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

Gene ID: 245450, updated on 2-Nov-2024

Summary

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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
Involved in positive regulation of synapse assembly. Acts upstream of or within axonogenesis. Predicted to be located in dendrite and plasma membrane. Predicted to be active in GABA-ergic synapse; glutamatergic synapse; and postsynaptic membrane. Is expressed in several structures, including central nervous system; peripheral nervous system; retina; and trigeminal nerve. Used to study non-syndromic X-linked intellectual developmental disorder 111. Human ortholog(s) of this gene implicated in non-syndromic X-linked intellectual developmental disorder 111. Orthologous to human SLITRK2 (SLIT and NTRK like family member 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in frontal lobe adult (RPKM 2.2), cortex adult (RPKM 2.1) and 6 other tissues See more
Orthologs
human all
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Genomic context

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See Slitrk2 in Genome Data Viewer
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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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?
  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

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Alleles

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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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 IEA
Inferred from Electronic Annotation
more info
  
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 IEA
Inferred from Electronic Annotation
more info
  
involved_in synaptic membrane adhesion ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in GABA-ergic synapse IEA
Inferred from Electronic Annotation
more info
  
is_active_in GABA-ergic synapse ISO
Inferred from Sequence Orthology
more info
  
located_in dendrite ISO
Inferred from Sequence Orthology
more info
  
located_in dendrite ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in glutamatergic synapse IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in glutamatergic synapse IEA
Inferred from Electronic Annotation
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
  
located_in plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in postsynaptic membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in postsynaptic membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
SLIT and NTRK-like protein 2
Names
slit and trk like gene 2

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)

  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

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