Ryk receptor-like tyrosine kinase [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Rykprovided by MGI
Official Full Name: receptor-like tyrosine kinaseprovided by MGI
Primary source: MGI:MGI:101766
See related: Ensembl:ENSMUSG00000032547 AllianceGenome:MGI:101766
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: Vik; ERK-3
Summary: Enables Wnt-activated receptor activity; Wnt-protein binding activity; and frizzled binding activity. Involved in nervous system development. Acts upstream of or within generation of neurons; negative chemotaxis; and skeletal system morphogenesis. Located in cytoplasm; nucleus; and plasma membrane. Is expressed in several structures, including alimentary system; brain; genitourinary system; hemolymphoid system; and sensory organ. Orthologous to human RYK (receptor like tyrosine kinase). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in bladder adult (RPKM 22.9), lung adult (RPKM 22.2) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 9 F1; 9 54.72 cM

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	9	NC_000075.7 (102712119..102785506)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	9	NC_000075.6 (102834920..102908307)

Chromosome 9 - NC_000075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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?

WNT/RYK signaling functions as an antiinflammatory modulator in the lung mesenchyme.
Title: WNT/RYK signaling functions as an antiinflammatory modulator in the lung mesenchyme.
WNT5a Regulates Epithelial Morphogenesis in the Developing Choroid Plexus.
Title: WNT5a Regulates Epithelial Morphogenesis in the Developing Choroid Plexus.
Ryk modulates the niche activity of mesenchymal stromal cells by fine-tuning canonical Wnt signaling.
Title: Ryk modulates the niche activity of mesenchymal stromal cells by fine-tuning canonical Wnt signaling.
RYK-mediated filopodial pathfinding facilitates midgut elongation.
Title: RYK-mediated filopodial pathfinding facilitates midgut elongation.
Studied the role of receptor-like tyrosine kinase (Ryk) in WNT signaling during goblet cell differentiation in lung development and repair.
Title: WNT/RYK signaling restricts goblet cell differentiation during lung development and repair.
Signaling via the non-canonical Wnt receptor Ryk regulates cortical interneuron cell-fate specification in vivo and in vitro.
Title: Non-canonical Wnt Signaling through Ryk Regulates the Generation of Somatostatin- and Parvalbumin-Expressing Cortical Interneurons.
ERK3 mutant mice reached adulthood, were fertile, and showed no apparent health problem. However, analysis of growth curves revealed that ERK3 kinase activity is necessary for optimal postnatal growth.
Title: Reevaluation of the Role of Extracellular Signal-Regulated Kinase 3 in Perinatal Survival and Postnatal Growth Using New Genetically Engineered Mouse Models.
ERK3 is dispensable for pulmonary and T-cell functions. The perinatal lethality and lung and T-cell defects of the previous ERK3 knockout mice are likely due to ERK3-unrelated effects of the inserted lacZ-neomycin resistance cassette.
Title: Germ Line Deletion Reveals a Nonessential Role of Atypical Mitogen-Activated Protein Kinase 6/Extracellular Signal-Regulated Kinase 3.
These findings reveal an essential role for Ryk in regulating dendrite complexity.
Title: The Wnt receptor Ryk is a negative regulator of mammalian dendrite morphogenesis.
Smek1 and Smek2 (Smek1/2) are key factors in the Ryk signaling pathway
Title: Smek1/2 is a nuclear chaperone and cofactor for cleaved Wnt receptor Ryk, regulating cortical neurogenesis.

Submit: New GeneRIF Correction See all GeneRIFs (24)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (2) 1 citation
Endonuclease-mediated (3)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH77856 (e-PCR)
- UniSTS:75351

Ryk (e-PCR), detects polymorphism
- UniSTS:546980

Ryk (e-PCR), detects polymorphism
- UniSTS:144364

AW536699 (e-PCR)
- UniSTS:179962

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables Wnt receptor activity	IPI Inferred from Physical Interaction more info	PubMed
enables Wnt receptor activity	TAS Traceable Author Statement more info	PubMed
enables Wnt-protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables Wnt-protein binding	TAS Traceable Author Statement more info	PubMed
enables frizzled binding	IPI Inferred from Physical Interaction more info	PubMed
enables kinase activity	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase activity	IEA Inferred from Electronic Annotation more info
NOT enables protein tyrosine kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables transferase activity	IEA Inferred from Electronic Annotation more info
NOT enables transmembrane receptor protein tyrosine kinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables transmembrane signaling receptor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in Wnt signaling pathway	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within Wnt signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
involved_in Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in Wnt signaling pathway, planar cell polarity pathway	TAS Traceable Author Statement more info	PubMed
acts_upstream_of axon extension involved in axon guidance	IGI Inferred from Genetic Interaction more info	PubMed
involved_in axon guidance	IDA Inferred from Direct Assay more info	PubMed
involved_in axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in axon guidance	TAS Traceable Author Statement more info	PubMed
involved_in axonogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within axonogenesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in axonogenesis	ISO Inferred from Sequence Orthology more info
involved_in cell surface receptor protein tyrosine kinase signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in chemorepulsion of axon	TAS Traceable Author Statement more info	PubMed
involved_in chemorepulsion of dopaminergic neuron axon	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within commissural neuron axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in corpus callosum development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in midbrain dopaminergic neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in multicellular organism development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within negative chemotaxis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within negative regulation of axon extension involved in axon guidance	IGI Inferred from Genetic Interaction more info	PubMed
involved_in neuron differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in neuron projection development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of MAPK cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell proliferation in midbrain	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of kinase activity	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein phosphorylation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within skeletal system morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic density membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynaptic active zone membrane	IDA Inferred from Direct Assay more info	PubMed
part_of receptor complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: tyrosine-protein kinase RYK

Names: NYK-R; growth factor receptor; kinase VIK; met-related kinase

NP_001036072.1

EC 2.7.10.1

NP_001271187.1

EC 2.7.10.1

NP_038677.3

EC 2.7.10.1

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)

NM_001042607.1 → NP_001036072.1 tyrosine-protein kinase RYK isoform 2 precursor

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate splice site in the coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.

Source sequence(s)

AK144355, BB704205, L02210, L21707

Consensus CDS

CCDS57696.1

UniProtKB/TrEMBL

H9H9R6

Related

ENSMUSP00000035142.7, ENSMUST00000035142.8

Conserved Domains (3) summary

smart00469
Location:47 → 180

WIF; Wnt-inhibitory factor-1 like domain

cd05043
Location:307 → 587

PTK_Ryk; Pseudokinase domain of Ryk (Receptor related to tyrosine kinase)

pfam07714
Location:314 → 580

Pkinase_Tyr; Protein tyrosine kinase
NM_001284258.1 → NP_001271187.1 tyrosine-protein kinase RYK isoform 3

See identical proteins and their annotated locations for NP_001271187.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) lack an alternate in-frame 5' coding exon and initiates translation at a downstream start codon, compared to variant 1. The resulting protein (isoform 3) is shorter and has a distinct N-terminus compared to isoform 1.

Source sequence(s)

AC164161, AK144355

UniProtKB/TrEMBL

Q8K272

Conserved Domains (3) summary

cd05043
Location:191 → 471

PTK_Ryk; Pseudokinase domain of Ryk (Receptor related to tyrosine kinase)

pfam07714
Location:198 → 464

Pkinase_Tyr; Protein tyrosine kinase

cl02623
Location:1 → 64

WIF; WIF domain
NM_013649.3 → NP_038677.3 tyrosine-protein kinase RYK isoform 1 precursor

See identical proteins and their annotated locations for NP_038677.3

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer protein (isoform 1).

Source sequence(s)

AK076449, AK144355, BB704205, L02210, L21707

Consensus CDS

CCDS40747.1

UniProtKB/Swiss-Prot

Q01887, Q61890

Related

ENSMUSP00000135858.2, ENSMUST00000175883.8

Conserved Domains (3) summary

smart00469
Location:47 → 180

WIF; Wnt-inhibitory factor-1 like domain

cd05043
Location:310 → 590

PTK_Ryk; Pseudokinase domain of Ryk (Receptor related to tyrosine kinase)

pfam07714
Location:317 → 583

Pkinase_Tyr; Protein tyrosine kinase