U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Slitrk2 SLIT and NTRK-like family, member 2 [ Mus musculus (house mouse) ]

Gene ID: 245450, updated on 21-Apr-2024

Summary

Go to the top of the page Help
Official Symbol
Slitrk2provided by MGI
Official Full Name
SLIT and NTRK-like family, member 2provided by MGI
Primary source
MGI:MGI:2679449
See related
Ensembl:ENSMUSG00000036790 AllianceGenome:MGI:2679449
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
A930040J07
Summary
Acts upstream of or within axonogenesis and positive regulation of synapse assembly. Predicted to be integral component of membrane. Predicted to be active in GABA-ergic synapse and glutamatergic synapse. Is expressed in several structures, including central nervous system; retina; spinal ganglion or nerve; and trigeminal nerve. Orthologous to human SLITRK2 (SLIT and NTRK like family member 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in frontal lobe adult (RPKM 2.2), cortex adult (RPKM 2.1) and 6 other tissues See more
Orthologs
human all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
X A7.1; X 34.81 cM
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (65692535..65705008)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (66648951..66661402)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene H2A histone family member L1R, pseudogene Neighboring gene predicted gene, 30914 Neighboring gene STARR-seq mESC enhancer starr_47287 Neighboring gene STARR-seq mESC enhancer starr_47288 Neighboring gene STARR-seq mESC enhancer starr_47289 Neighboring gene STARR-seq mESC enhancer starr_47290 Neighboring gene STARR-seq mESC enhancer starr_47291 Neighboring gene STARR-seq mESC enhancer starr_47292 Neighboring gene predicted gene, 57681 Neighboring gene predicted gene, 23000

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Slitrk2 deficiency causes hyperactivity with altered vestibular function and serotonergic dysregulation. Katayama KI, et al. iScience, 2022 Jul 15. PMID 35789858, Free PMC Article
  2. Structure of Slitrk2-PTPδ complex reveals mechanisms for splicing-dependent trans-synaptic adhesion. Yamagata A, et al. Sci Rep, 2015 May 19. PMID 25989451, Free PMC Article
  3. Opposite Control of Excitatory and Inhibitory Synapse Formation by Slitrk2 and Slitrk5 on Dopamine Neurons Modulates Hyperactivity Behavior. Salesse C, et al. Cell Rep, 2020 Feb 18. PMID 32075770
  4. Differential expression of Slitrk family members in the mouse nervous system. Beaubien F, et al. Dev Dyn, 2009 Dec. PMID 19924824
  5. Human SLITRK family genes: genomic organization and expression profiling in normal brain and brain tumor tissue. Aruga J, et al. Gene, 2003 Oct 2. PMID 14557068

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Opposite Control of Excitatory and Inhibitory Synapse Formation by Slitrk2 and Slitrk5 on Dopamine Neurons Modulates Hyperactivity Behavior.
    Title: Opposite Control of Excitatory and Inhibitory Synapse Formation by Slitrk2 and Slitrk5 on Dopamine Neurons Modulates Hyperactivity Behavior.
Submit: New GeneRIF Correction

Variation

Go to the top of the page Help

Alleles

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

Interactions

Go to the top of the page Help
Products Interactant Other Gene Complex Source Pubs Description

General gene information

Go to the top of the page Help

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in axonogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within axonogenesis IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in axonogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of synapse assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within positive regulation of synapse assembly IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of synapse assembly IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of presynapse assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of synapse organization ISO
Inferred from Sequence Orthology
more info
  
involved_in synaptic membrane adhesion ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in GABA-ergic synapse ISO
Inferred from Sequence Orthology
more info
  
located_in cell projection IEA
Inferred from Electronic Annotation
more info
  
located_in dendrite ISO
Inferred from Sequence Orthology
more info
  
is_active_in glutamatergic synapse IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
  
located_in membrane ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in postsynaptic membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

Go to the top of the page Help
Preferred Names
SLIT and NTRK-like protein 2
Names
slit and trk like gene 2

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001161431.1 → NP_001154903.1  SLIT and NTRK-like protein 2 precursor

    See identical proteins and their annotated locations for NP_001154903.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 both encode the same protein.
    Source sequence(s)
    AL831757, BC111888, BE864556, CJ163676, CO431035
    Consensus CDS
    CCDS30169.1
    UniProtKB/Swiss-Prot
    Q810C0, Q8BXL6
    UniProtKB/TrEMBL
    Q14DP8, Q14DT0
    Related
    ENSMUSP00000130057.2, ENSMUST00000166241.2
    Conserved Domains (6) summary
    smart00082
    Location:530 → 580
    LRRCT; Leucine rich repeat C-terminal domain
    sd00031
    Location:67 → 87
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:208 → 370
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:400 → 460
    LRR_8; Leucine rich repeat
    cd21340
    Location:358 → 531
    PPP1R42; protein phosphatase 1 regulatory subunit 42
    cl15307
    Location:216 → 252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

  2. NM_198863.2 → NP_942563.2  SLIT and NTRK-like protein 2 precursor

    See identical proteins and their annotated locations for NP_942563.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same protein.
    Source sequence(s)
    AL831757, BC111888, BE864556, CO431035
    Consensus CDS
    CCDS30169.1
    UniProtKB/Swiss-Prot
    Q810C0, Q8BXL6
    UniProtKB/TrEMBL
    Q14DP8, Q14DT0
    Related
    ENSMUSP00000044094.5, ENSMUST00000036043.5
    Conserved Domains (6) summary
    smart00082
    Location:530 → 580
    LRRCT; Leucine rich repeat C-terminal domain
    sd00031
    Location:67 → 87
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:208 → 370
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:400 → 460
    LRR_8; Leucine rich repeat
    cd21340
    Location:358 → 531
    PPP1R42; protein phosphatase 1 regulatory subunit 42
    cl15307
    Location:216 → 252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

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

  1. NC_000086.8 Reference GRCm39 C57BL/6J

    Range
    65692535..65705008
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006528016.3 → XP_006528079.1  SLIT and NTRK-like protein 2 isoform X1

    See identical proteins and their annotated locations for XP_006528079.1

    UniProtKB/Swiss-Prot
    Q810C0, Q8BXL6
    UniProtKB/TrEMBL
    Q14DP8, Q14DT0
    Conserved Domains (6) summary
    smart00082
    Location:530 → 580
    LRRCT; Leucine rich repeat C-terminal domain
    sd00031
    Location:67 → 87
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:208 → 370
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:400 → 460
    LRR_8; Leucine rich repeat
    cd21340
    Location:358 → 531
    PPP1R42; protein phosphatase 1 regulatory subunit 42
    cl15307
    Location:216 → 252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

  2. XM_006528014.3 → XP_006528077.1  SLIT and NTRK-like protein 2 isoform X1

    See identical proteins and their annotated locations for XP_006528077.1

    UniProtKB/Swiss-Prot
    Q810C0, Q8BXL6
    UniProtKB/TrEMBL
    Q14DP8, Q14DT0
    Conserved Domains (6) summary
    smart00082
    Location:530 → 580
    LRRCT; Leucine rich repeat C-terminal domain
    sd00031
    Location:67 → 87
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:208 → 370
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:400 → 460
    LRR_8; Leucine rich repeat
    cd21340
    Location:358 → 531
    PPP1R42; protein phosphatase 1 regulatory subunit 42
    cl15307
    Location:216 → 252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

  3. XM_036161953.1 → XP_036017846.1  SLIT and NTRK-like protein 2 isoform X1

    UniProtKB/Swiss-Prot
    Q810C0, Q8BXL6
    UniProtKB/TrEMBL
    Q14DP8, Q14DT0
    Conserved Domains (6) summary
    smart00082
    Location:530 → 580
    LRRCT; Leucine rich repeat C-terminal domain
    sd00031
    Location:67 → 87
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:208 → 370
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:400 → 460
    LRR_8; Leucine rich repeat
    cd21340
    Location:358 → 531
    PPP1R42; protein phosphatase 1 regulatory subunit 42
    cl15307
    Location:216 → 252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

  4. XM_030251337.2 → XP_030107197.1  SLIT and NTRK-like protein 2 isoform X1

    UniProtKB/Swiss-Prot
    Q810C0, Q8BXL6
    UniProtKB/TrEMBL
    Q14DP8, Q14DT0
    Conserved Domains (6) summary
    smart00082
    Location:530 → 580
    LRRCT; Leucine rich repeat C-terminal domain
    sd00031
    Location:67 → 87
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:208 → 370
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:400 → 460
    LRR_8; Leucine rich repeat
    cd21340
    Location:358 → 531
    PPP1R42; protein phosphatase 1 regulatory subunit 42
    cl15307
    Location:216 → 252
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q810C0.1 GenPept UniProtKB/Swiss-Prot:Q810C0

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous