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    Slitrk5 SLIT and NTRK-like family, member 5 [ Mus musculus (house mouse) ]

    Gene ID: 75409, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Slitrk5provided by MGI
    Official Full Name
    SLIT and NTRK-like family, member 5provided by MGI
    Primary source
    MGI:MGI:2679448
    See related
    Ensembl:ENSMUSG00000033214 AllianceGenome:MGI:2679448
    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
    2610019D03Rik
    Summary
    Involved in regulation of trans-synaptic signaling by BDNF, modulating synaptic transmission. Acts upstream of or within several processes, including grooming behavior; neuron projection morphogenesis; and positive regulation of synapse assembly. Is active in postsynaptic density membrane. Is expressed in several structures, including brain; genitourinary system; gut; hemolymphoid system gland; and neural retina. Orthologous to human SLITRK5 (SLIT and NTRK like family member 5). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in frontal lobe adult (RPKM 6.2), CNS E18 (RPKM 6.1) and 6 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Slitrk5 in Genome Data Viewer
    Location:
    14 E4; 14 57.86 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (111912547..111920576)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (111675115..111683144)

    Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 48992 Neighboring gene STARR-seq mESC enhancer starr_37577 Neighboring gene ubiquitin-associated protein 2 pseudogene Neighboring gene predicted gene, 30439 Neighboring gene predicted gene, 52150 Neighboring gene ribosomal protein L27A pseudogene

    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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    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SLITRK5 is a negative regulator of hedgehog signaling in osteoblasts.
      Title: SLITRK5 is a negative regulator of hedgehog signaling in osteoblasts.
    2. 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.
    3. Slitrk5 modulates brain-derived neurotrophic factor (BDNF)-dependent biological responses through direct interaction with TrkB receptors. Under basal conditions, Slitrk5 interacts with a transsynaptic binding partner, protein tyrosine phosphatase delta.
      Title: Slitrk5 Mediates BDNF-Dependent TrkB Receptor Trafficking and Signaling.
    4. Slitrk5 deficiency impairs corticostriatal circuitry and leads to obsessive-compulsive behaviors in mice.
      Title: Slitrk5 deficiency impairs corticostriatal circuitry and leads to obsessive-compulsive-like behaviors in mice.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    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 molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within adult behavior IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 
    acts_upstream_of_or_within chemical synaptic transmission IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within circulatory system development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within dendrite morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within grooming behavior IMP
    Inferred from Mutant Phenotype
    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 trans-synaptic signaling by BDNF, modulating synaptic transmission IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of trans-synaptic signaling by BDNF, modulating synaptic transmission IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within response to xenobiotic stimulus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within skin development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within striatum development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    is_active_in postsynaptic density membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in postsynaptic density membrane NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of receptor complex ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    SLIT and NTRK-like protein 5
    Names
    slit and trk like gene 5

    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_001378768.1 → NP_001365697.1  SLIT and NTRK-like protein 5 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC102368
      Conserved Domains (5) summary
      COG4886
      Location:97 → 344
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:87 → 104
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:154 → 214
      LRR_8; Leucine rich repeat
      cd21340
      Location:416 → 588
      PPP1R42; protein phosphatase 1 regulatory subunit 42
      cl15307
      Location:588 → 624
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

    2. NM_001378769.1 → NP_001365698.1  SLIT and NTRK-like protein 5 isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      AC102368
      UniProtKB/Swiss-Prot
      Q810B7, Q9CT21
      Conserved Domains (6) summary
      COG4886
      Location:72 → 319
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:435 → 458
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:62 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:129 → 189
      LRR_8; Leucine rich repeat
      cd21340
      Location:391 → 563
      PPP1R42; protein phosphatase 1 regulatory subunit 42
      cl15307
      Location:563 → 599
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

    3. NM_001378770.1 → NP_001365699.1  SLIT and NTRK-like protein 5 isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      AC102368
      UniProtKB/Swiss-Prot
      Q810B7, Q9CT21
      Conserved Domains (6) summary
      COG4886
      Location:72 → 319
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:435 → 458
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:62 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:129 → 189
      LRR_8; Leucine rich repeat
      cd21340
      Location:391 → 563
      PPP1R42; protein phosphatase 1 regulatory subunit 42
      cl15307
      Location:563 → 599
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

    4. NM_198865.1 → NP_942565.1  SLIT and NTRK-like protein 5 isoform 1 precursor

      See identical proteins and their annotated locations for NP_942565.1

      Status: VALIDATED

      Source sequence(s)
      AK173062, BC065107, BQ769394, BY274593, BY728649, CB526109
      Consensus CDS
      CCDS27328.1
      UniProtKB/Swiss-Prot
      Q810B7, Q9CT21
      Related
      ENSMUSP00000041499.8, ENSMUST00000042767.9
      Conserved Domains (6) summary
      COG4886
      Location:72 → 319
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:435 → 458
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:62 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:129 → 189
      LRR_8; Leucine rich repeat
      cd21340
      Location:391 → 563
      PPP1R42; protein phosphatase 1 regulatory subunit 42
      cl15307
      Location:563 → 599
      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_000080.7 Reference GRCm39 C57BL/6J

      Range
      111912547..111920576
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_029273.2: Suppressed sequence

      Description
      NM_029273.2: This RefSeq was permanently suppressed because currently there is not sufficient data to support this transcript.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q810B7.1 GenPept UniProtKB/Swiss-Prot:Q810B7

    Gene LinkOut

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