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    slitrk4 SLIT and NTRK-like family, member 4 [ Danio rerio (zebrafish) ]

    Gene ID: 558123, updated on 28-Oct-2024

    Summary

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    Official Symbol
    slitrk4provided by ZNC
    Official Full Name
    SLIT and NTRK-like family, member 4provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-140303-1
    See related
    Ensembl:ENSDARG00000079781 AllianceGenome:ZFIN:ZDB-GENE-140303-1
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Summary
    Predicted to be involved in axonogenesis and positive regulation of synapse assembly. Predicted to act upstream of or within regulation of presynapse assembly. Predicted to be located in membrane. Predicted to be active in glutamatergic synapse. Is expressed in central nervous system and retina. Orthologous to human SLITRK4 (SLIT and NTRK like family member 4). [provided by Alliance of Genome Resources, Oct 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See slitrk4 in Genome Data Viewer
    Location:
    chromosome: 14
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 14 NC_007125.7 (18667123..18672617, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 14 NC_007125.6 (18361480..18366997, complement)

    Chromosome 14 - NC_007125.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137487518 Neighboring gene uncharacterized LOC101886375 Neighboring gene uncharacterized LOC110440223 Neighboring gene uncharacterized LOC137487576

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Slitrk gene duplication and expression in the developing zebrafish nervous system. Round J, et al. Dev Dyn, 2014 Feb. PMID 24123428
    2. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    involved_in axonogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within axonogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of synapse assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of presynapse assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in glutamatergic synapse IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in 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 4 protein

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007125.7 Reference GRCz11 Primary Assembly

      Range
      18667123..18672617 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021481146.2 → XP_021336821.1  SLIT and NTRK-like protein 4 isoform X2

      UniProtKB/TrEMBL
      A0A8M9QKW6, F1R814
      Related
      ENSDARP00000022100.9, ENSDART00000006998.10
      Conserved Domains (5) summary
      TIGR00864
      Location:498 → 559
      PCC; polycystin cation channel protein
      smart00082
      Location:213 → 253
      LRRCT; Leucine rich repeat C-terminal domain
      sd00033
      Location:87 → 108
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:398 → 457
      LRR_8; Leucine rich repeat
      cl26793
      Location:341 → 433
      PLN00113; leucine-rich repeat receptor-like protein kinase; Provisional

    2. XM_021481145.2 → XP_021336820.1  SLIT and NTRK-like protein 4 isoform X1

      UniProtKB/TrEMBL
      A0A0R4IYE6, A0A8M9QPE0
      Related
      ENSDARP00000141891.1, ENSDART00000166730.2
      Conserved Domains (5) summary
      TIGR00864
      Location:498 → 559
      PCC; polycystin cation channel protein
      smart00082
      Location:213 → 253
      LRRCT; Leucine rich repeat C-terminal domain
      sd00033
      Location:87 → 108
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:398 → 457
      LRR_8; Leucine rich repeat
      cl26793
      Location:341 → 433
      PLN00113; leucine-rich repeat receptor-like protein kinase; Provisional

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394900.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      75959..81453 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_681309.8 → XP_686401.3  SLIT and NTRK-like protein 4 isoform X2

      UniProtKB/TrEMBL
      A0A8M9QKW6, F1R814
      Conserved Domains (5) summary
      TIGR00864
      Location:498 → 559
      PCC; polycystin cation channel protein
      smart00082
      Location:213 → 253
      LRRCT; Leucine rich repeat C-terminal domain
      sd00033
      Location:87 → 108
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:398 → 457
      LRR_8; Leucine rich repeat
      cl26793
      Location:341 → 433
      PLN00113; leucine-rich repeat receptor-like protein kinase; Provisional

    2. XM_005157225.5 → XP_005157282.1  SLIT and NTRK-like protein 4 isoform X1

      UniProtKB/TrEMBL
      A0A0R4IYE6, A0A8M9QPE0
      Conserved Domains (5) summary
      TIGR00864
      Location:498 → 559
      PCC; polycystin cation channel protein
      smart00082
      Location:213 → 253
      LRRCT; Leucine rich repeat C-terminal domain
      sd00033
      Location:87 → 108
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:398 → 457
      LRR_8; Leucine rich repeat
      cl26793
      Location:341 → 433
      PLN00113; leucine-rich repeat receptor-like protein kinase; Provisional
    Nucleotide Protein
    Heading Accession and Version

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