NM_001034853.2(RPGR):c.2742GGA[1] (p.Glu916del) AND not provided

Germline classification:: Likely benign (2 submissions)
Last evaluated:: May 1, 2024
Review status:: 2 stars out of maximum of 4 stars
criteria provided, multiple submitters, no conflicts

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:: RCV002464508.16

Allele description [Variation Report for NM_001034853.2(RPGR):c.2742GGA[1] (p.Glu916del)]

NM_001034853.2(RPGR):c.2742GGA[1] (p.Glu916del)

Gene:

RPGR:retinitis pigmentosa GTPase regulator [Gene - OMIM - HGNC]

Variant type:

Microsatellite

Cytogenetic location:

Xp11.4

Genomic location:

Preferred name:

NM_001034853.2(RPGR):c.2742GGA[1] (p.Glu916del)

HGVS:

NC_000023.11:g.38286254CTC[1]
NG_009553.1:g.46279GGA[1]
NM_000328.3:c.1905+840_1905+842del
NM_001034853.2:c.2742GGA[1]MANE SELECT
NM_001367245.1:c.1902+840_1902+842del
NM_001367246.1:c.1719+840_1719+842del
NM_001367247.1:c.1572+4705_1572+4707del
NM_001367248.1:c.1602+4705_1602+4707del
NM_001367249.1:c.1569+4705_1569+4707del
NM_001367250.1:c.1569+4705_1569+4707del
NM_001367251.1:c.1386+4705_1386+4707del
NP_001030025.1:p.Glu916del
NC_000023.10:g.38145505_38145507del
NC_000023.10:g.38145507CTC[1]
NM_001034853.1:c.2745_2747del

Protein change:

E916del

Links:

dbSNP: rs751721873

NCBI 1000 Genomes Browser:

rs751721873

Molecular consequence:

NM_001034853.2:c.2742GGA[1] - inframe_deletion - [Sequence Ontology: SO:0001822]
NM_000328.3:c.1905+840_1905+842del - intron variant - [Sequence Ontology: SO:0001627]
NM_001367245.1:c.1902+840_1902+842del - intron variant - [Sequence Ontology: SO:0001627]
NM_001367246.1:c.1719+840_1719+842del - intron variant - [Sequence Ontology: SO:0001627]
NM_001367247.1:c.1572+4705_1572+4707del - intron variant - [Sequence Ontology: SO:0001627]
NM_001367248.1:c.1602+4705_1602+4707del - intron variant - [Sequence Ontology: SO:0001627]
NM_001367249.1:c.1569+4705_1569+4707del - intron variant - [Sequence Ontology: SO:0001627]
NM_001367250.1:c.1569+4705_1569+4707del - intron variant - [Sequence Ontology: SO:0001627]
NM_001367251.1:c.1386+4705_1386+4707del - intron variant - [Sequence Ontology: SO:0001627]

Observations:

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV002759540	PreventionGenetics, part of Exact Sciences	criteria provided, single submitter (ACMG Guidelines, 2015)	Likely benign (Jul 23, 2019)	germline	clinical testing	PubMed (1) [See all records that cite this PMID]
SCV004010925	CeGaT Center for Human Genetics Tuebingen	criteria provided, single submitter (CeGaT Center For Human Genetics Tuebingen Variant Classification Criteria Version 2)	Likely benign (May 1, 2024)	germline	clinical testing	Citation Link

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV002759540

PreventionGenetics, part of Exact Sciences

criteria provided, single submitter

(ACMG Guidelines, 2015)

Likely benign
(Jul 23, 2019)

germline

clinical testing

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

SCV004010925

CeGaT Center for Human Genetics Tuebingen

criteria provided, single submitter

(CeGaT Center For Human Genetics Tuebingen Variant Classification Criteria Version 2)

Likely benign
(May 1, 2024)

germline

clinical testing

Citation Link

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing
not provided	germline	yes	2	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 PreventionGenetics, part of Exact Sciences, SCV002759540.1

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

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

From CeGaT Center for Human Genetics Tuebingen, SCV004010925.11

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	2	not provided	not provided	clinical testing	not provided

Description

RPGR: PM4:Supporting, BS2

#	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		2	not provided	not provided	not provided

Last Updated: Oct 8, 2024

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