motor neuron cell bodies.
Title: Motor neuron cell bodies are actively positioned by Slit/Robo repulsion and Netrin/DCC attraction.
a role for Slit1 in corpus callosum development
Title: Multiple Slits regulate the development of midline glial populations and the corpus callosum.
Robo-2-mediated targeting of P2 axons along the dorsoventral axis of the OB is controlled by Slit-1 expression
Title: Slits and Robo-2 regulate the coalescence of subsets of olfactory sensory neuron axons within the ventral region of the olfactory bulb.
This study demonistrated that production of IPCs is enhanced in Robo1/2 and Slit1/2 mutants, suggesting that Slit/Robo signaling modulates the transition between primary and intermediate progenitors.
Title: Slit/Robo signaling modulates the proliferation of central nervous system progenitors.
Disruption of either the Robo1 or Slit1 genes accelerates progression of thalamocortical axons in vivo.
Title: Spontaneous activity regulates Robo1 transcription to mediate a switch in thalamocortical axon growth.
Slit1 has a dual context-dependent role in thalamocortical axons formation
Title: Emergent growth cone responses to combinations of Slit1 and Netrin 1 in thalamocortical axon topography.

Submit: New GeneRIF Correction See all GeneRIFs (32)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2)
Targeted (4) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Slit1 (e-PCR), detects polymorphism
- UniSTS:525273

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables Roundabout binding	IBA Inferred from Biological aspect of Ancestor more info
enables Roundabout binding	IPI Inferred from Physical Interaction more info	PubMed
enables Roundabout binding	ISO Inferred from Sequence Orthology more info
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables heparan sulfate proteoglycan binding	IEA Inferred from Electronic Annotation more info
enables heparan sulfate proteoglycan binding	ISO Inferred from Sequence Orthology more info
enables heparin binding	IBA Inferred from Biological aspect of Ancestor more info
enables signaling receptor binding	TAS Traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in axon extension involved in axon guidance	IEA Inferred from Electronic Annotation more info
involved_in axon extension involved in axon guidance	ISO Inferred from Sequence Orthology more info
involved_in axon guidance	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within axon guidance	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within axon guidance	IGI Inferred from Genetic Interaction more info	PubMed
involved_in axon guidance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within axonogenesis	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within axonogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within dorsal/ventral axon guidance	IGI Inferred from Genetic Interaction more info	PubMed
involved_in motor neuron axon guidance	IEA Inferred from Electronic Annotation more info
involved_in motor neuron axon guidance	ISO Inferred from Sequence Orthology more info
involved_in negative chemotaxis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within negative chemotaxis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of axon extension involved in axon guidance	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of axon extension involved in axon guidance	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of synapse assembly	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within neuron projection morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within nuclear migration	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within olfactory bulb development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within retinal ganglion cell axon guidance	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within retinal ganglion cell axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in spinal cord development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within tangential migration from the subventricular zone to the olfactory bulb	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within telencephalon cell migration	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular space	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	TAS Traceable Author Statement more info

General protein information

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Preferred Names: slit homolog 1 protein

Names: slit-1

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.

mRNA and Protein(s)

NM_015748.3 → NP_056563.2 slit homolog 1 protein precursor

See identical proteins and their annotated locations for NP_056563.2

Status: VALIDATED

Source sequence(s)

AC145557, BC062091

Consensus CDS

CCDS29812.1

UniProtKB/Swiss-Prot

Q80TR4, Q9WVB5

UniProtKB/TrEMBL

E9Q2P0

Related

ENSMUSP00000025993.4, ENSMUST00000025993.10

Conserved Domains (8) summary

TIGR00864
Location:644 → 730

PCC; polycystin cation channel protein

smart00013
Location:33 → 64

LRRNT; Leucine rich repeat N-terminal domain

smart00282
Location:1186 → 1319

LamG; Laminin G domain

COG4886
Location:62 → 219

LRR; Leucine-rich repeat (LRR) protein [Transcription]

cd00054
Location:1005 → 1041

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:43 → 62

LRR_RI; leucine-rich repeat [structural motif]

pfam13855
Location:159 → 217

LRR_8; Leucine rich repeat

NF033189
Location:311 → 682

internalin_A; class 1 internalin InlA

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000085.7 Reference GRCm39 C57BL/6J

Range

41586263..41735714 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_030250829.1 → XP_030106689.1 slit homolog 1 protein isoform X1

UniProtKB/Swiss-Prot

Q80TR4, Q9WVB5

UniProtKB/TrEMBL

E9Q2P0

Conserved Domains (8) summary

TIGR00864
Location:644 → 730

PCC; polycystin cation channel protein

smart00013
Location:33 → 64

LRRNT; Leucine rich repeat N-terminal domain

smart00282
Location:1186 → 1319

LamG; Laminin G domain

COG4886
Location:62 → 219

LRR; Leucine-rich repeat (LRR) protein [Transcription]

cd00054
Location:1005 → 1041

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:43 → 62

LRR_RI; leucine-rich repeat [structural motif]

pfam13855
Location:159 → 217

LRR_8; Leucine rich repeat

NF033189
Location:311 → 682

internalin_A; class 1 internalin InlA
XM_030250830.2 → XP_030106690.1 slit homolog 1 protein isoform X1

UniProtKB/Swiss-Prot

Q80TR4, Q9WVB5

UniProtKB/TrEMBL

E9Q2P0

Conserved Domains (8) summary

TIGR00864
Location:644 → 730

PCC; polycystin cation channel protein

smart00013
Location:33 → 64

LRRNT; Leucine rich repeat N-terminal domain

smart00282
Location:1186 → 1319

LamG; Laminin G domain

COG4886
Location:62 → 219

LRR; Leucine-rich repeat (LRR) protein [Transcription]

cd00054
Location:1005 → 1041

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:43 → 62

LRR_RI; leucine-rich repeat [structural motif]

pfam13855
Location:159 → 217

LRR_8; Leucine rich repeat

NF033189
Location:311 → 682

internalin_A; class 1 internalin InlA
XM_036161495.1 → XP_036017388.1 slit homolog 1 protein isoform X2

UniProtKB/TrEMBL

E9Q2P0

Conserved Domains (8) summary

TIGR00864
Location:644 → 730

PCC; polycystin cation channel protein

smart00013
Location:33 → 64

LRRNT; Leucine rich repeat N-terminal domain

smart00282
Location:1108 → 1241

LamG; Laminin G domain

COG4886
Location:62 → 219

LRR; Leucine-rich repeat (LRR) protein [Transcription]

cd00054
Location:1007 → 1041

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:43 → 62

LRR_RI; leucine-rich repeat [structural motif]

NF033189
Location:311 → 682

internalin_A; class 1 internalin InlA

pfam13855
Location:159 → 217

LRR_8; Leucine rich repeat
XM_036161496.1 → XP_036017389.1 slit homolog 1 protein isoform X3

UniProtKB/TrEMBL

E9Q2P0

Conserved Domains (7) summary

TIGR00864
Location:441 → 527

PCC; polycystin cation channel protein

smart00013
Location:79 → 110

LRRNT; Leucine rich repeat N-terminal domain

smart00282
Location:983 → 1116

LamG; Laminin G domain

cd00054
Location:802 → 838

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:109 → 131

LRR_RI; leucine-rich repeat [structural motif]

NF033189
Location:108 → 479

internalin_A; class 1 internalin InlA

pfam13855
Location:559 → 617

LRR_8; Leucine rich repeat