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    RYK receptor like tyrosine kinase [ Homo sapiens (human) ]

    Gene ID: 6259, updated on 9-Dec-2024

    Summary

    Official Symbol
    RYKprovided by HGNC
    Official Full Name
    receptor like tyrosine kinaseprovided by HGNC
    Primary source
    HGNC:HGNC:10481
    See related
    Ensembl:ENSG00000163785 MIM:600524; AllianceGenome:HGNC:10481
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    JTK5; RYK1; JTK5A; D3S3195
    Summary
    The protein encoded by this gene is an atypical member of the family of growth factor receptor protein tyrosine kinases, differing from other members at a number of conserved residues in the activation and nucleotide binding domains. This gene product belongs to a subfamily whose members do not appear to be regulated by phosphorylation in the activation segment. It has been suggested that mediation of biological activity by recruitment of a signaling-competent auxiliary protein may occur through an as yet uncharacterized mechanism. The encoded protein has a leucine-rich extracellular domain with a WIF-type Wnt binding region, a single transmembrane domain, and an intracellular tyrosine kinase domain. This protein is involved in stimulating Wnt signaling pathways such as the regulation of axon pathfinding. Alternative splicing results in multiple transcript variants encoding distinct isoforms. [provided by RefSeq, Feb 2012]
    Expression
    Ubiquitous expression in ovary (RPKM 32.1), testis (RPKM 26.7) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See RYK in Genome Data Viewer
    Location:
    3q22.2
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (134157133..134250859, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (136902246..136995998, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (133875977..133969701, complement)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:133774934-133775740 Neighboring gene uncharacterized LOC105374117 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:133784850-133785350 Neighboring gene long intergenic non-protein coding RNA 2000 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:133786727-133787227 Neighboring gene high mobility group box 3 pseudogene 14 Neighboring gene Sharpr-MPRA regulatory region 4898 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:133968944-133969720 Neighboring gene Sharpr-MPRA regulatory region 8229 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:134032557-134033130 Neighboring gene uncharacterized LOC105374118 Neighboring gene Sharpr-MPRA regulatory regions 684 and 10996 Neighboring gene long intergenic non-protein coding RNA 2004

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of RYK PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables Wnt receptor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables Wnt-protein binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables Wnt-protein binding NAS
    Non-traceable Author Statement
    more info
    PubMed 
    enables coreceptor activity TAS
    Traceable Author Statement
    more info
    PubMed 
    enables frizzled binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables frizzled binding NAS
    Non-traceable Author Statement
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    NOT enables protein tyrosine kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NOT enables transmembrane receptor protein tyrosine kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables transmembrane signaling receptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in Wnt signaling pathway, planar cell polarity pathway TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in axon extension involved in axon guidance IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in axon guidance ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in axon guidance NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in axonogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in axonogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in axonogenesis TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in canonical Wnt signaling pathway NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in cell surface receptor protein tyrosine kinase signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in chemorepulsion of dopaminergic neuron axon ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in commissural neuron axon guidance ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in corpus callosum development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in midbrain dopaminergic neuron differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in multicellular organism development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in negative regulation of axon extension involved in axon guidance IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in neurogenesis NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in neuron differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in neuron projection development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in non-canonical Wnt signaling pathway NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in positive regulation of MAPK cascade IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of cell proliferation in midbrain ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of neuron projection development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    NOT involved_in protein phosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in signal transduction TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in skeletal system morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in synapse assembly NAS
    Non-traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
     
    located_in membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in membrane NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in nucleus NAS
    Non-traceable Author Statement
    more info
    PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     
    located_in postsynaptic density membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in presynaptic active zone membrane IEA
    Inferred from Electronic Annotation
    more info
     
    part_of receptor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    tyrosine-protein kinase RYK
    Names
    JTK5A protein tyrosine kinase
    hydroxyaryl-protein kinase
    NP_001005861.1
    NP_002949.2

    NCBI Reference Sequences (RefSeq)

    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.

    Genomic

    1. NG_032937.1 RefSeqGene

      Range
      4886..98612
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001005861.3NP_001005861.1  tyrosine-protein kinase RYK isoform 1 precursor

      See identical proteins and their annotated locations for NP_001005861.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AB209405, AC096967, AC108742, BC021700, CN309980, X69970
      Consensus CDS
      CCDS75016.1
      Related
      ENSP00000478721.1, ENST00000620660.4
      Conserved Domains (3) summary
      smart00469
      Location:63196
      WIF; Wnt-inhibitory factor-1 like domain
      cd05043
      Location:326606
      PTK_Ryk; Pseudokinase domain of Ryk (Receptor related to tyrosine kinase)
      pfam07714
      Location:333599
      Pkinase_Tyr; Protein tyrosine kinase
    2. NM_002958.4NP_002949.2  tyrosine-protein kinase RYK isoform 2 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the coding region, compared to variant 1, resulting in a shorter protein (isoform 2).
      Source sequence(s)
      AB209405, AC096967, AC108742, BC021700, CN309980, X69970
      Consensus CDS
      CCDS77820.1
      UniProtKB/Swiss-Prot
      A0A087WUK1, A0A096LNL3, P34925, Q04696
      Related
      ENSP00000485095.1, ENST00000623711.4
      Conserved Domains (2) summary
      smart00469
      Location:63196
      WIF; Wnt-inhibitory factor-1 like domain
      cd05043
      Location:323603
      PTK_Ryk; Pseudokinase domain of Ryk (Receptor related to tyrosine kinase)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      134157133..134250859 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_007095716.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      136902246..136995998 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_008486769.1 RNA Sequence