NM_006915.3(RP2):c.761T>C (p.Ile254Thr) AND Retinitis pigmentosa 2

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Jan 5, 2022
Review status:: 1 star out of maximum of 4 stars
criteria provided, single submitter

Somatic classification of clinical impact:: None
Review status:: (0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided

Somatic classification of oncogenicity:: None
Review status:: (0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided

Record status:: current
Accession:: RCV001806688.1

Allele description [Variation Report for NM_006915.3(RP2):c.761T>C (p.Ile254Thr)]

NM_006915.3(RP2):c.761T>C (p.Ile254Thr)

Gene:

RP2:RP2 activator of ARL3 GTPase [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

Xp11.3

Genomic location:

Preferred name:

NM_006915.3(RP2):c.761T>C (p.Ile254Thr)

HGVS:

NC_000023.11:g.46854134T>C
NG_009107.1:g.22223T>C
NM_006915.3:c.761T>CMANE SELECT
NP_008846.2:p.Ile254Thr
NC_000023.10:g.46713569T>C

Protein change:

I254T

Links:

dbSNP: rs1556318773

NCBI 1000 Genomes Browser:

rs1556318773

Molecular consequence:

NM_006915.3:c.761T>C - missense variant - [Sequence Ontology: SO:0001583]

Observations:

Condition(s)

Name:: Retinitis pigmentosa 2 (RP2)
Synonyms:: Retinitis pigmentosa 2, X linked
Identifiers:: MONDO: MONDO:0010723; MedGen: C2681923; Orphanet: 791; OMIM: 312600

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV002050686	Institute of Human Genetics, University of Goettingen	criteria provided, single submitter (ACMG Guidelines, 2015)	Uncertain significance (Jan 5, 2022)	germline	clinical testing	PubMed (1) [See all records that cite this PMID]

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV002050686

Institute of Human Genetics, University of Goettingen

criteria provided, single submitter

(ACMG Guidelines, 2015)

Uncertain significance
(Jan 5, 2022)

germline

clinical testing

PubMed (1)
[See all records that cite this PMID]

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	yes	1	not provided	not provided	not provided	not provided	clinical testing

Citations

PubMed

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]

PMID:: 25741868
PMCID:: PMC4544753

Details of each submission

From Institute of Human Genetics, University of Goettingen, SCV002050686.1

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1		1	not provided	not provided	clinical testing	PubMed (1)

Description

This variant results in a exchange of aminoacid Isoleucine to Threonine. The position is highly conserved and is located in the kinase domaine of the protein. The variant is not described elsewhere and prediction tools predict a damaging effect of the exchange. following ACMG criteria were included: PM2, PP2 and PP3.

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	yes	not provided	not provided	not provided		1	not provided	not provided	not provided

Last Updated: Dec 24, 2023

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