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Slitrk4 SLIT and NTRK-like family, member 4 [ Mus musculus (house mouse) ]

Gene ID: 245446, updated on 27-Nov-2024

Summary

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Official Symbol
Slitrk4provided by MGI
Official Full Name
SLIT and NTRK-like family, member 4provided by MGI
Primary source
MGI:MGI:2442509
See related
Ensembl:ENSMUSG00000046699 AllianceGenome:MGI:2442509
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
6430513G13; D930039I09Rik
Summary
Acts upstream of or within axonogenesis and positive regulation of synapse assembly. Predicted to be located in membrane. Predicted to be active in glutamatergic synapse. Is expressed in several structures, including brain; ganglia; and spinal cord. Orthologous to human SLITRK4 (SLIT and NTRK like family member 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in frontal lobe adult (RPKM 2.1), cerebellum adult (RPKM 1.9) and 6 other tissues See more
Orthologs
human all
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Genomic context

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See Slitrk4 in Genome Data Viewer
Location:
X A7.1; X 34.57 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (63308489..63320951, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (64264883..64277345, complement)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_47268 Neighboring gene predicted gene 6760 Neighboring gene MAGE family member A9 Neighboring gene DMRT-like family C1c2 pseudogene Neighboring gene predicted gene, 24598

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
  • 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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Related articles in PubMed

  1. The SLITRK4-CNPY3 axis promotes liver metastasis of gastric cancer by enhancing the endocytosis and recycling of TrkB in tumour cells. Zhou YQ, et al. Cell Oncol (Dordr), 2023 Aug. PMID 37012514
  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. Differential expression of Slitrk family members in the mouse nervous system. Beaubien F, et al. Dev Dyn, 2009 Dec. PMID 19924824
  4. 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
  5. Secreted TARSH regulates olfactory mitral cell dendritic complexity. Cheng TW, et al. Eur J Neurosci, 2009 Mar. PMID 19302145, Free PMC Article

See all (27) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The SLITRK4-CNPY3 axis promotes liver metastasis of gastric cancer by enhancing the endocytosis and recycling of TrkB in tumour cells.
    Title: The SLITRK4-CNPY3 axis promotes liver metastasis of gastric cancer by enhancing the endocytosis and recycling of TrkB in tumour cells.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (3)  1 citation

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

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 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 regulation of synapse organization ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
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 IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
SLIT and NTRK-like protein 4
Names
slit and trk like gene 4

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_001365111.1 → NP_001352040.1  SLIT and NTRK-like protein 4 precursor

    Status: VALIDATED

    Source sequence(s)
    AL669956
    Consensus CDS
    CCDS30167.1
    UniProtKB/Swiss-Prot
    Q810B8, Q8BL56, Q8BWB0, Q8BYG4, Q8C056
    UniProtKB/TrEMBL
    Q149A4
    Conserved Domains (4) summary
    sd00033
    Location:63 → 84
    LRR_RI; leucine-rich repeat [structural motif]
    NF033189
    Location:15 → 253
    internalin_A; class 1 internalin InlA
    pfam13855
    Location:402 → 461
    LRR_8; Leucine rich repeat
    cd21340
    Location:359 → 550
    PPP1R42; protein phosphatase 1 regulatory subunit 42

  2. NM_001365112.1 → NP_001352041.1  SLIT and NTRK-like protein 4 precursor

    Status: VALIDATED

    Source sequence(s)
    AK032263, AK053065, AL669956, BC079655, BC117891
    Consensus CDS
    CCDS30167.1
    UniProtKB/Swiss-Prot
    Q810B8, Q8BL56, Q8BWB0, Q8BYG4, Q8C056
    UniProtKB/TrEMBL
    Q149A4
    Related
    ENSMUSP00000110327.2, ENSMUST00000114679.2
    Conserved Domains (4) summary
    sd00033
    Location:63 → 84
    LRR_RI; leucine-rich repeat [structural motif]
    NF033189
    Location:15 → 253
    internalin_A; class 1 internalin InlA
    pfam13855
    Location:402 → 461
    LRR_8; Leucine rich repeat
    cd21340
    Location:359 → 550
    PPP1R42; protein phosphatase 1 regulatory subunit 42

  3. NM_178740.5 → NP_848855.2  SLIT and NTRK-like protein 4 precursor

    See identical proteins and their annotated locations for NP_848855.2

    Status: VALIDATED

    Source sequence(s)
    AK032263, AK053065, AL669956, BC079655
    Consensus CDS
    CCDS30167.1
    UniProtKB/Swiss-Prot
    Q810B8, Q8BL56, Q8BWB0, Q8BYG4, Q8C056
    UniProtKB/TrEMBL
    Q149A4
    Related
    ENSMUSP00000064443.8, ENSMUST00000069926.14
    Conserved Domains (4) summary
    sd00033
    Location:63 → 84
    LRR_RI; leucine-rich repeat [structural motif]
    NF033189
    Location:15 → 253
    internalin_A; class 1 internalin InlA
    pfam13855
    Location:402 → 461
    LRR_8; Leucine rich repeat
    cd21340
    Location:359 → 550
    PPP1R42; protein phosphatase 1 regulatory subunit 42

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
    63308489..63320951 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036161952.1 → XP_036017845.1  SLIT and NTRK-like protein 4 isoform X1

    UniProtKB/Swiss-Prot
    Q810B8, Q8BL56, Q8BWB0, Q8BYG4, Q8C056
    UniProtKB/TrEMBL
    Q149A4
    Conserved Domains (4) summary
    sd00033
    Location:63 → 84
    LRR_RI; leucine-rich repeat [structural motif]
    NF033189
    Location:15 → 253
    internalin_A; class 1 internalin InlA
    pfam13855
    Location:402 → 461
    LRR_8; Leucine rich repeat
    cd21340
    Location:359 → 550
    PPP1R42; protein phosphatase 1 regulatory subunit 42
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q810B8.2 GenPept UniProtKB/Swiss-Prot:Q810B8

Gene LinkOut

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