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RYK Gene

protein-coding   GIFtS: 67
GCID: GC03M133794

Receptor-Like Tyrosine Kinase

(Previous names: JTK5A protein tyrosine kinase, RYK receptor-like tyrosine...)
(Previous symbol: JTK5A)
  Search for RYK
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Receptor-Like Tyrosine Kinase1 2     D3S31952
JTK5A1 2 3     JTK52
JTK5A Protein Tyrosine Kinase1 2     Hydroxyaryl-Protein Kinase2
EC 2.7.10.13 8     Tyrosine-Protein Kinase RYK2
RYK12 5     EC 2.7.108
RYK Receptor-Like Tyrosine Kinase1     

External Ids:    HGNC: 104811   Entrez Gene: 62592   Ensembl: ENSG000001637857   OMIM: 6005245   UniProtKB: P349253   

Export aliases for RYK gene to outside databases

Previous GC identifers: GC03P130793 GC03M134620 GC03M135157 GC03M135197 GC03M135196 GC03M135358 GC03M131254


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for RYK Gene:
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)

GeneCards Summary for RYK Gene:
RYK (receptor-like tyrosine kinase) is a protein-coding gene. GO annotations related to this gene include transmembrane signaling receptor activity and frizzled binding. An important paralog of this gene is AXL.

UniProtKB/Swiss-Prot: RYK_HUMAN, P34925
Function: May be a coreceptor along with FZD8 of Wnt proteins, such as WNT1, WNT3, WNT3A and WNT5A. Involved in
neuron differentiation, axon guidance, corpus callosum establishment and neurite outgrowth. In response to WNT3
stimulation, receptor C-terminal cleavage occurs in its transmembrane region and allows the C-terminal
intracellular product to translocate from the cytoplasm to the nucleus where it plays a crucial role in neuronal
development

Gene Wiki entry for RYK (Related to receptor tyrosine kinase) Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000003.11  NC_018914.2  NT_005612.17  
Regulatory elements:
   Regulatory transcription factor binding sites in the RYK gene promoter:
         AML1a   HOXA3   AP-1   ATF-2   c-Jun   GATA-2   GATA-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidRYK promoter sequence
   Search Chromatin IP Primers for RYK

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat RYK


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 3q22   Ensembl cytogenetic band:  3q22.2   HGNC cytogenetic band: 3q22.1

RYK Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RYK gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M133794:  view genomic region     (about GC identifiers)

Start:
133,784,147 bp from pter      End:
133,969,689 bp from pter
Size:
185,543 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: RYK_HUMAN, P34925 (See protein sequence)
Recommended Name: Tyrosine-protein kinase RYK precursor  
Size: 604 amino acids; 67507 Da
Subunit: Interacts with DVL1 (via PDZ domain)
Caution: According to some authors, has impaired kinase activity (PubMed:10454588)
Secondary accessions: Q04696
Alternative splicing: 2 isoforms:  P34925-1   P34925-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for RYK: NX_P34925

Explore proteomics data for RYK at MOPED

Post-translational modifications: 

  • Proteolytically cleaved, in part by presenilin, in response to WNT3 stimulation. Cleavage occurs during neuronal
    differentiation1
  • Glycosylation2 at Asn136, Asn171, Asn175, Asn179, Asn206
  • Modification sites at PhosphoSitePlus
  • 2 DME Specific Peptides for RYK (P34925)
     WMALESL  SDVWAFGVT 


    See RYK Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001005861.1  NP_002949.2  

    ENSEMBL proteins: 
     ENSP00000475203   ENSP00000419122   ENSP00000417836   ENSP00000296084   ENSP00000399527  
    Reactome Protein details: P34925

    RYK Human Recombinant Protein Products:

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    Novus Biologicals RYK Protein
    Novus Biologicals RYK Lysates
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    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for RYK

     
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    RYK Antibody Products:

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    RYK Assay Products:

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    Cloud-Clone Corp. ELISAs for RYK
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    Search eBioscience for ELISAs for RYK 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    IUPHAR Guide to PHARMACOLOGY protein family classification: receptor-like tyrosine kinase
    ROR family and other RTKs
    Ryk family

    Selected InterPro protein domains (see all 6):
     IPR001245 Ser-Thr/Tyr_kinase_cat_dom
     IPR011009 Kinase-like_dom
     IPR000719 Prot_kinase_dom
     IPR008266 Tyr_kinase_AS
     IPR020635 Tyr_kinase_cat_dom

    Graphical View of Domain Structure for InterPro Entry P34925

    ProtoNet protein and cluster: P34925

    2 Blocks protein domains:
    IPB003306 WIF domain
    IPB008266 Tyrosine protein kinase


    UniProtKB/Swiss-Prot: RYK_HUMAN, P34925
    Domain: The extracellular WIF domain is responsible for Wnt binding (By similarity)
    Similarity: Belongs to the protein kinase superfamily. Tyr protein kinase family
    Similarity: Contains 1 protein kinase domain
    Similarity: Contains 1 WIF domain


    Find genes that share domains with RYK           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: RYK_HUMAN, P34925
    Function: May be a coreceptor along with FZD8 of Wnt proteins, such as WNT1, WNT3, WNT3A and WNT5A. Involved in
    neuron differentiation, axon guidance, corpus callosum establishment and neurite outgrowth. In response to WNT3
    stimulation, receptor C-terminal cleavage occurs in its transmembrane region and allows the C-terminal
    intracellular product to translocate from the cytoplasm to the nucleus where it plays a crucial role in neuronal
    development
    Catalytic activity: ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate

         Genatlas biochemistry entry for RYK:
    related to receptor tyrosine kinase

         Enzyme Numbers (IUBMB): EC 2.7.10.11 2 EC 2.7.102

         Gene Ontology (GO): Selected molecular function terms (see all 10):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004672protein kinase activity ----
    GO:0004713NOT protein tyrosine kinase activity IDA10454588
    GO:0004714transmembrane receptor protein tyrosine kinase activity TAS8386829
    GO:0004888transmembrane signaling receptor activity IDA10454588
    GO:0005109frizzled binding IEA--
         
    Find genes that share ontologies with RYK           About GenesLikeMe


    Phenotypes:
         6 GenomeRNAi human phenotypes for RYK:
     Decreased focal adhesion (FA)   Decreased substrate adherent c  Decreased viability in CMK cel  Increased cell death HMECs cel 
     Increased telomerase activity  Synthetic lethal with imatinib 

         9 MGI mutant phenotypes (inferred from 1 allele(MGI details for Ryk):
     behavior/neurological  craniofacial  digestive/alimentary  growth/size/body  homeostasis/metabolism 
     limbs/digits/tail  mortality/aging  skeleton  vision/eye 

    Find genes that share phenotypes with RYK           About GenesLikeMe

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for RYK
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for RYK
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for RYK

    miRNA
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    Block miRNA regulation of human, mouse, rat RYK using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate RYK (see all 17):
    hsa-miR-3910 hsa-miR-4307 hsa-miR-548s hsa-miR-548g hsa-miR-124 hsa-miR-7-1* hsa-miR-548x hsa-miR-506
    SwitchGear 3'UTR luciferase reporter plasmidRYK 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat RYK

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    GenScript: all cDNA clones in your preferred vector (see all 2): RYK (NM_001005861)
    Browse Sino Biological Human cDNA Clones
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RYK

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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RYK


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    RYK_HUMAN, P34925: Membrane; Single-pass type I membrane protein (By similarity). Nucleus (By similarity).
    Cytoplasm (By similarity). Note=In cells that have undergone neuronal differentiation, the C-terminal cleaved
    part is translocated from the cytoplasm to the nucleus (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus4
    plasma membrane4
    cytosol1
    endoplasmic reticulum1
    extracellular1
    golgi apparatus1
    lysosome1
    mitochondrion1
    peroxisome1

    Gene Ontology (GO): Selected cellular component terms (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus ISS--
    GO:0005737cytoplasm ISS--
    GO:0005886plasma membrane TAS--
    GO:0005887integral component of plasma membrane TAS8386829
    GO:0016020membrane ISS--

    Find genes that share ontologies with RYK           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for RYK About   (see all 14)  
    See pathways by source

    SuperPathContained pathways About
    1GPCR Pathway
    Ras Pathway0.73
    Breast Cancer Regulation by Stathmin10.58
    Paxillin Interactions0.73
    NFAT in Immune Response0.58
    GPCR Pathway0.62
    Estrogen Pathway0.55
    Pancreatic Adenocarcinoma0.59
    P2Y Receptor Signaling0.38
    2ERK Signaling
    Rho Family GTPases0.61
    Molecular Mechanisms of Cancer0.51
    ERK Signaling0.61
    ILK Signaling0.49
    MAPK Signaling0.58
    3Nanog in Mammalian ESC Pluripotency
    Nanog in Mammalian ESC Pluripotency0.61
    14-3-3 Induced Intracellular Signaling0.59
    GSK3 Signaling0.61
    eNOS Signaling0.48
    4Actin Nucleation by ARP-WASP Complex
    Actin Nucleation and Branching0.66
    CDC42 Pathway0.41
    Actin Nucleation by ARP-WASP Complex0.66
    5beta-catenin independent WNT signaling
    beta-catenin independent WNT signaling0.79
    Signaling by Wnt0.79


    Find genes that share SuperPaths with RYK           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 R&D Systems Pathway for RYK
        Wnt Signaling Pathways

    Selected Downloadable PowerPoint Slides of GeneGlobe Pathway Central Maps for RYK (see all 28)
        MAPK Signaling
    Paxillin Interactions
    Endothelin-1 Signaling Pathway
    Molecular Mechanisms of Cancer
    Intracellular Calcium Signaling

    1 BioSystems Pathway for RYK
        Wnt signaling network

    2 Reactome Pathways for RYK
        PCP/CE pathway
    TCF dependent signaling in response to WNT


        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for RYK
    Interactions:

        GeneGlobe Interaction Network for RYK

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for RYK (P349253 ENSP000002960844) via UniProtKB, MINT, STRING, and/or I2D (see all 91)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    WNT1P046283, ENSP000002935494I2D: score=3 STRING: ENSP00000293549
    ABI1Q8IZP03, ENSP000003653124I2D: score=1 STRING: ENSP00000365312
    AIFM1O958313, ENSP000002872954I2D: score=1 STRING: ENSP00000287295
    CDH2P190223, ENSP000002691414I2D: score=1 STRING: ENSP00000269141
    CDHR1Q96JP93, ENSP000003611894I2D: score=1 STRING: ENSP00000361189
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    Gene Ontology (GO): Selected biological process terms (see all 14):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006468NOT protein phosphorylation IDA10454588
    GO:0007165signal transduction TAS8386829
    GO:0007409axonogenesis ----
    GO:0007411axon guidance ISS--
    GO:0016055Wnt signaling pathway IEA--

    Find genes that share ontologies with RYK           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for RYK

    2 HMDB Compounds for RYK    About this table
    CompoundSynonyms CAS #PubMed Ids
    ADPadenosindiphosphorsaeure (see all 8)58-64-0--
    Adenosine triphosphate5'-(tetrahydrogen triphosphate) Adenosine (see all 24)56-65-5--

    2 Novoseek inferred chemical compound relationships for RYK gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    tyrosine 40.9 12 8386829 (6), 19168282 (1), 11150355 (1), 17616647 (1) (see all 5)
    atp 24 2 16168228 (1), 19168282 (1)



    Find genes that share compounds with RYK           About GenesLikeMe



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for RYK gene (2 alternative transcripts): 
    NM_001005861.2  NM_002958.3  

    Unigene Cluster for RYK:

    Receptor-like tyrosine kinase
    Hs.654562  [show with all ESTs]
    Unigene Representative Sequence: AB209405
    10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000484106 ENST00000472234 ENST00000460933 ENST00000473208 ENST00000486725
    ENST00000481382 ENST00000480381 ENST00000464879 ENST00000296084 ENST00000427044(uc003eqd.1 uc003eqc.1)

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    hsa-miR-3910 hsa-miR-4307 hsa-miR-548s hsa-miR-548g hsa-miR-124 hsa-miR-7-1* hsa-miR-548x hsa-miR-506
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      QuantiFast Probe-based Assays in human, mouse, rat RYK

    Additional mRNA sequence: 

    AB209405.1 BC021700.2 S59184.1 X69970.1 X96588.1 

    11 DOTS entries:

    DT.448866  DT.100018689  DT.100751747  DT.95128704  DT.120856239  DT.95273746  DT.97860722  DT.99962173 
    DT.100751748  DT.120856258  DT.99938697 

    Selected AceView cDNA sequences (see all 208):

    AU130782 AL038697 BE742349 BQ434679 BG779222 AA024438 BM759878 BF978409 
    BE857247 BG482812 AA906125 BI793038 BF691623 W61159 BF977221 CA388839 
    BC021700 AW951627 BF447237 BM705395 BM763208 CF139750 AL709669 BG762507 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    RYK expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GAAAACTGTT
    RYK Expression
    About this image


    RYK expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 6) fully expand
     
     Brain (Nervous System)    fully expand to see all 3 entries
             Cerebral Cortex
     
     Neural Tube (Nervous System)    fully expand to see all 2 entries
             Metencephalon
     
     Gut Tube (Gastrointestinal Tract)
             Foregut
     
     Bone (Muscoskeletal System)
             Membranous Facial Bones
     
     Kidney (Urinary System)
             Metanephros
    RYK Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    RYK Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.654562

    UniProtKB/Swiss-Prot: RYK_HUMAN, P34925
    Tissue specificity: Observed in all the tissues examined

        Custom PCR Arrays for RYK
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RYK

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of animals.

    Orthologs for RYK gene from Selected species (see all 15)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ryk1 , 5 receptor-like tyrosine kinase1, 5 90.53(n)1
    97.12(a)1
      9 (54.72 cM)5
    201871  NM_013649.31  NP_038677.31 
     1028349175 
    chicken
    (Gallus gallus)
    Aves RYK1 receptor-like tyrosine kinase 82.48(n)
    92.55(a)
      395409  XM_422674.4  XP_422674.4 
    lizard
    (Anolis carolinensis)
    Reptilia RYK6
    receptor-like tyrosine kinase
    86(a)
    1 ↔ 1
    3(31231349-31269889)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.161242 Transcribed sequence with moderate similarity to protein more 75.69(n)    BX748741.1 
    zebrafish
    (Danio rerio)
    Actinopterygii ryk1 receptor-like tyrosine kinase 74.51(n)
    82.9(a)
      558502  NM_001083826.1  NP_001077295.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta drl3
    Drl-21
    protein amino acid phosphorylation
    transmembrane more3
    Derailed 21
    46(a)
    (best of 3)3
    49.85(n)1
    39.08(a)1
      2 37C73
    364361  NM_136991.31  NP_610835.21 
    worm
    (Caenorhabditis elegans)
    Secernentea lin-181 , 3 protein tyrosine kinase3
    lin-181
    29(a)3
    45.2(n)1
    33.9(a)1
      X(3993911-3997072)3
    1806791  NM_076283.41  NP_508684.41 


    ENSEMBL Gene Tree for RYK (if available)
    TreeFam Gene Tree for RYK (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for RYK gene
    AXL2  MET2  TYRO32  MERTK2  MST1R2  
    Selected SIMAP similar genes for RYK using alignment to 6 protein entries:     RYK_HUMAN (see all proteins) (see all similar genes):
    FLT1    ERBB2    EPHA4    FLT4    MET    EPHA2
    ABL1    AXL    NTRK3    PTK7    DKFZp434L0319    MERTK
    MST1R    JAK2    INSR    LTK    FGR    IGF1R

    Find genes that share paralogs with RYK           About GenesLikeMe


    1 Pseudogenes.org Pseudogene for RYK
    PGOHUM00000259202


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for RYK (see all 1909)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0418024
    An ovarian mucinous carcinoma sample4--see VAR_0418022 V I mis40--------
    rs1413716571,2
    C--131274144(+) ACAGC-/AAAAAA 2 -- int10--------
    rs2013991841,2
    C--131310338(+) AACACA/TGTTGC 2 -- int10--------
    rs114258391,2
    C--131312837(+) AAAAAA/-GAAAA 2 -- int1 trp31Minor allele frequency- -:0.00NA 2
    rs1500824451,2
    --133856776(+) CTTACC/TTGTGG 2 -- ds50010--------
    rs1387734301,2
    --133856890(+) TACCTC/GTGAAG 2 -- ds50010--------
    rs1427471571,2
    --133856951(+) CAACTA/CTGCTT 2 -- ds50010--------
    rs145331,2
    C,F,H--133857284(-) AGGCTG/AGCTTA 2 -- ut31 ese35Minor allele frequency- A:0.11MN NA CSA EA 428
    rs145321,2
    --133857395(+) ATAAAA/GGGGAA 2 -- ut312Minor allele frequency- G:0.02MN NA 186
    rs1467822331,2
    --133857499(+) GATCTA/GCCCCA 2 -- ut310--------

    HapMap Linkage Disequilibrium report for RYK (133784147 - 133969689 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for RYK:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv23490CNV Loss19812545

    Human Gene Mutation Database (HGMD): RYK
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing RYK
    DNA2.0 Custom Variant and Variant Library Synthesis for RYK

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 600524    OMIM disorders: --


    Find genes that share disorders with RYK           About GenesLikeMe

    Genetic Association Database (GAD): RYK
    Human Genome Epidemiology (HuGE) Navigator: RYK (13 documents)

    Export disorders for RYK gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for RYK gene, integrated from 10 sources (see all 33):
    (articles sorted by number of sources associating them with RYK)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Molecular cloning and chromosomal localisation of the human homologue of a receptor related to tyrosine kinases (RYK). (PubMed id 8386829)1, 2, 3, 9 Stacker S.A.... Wilks A.F. (Oncogene 1993)
    2. A mutation in RYK is a genetic factor for nonsyndromic cleft lip and palate. (PubMed id 16681403)1, 4, 9 Watanabe A....Yoshiura K. (Cleft Palate Craniofac. J. 2006)
    3. Maternal genes and facial clefts in offspring: a comprehensive search for genetic associations in two population-based cleft studies from Scandinavia. (PubMed id 20634891)1, 4 Jugessur A....Murray J.C. (PLoS ONE 2010)
    4. Testing reported associations of genetic risk factors for oral clefts in a large Irish study population. (PubMed id 19937600)1, 4 Carter T.C....Mills J.L. (Birth Defects Res. Part A Clin. Mol. Teratol. 2010)
    5. Mammalian Ryk is a Wnt coreceptor required for stimulation of neurite outgrowth. (PubMed id 15454084)1, 2 Lu W.... Baltimore D. (Cell 2004)
    6. Functional analysis of H-Ryk, an atypical member of the receptor tyrosine kinase family. (PubMed id 10454588)1, 2 Katso R.M.... Ganesan T.S. (Mol. Cell. Biol. 1999)
    7. H-RYK, an unusual receptor kinase: isolation and analysis of expression in ovarian cancer. (PubMed id 8726462)1, 2 Wang X.C.... Ganesan T.S. (Mol. Med. 1996)
    8. The human ryk cDNA sequence predicts a protein containing two putative transmembrane segments and a tyrosine kinase catalytic domain. (PubMed id 8390040)1, 2 Tamagnone L.... Alitalo K. (Oncogene 1993)
    9. The Wnt receptor Ryk plays a role in mammalian planar cell polarity signaling. (PubMed id 22773843)1 Macheda M.L....Stacker S.A. (J. Biol. Chem. 2012)
    10. Systematic and quantitative assessment of the ubiquitin-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (Mol. Cell 2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 6259 HGNC: 10481 AceView: RYK Ensembl:ENSG00000163785 euGenes: HUgn6259
    ECgene: RYK H-InvDB: RYK

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
    About This Section

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    NameDescription
    PharmGKB entry for RYK Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for RYK Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section

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    Patent Information for RYK gene:
    Search GeneIP for patents involving RYK

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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