ROR2

protein-coding

receptor tyrosine kinase like orphan receptor 2, the group of Receptor tyrosine kinases|I-set domain containing

Gene summary

The protein encoded by this gene is a receptor protein tyrosine kinase and type I transmembrane protein that belongs to the ROR subfamily of cell surface receptors. The protein may be involved in the early formation of the chondrocytes and may be required for cartilage and growth plate development. Mutations in this gene can cause brachydactyly type B, a skeletal disorder characterized by hypoplasia/aplasia of distal phalanges and nails. In addition, mutations in this gene can cause the autosomal recessive form of Robinow syndrome, which is characterized by skeletal dysplasia with generalized limb bone shortening, segmental defects of the spine, brachydactyly, and a dysmorphic facial appearance. [provided by RefSeq, Jul 2008]

Previous symbols:
  • NTRKR2
  • BDB
  • BDB1

MANE transcript

NM_004560.4

Inheritance

AD, AR

ClinVar variants

P:75U:452B:262

Top phenotype

Robinow syndrome, autosomal recessive 1

gnomAD constraint

pLI —, LoF o/e 0.36

Max pathogenic AF

—

Genomic locus

chr9:91,563,091-91,950,228

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~387.1 kb
Loading mutation effect viewer...

GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

brachydactyly type B1DEFINITIVE

Inheritance Pattern: AD

Disease ID:MONDO:0007220

Submitter: Ambry Genetics

autosomal recessive Robinow syndromeDEFINITIVE

Inheritance Pattern: AR

Disease ID:MONDO:0009999

Submitter: Ambry Genetics

autosomal recessive Robinow syndromeSTRONG

Inheritance Pattern: AR

Disease ID:MONDO:0009999

Submitter: Labcorp Genetics (formerly Invitae)

brachydactyly type B1STRONG

Inheritance Pattern: AD

Disease ID:MONDO:0007220

Submitter: Labcorp Genetics (formerly Invitae)

autosomal recessive Robinow syndromeSUPPORTIVE

Inheritance Pattern: AR

Disease ID:MONDO:0009999

Submitter: Orphanet

autosomal recessive Robinow syndromeSTRONG

Inheritance Pattern: AR

Disease ID:MONDO:0009999

Submitter: PanelApp Australia

autosomal recessive Robinow syndromeDEFINITIVE

Inheritance Pattern: AR

Disease ID:MONDO:0009999

Submitter: G2P

brachydactyly type B1STRONG

Inheritance Pattern: AD

Disease ID:MONDO:0007220

Submitter: PanelApp Australia

brachydactyly type B1DEFINITIVE

Inheritance Pattern: AD

Disease ID:MONDO:0007220

Submitter: G2P

Clinical Genomic Database (CGD)

Robinow syndrome, autosomal recessive 1AR

Manifestation: Cardiovascular; Craniofacial; Genitourinary; Musculoskeletal; Renal

Intervention: Cardiovascular

Rationale: The condition can involve congenital cardiac anomalies, and awareness may allow early management

Refs: 10700182; 10932186; 10932187; 10986040; 12919145; 15952209; 17256787; 18831060; 19461659; 22178368; 23238279; 24932600; 24954533; 26284319; 30143665; 31617258; 32172608Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to ROR2 variants in ClinVar

16 Conditions Cataloged
not providedTotal: 655
Autosomal recessive Robinow syndromeTotal: 318
Brachydactyly type B1Total: 301
Inborn genetic diseasesTotal: 153
not specifiedTotal: 67
ROR2-related disorderTotal: 52
Short statureTotal: 11
Intellectual disabilityTotal: 2

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_004560.4. Only rare variants are included.

We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.

Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.

EffectPLPVUSLBBSum
synonymous
11
clinvar
200
clinvar
3
clinvar
214
missense
18
clinvar
433
clinvar
50
clinvar
9
clinvar
510
nonsense
18
clinvar
8
clinvar
4
clinvar
30
start loss
1
clinvar
1
frameshift
15
clinvar
12
clinvar
3
clinvar
30
splice donor/acceptor (+/-2bp)
2
clinvar
1
clinvar
1
clinvar
4
Total363945225012789

Highest pathogenic variant AF is 0.00013393654

Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 23 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_004560.4RefSeqNP_004551.29MANE Select
ENST00000375708.4EnsemblENSP00000364860.39MANE Select
NM_001318204.2RefSeqNP_001305133.18Standard
ENST00000375715.5EnsemblENSP00000364867.110Standard

Model Organisms & Knockout Phenotypes

Observed phenotypic effects in mouse and zebrafish models

Gene / ModelOrganismObserved Phenotype
ror2Danio rerio

Structure: head

Quality: malformed

abnormal

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • WNT-Ncore
  • TGF-Ncore
  • Cardiac Progenitor Differentiation
  • Ectoderm Differentiation
  • Wnt Signaling Pathway

Biological Process

  • cartilage condensation
  • somitogenesis
  • signal transduction
  • transmembrane receptor protein tyrosine kinase signaling pathway
  • Wnt signaling pathway, calcium modulating pathway

Molecular Function

  • transmembrane receptor protein tyrosine kinase activity
  • frizzled binding
  • protein binding
  • ATP binding
  • Wnt-protein binding

Cellular Component

  • microtubule
  • plasma membrane
  • integral component of plasma membrane
  • cell surface
  • axon

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000375708
Coding exons
9
Length
387072
Individuals with no LoFs
125684
Homozygous LoFs
0
Heterozygous LoFs
64
Defined
125748
p
0.000255
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense0.1435845940.9830.00004276118
Missense (PolyPhen)150189.350.79222087
Synonymous-3.003302681.230.00002141937
Loss of Function3.731439.20.3570.00000247385

Population LoF Frequency

PopulationCAFp-valueStatus
African0.000510.00049rare
Latino/Admixed American0.000290.00029rare
Ashkenazi Jewish0.000300.00030rare
East Asian0.000110.00011rare
Finnish0.000490.00046rare
European (Non-Finnish)0.000210.00020rare
South Asian0.000200.00020rare
Other0.000330.00033rare

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: Tyrosine-protein kinase receptor which may be involved in the early formation of the chondrocytes. It seems to be required for cartilage and growth plate development (By similarity). Phosphorylates YWHAB, leading to induction of osteogenesis and bone formation (PubMed:17717073). In contrast, has also been shown to have very little tyrosine kinase activity in vitro. May act as a receptor for wnt ligand WNT5A which may result in the inhibition of WNT3A-mediated signaling (PubMed:25029443). {ECO:0000250|UniProtKB:Q9Z138, ECO:0000269|PubMed:17717073, ECO:0000269|PubMed:25029443}.;
Disease
DISEASE: Brachydactyly B1 (BDB1) [MIM:113000]: A form of brachydactyly. Brachydactyly defines a group of inherited malformations characterized by shortening of the digits due to abnormal development of the phalanges and/or the metacarpals. In brachydactyly type B1 the middle phalanges are short but in addition the terminal phalanges are rudimentary or absent. Both fingers and toes are affected. The thumbs and big toes are usually deformed. Symphalangism is also a feature. Note=The disease is caused by mutations affecting the gene represented in this entry.; DISEASE: Robinow syndrome autosomal recessive (RRS) [MIM:268310]: A recessive form of Robinow syndrome, a disease characterized by short-limb dwarfism, costovertebral segmentation defects and abnormalities of the head, face and external genitalia. The clinical signs are generally far more severe in recessive cases, particularly skeletal abnormalities. All patients with the recessive form suffer from vertebral segmentation abnormalities, resulting in scoliosis and chest deformities. Rib fusions are considered to be characteristic of the autosomal recessive form. Patients can also present brachydactyly, with extensive aplasia/hypoplasia of the phalanges and metacarpals/metatarsals, and brachy-syn-polydactyly of the hands and oligodactyly of the feet. {ECO:0000269|PubMed:10932186, ECO:0000269|PubMed:10932187}. Note=The disease is caused by mutations affecting the gene represented in this entry.;

Recessive Scores

pRec
0.110

Intolerance Scores

LoFtool
0.0625
RVIS EVS
-1.07
RVIS percentile EVS
7.35

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
N
Essential (gene trap)
N
Indispensability pred.
E
Indispensability score
0.947

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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