NM_138694.4(PKHD1):c.664A>G (p.Ile222Val) AND PKHD1-related disorder

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Oct 12, 2023
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:
RCV003401465.4

Allele description [Variation Report for NM_138694.4(PKHD1):c.664A>G (p.Ile222Val)]

NM_138694.4(PKHD1):c.664A>G (p.Ile222Val)

Gene:
PKHD1:PKHD1 ciliary IPT domain containing fibrocystin/polyductin [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
6p12.2
Genomic location:
Preferred name:
NM_138694.4(PKHD1):c.664A>G (p.Ile222Val)
HGVS:
  • NC_000006.12:g.52071009T>C
  • NG_008753.1:g.21617A>G
  • NM_138694.4:c.664A>GMANE SELECT
  • NM_170724.3:c.664A>G
  • NP_619639.3:p.Ile222Val
  • NP_733842.2:p.Ile222Val
  • NC_000006.11:g.51935807T>C
  • NM_138694.3:c.664A>G
  • c.664A>G (p.Ile222Val)
Protein change:
I222V
Links:
dbSNP: rs369925690
NCBI 1000 Genomes Browser:
rs369925690
Molecular consequence:
  • NM_138694.4:c.664A>G - missense variant - [Sequence Ontology: SO:0001583]
  • NM_170724.3:c.664A>G - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
PKHD1-related disorder
Synonyms:
PKHD1-related condition
Identifiers:

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV004104111PreventionGenetics, part of Exact Sciences
criteria provided, single submitter

(ACMG Guidelines, 2015)		Pathogenic
(Oct 12, 2023) 		germlineclinical testing

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

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical 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, SCV004104111.1

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

Description

The PKHD1 c.664A>G variant is predicted to result in the amino acid substitution p.Ile222Val. This variant has been repeatedly reported to be causative for autosomal recessive polycystic kidney disease (ARPKD) (Ward et al. 2002. PubMed ID: 11919560; Shuster et al. 2019. PubMed ID: 30650191; Obeidova et al. 2020. PubMed ID: 32574212; Jayasinghe et al. 2020. PubMed ID: 32939031). This variant is reported in 0.058% of alleles in individuals of Ashkenazi Jewish descent in gnomAD (http://gnomad.broadinstitute.org/variant/6-51935807-T-C). This variant is interpreted as pathogenic.

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

Last Updated: Jan 26, 2025