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NM_006269.2(RP1):c.4242_4243del (p.His1414fs) AND not provided

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Nov 30, 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:
RCV003558772.2

Allele description [Variation Report for NM_006269.2(RP1):c.4242_4243del (p.His1414fs)]

NM_006269.2(RP1):c.4242_4243del (p.His1414fs)

Gene:
RP1:RP1 axonemal microtubule associated [Gene - OMIM - HGNC]
Variant type:
Deletion
Cytogenetic location:
8q12.1
Genomic location:
Preferred name:
NM_006269.2(RP1):c.4242_4243del (p.His1414fs)
HGVS:
  • NC_000008.11:g.54628124_54628125del
  • NG_009840.2:g.17058_17059del
  • NM_001375654.1:c.787+5836_787+5837del
  • NM_006269.2:c.4242_4243delMANE SELECT
  • NP_006260.1:p.His1414fs
  • NC_000008.10:g.55540683_55540684del
  • NC_000008.10:g.55540684_55540685del
  • NG_009840.1:g.17058_17059del
  • NM_006269.1:c.4242_4243del
  • p.(His1414Glnfs*5)
Protein change:
H1414fs
Links:
dbSNP: rs767436678
NCBI 1000 Genomes Browser:
rs767436678
Molecular consequence:
  • NM_006269.2:c.4242_4243del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001375654.1:c.787+5836_787+5837del - intron variant - [Sequence Ontology: SO:0001627]

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: C3661900

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV004295269Labcorp Genetics (formerly Invitae), Labcorp
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))
Pathogenic
(Nov 30, 2022)
germlineclinical testing

PubMed (9)
[See all records that cite these PMIDs]

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Clinical features and mutations in patients with dominant retinitis pigmentosa-1 (RP1).

Berson EL, Grimsby JL, Adams SM, McGee TL, Sweklo E, Pierce EA, Sandberg MA, Dryja TP.

Invest Ophthalmol Vis Sci. 2001 Sep;42(10):2217-24.

PubMed [citation]
PMID:
11527933

Compound heterozygosity of two novel truncation mutations in RP1 causing autosomal recessive retinitis pigmentosa.

Chen LJ, Lai TY, Tam PO, Chiang SW, Zhang X, Lam S, Lai RY, Lam DS, Pang CP.

Invest Ophthalmol Vis Sci. 2010 Apr;51(4):2236-42. doi: 10.1167/iovs.09-4437. Epub 2009 Nov 20.

PubMed [citation]
PMID:
19933189
See all PubMed Citations (9)

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV004295269.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (9)

Description

For these reasons, this variant has been classified as Pathogenic. This variant disrupts the C-terminus of the RP1 protein. Many variants that disrupt this region have been reported in individuals with either autosomal dominant or autosomal recessive retinitis pigmentosa (PMID: 11527933, 19933189, 29425069, 30027431, 33681214). Therefore, variants that disrupt this region are expected to be disease-causing. ClinVar contains an entry for this variant (Variation ID: 979009). This variant is also known as c.4241_4242del. This premature translational stop signal has been observed in individual(s) with autosomal recessive RP1-related conditions (PMID: 22334370, 24265693, 30913292). In at least one individual the data is consistent with being in trans (on the opposite chromosome) from a pathogenic variant. It has also been observed to segregate with disease in related individuals. This variant is present in population databases (rs767436678, gnomAD 0.0009%). This sequence change creates a premature translational stop signal (p.His1414Glnfs*5) in the RP1 gene. While this is not anticipated to result in nonsense mediated decay, it is expected to disrupt the last 743 amino acid(s) of the RP1 protein.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Sep 29, 2024