NM_000110.4(DPYD):c.1375_1388del (p.Trp459fs) AND Dihydropyrimidine dehydrogenase deficiency

Germline classification:: Likely pathogenic (1 submission)
Last evaluated:: Sep 30, 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:: RCV003466231.1

Allele description [Variation Report for NM_000110.4(DPYD):c.1375_1388del (p.Trp459fs)]

NM_000110.4(DPYD):c.1375_1388del (p.Trp459fs)

Gene:

DPYD:dihydropyrimidine dehydrogenase [Gene - OMIM - HGNC]

Variant type:

Deletion

Cytogenetic location:

1p21.3

Genomic location:

Preferred name:

NM_000110.4(DPYD):c.1375_1388del (p.Trp459fs)

HGVS:

NC_000001.11:g.97549700_97549713del
NG_008807.2:g.376351_376364del
NM_000110.4:c.1375_1388delMANE SELECT
NP_000101.2:p.Trp459Serfs
NP_000101.2:p.Trp459fs
LRG_722t1:c.1371_1384del
LRG_722:g.376351_376364del
LRG_722p1:p.Trp459Serfs
NC_000001.10:g.98015256_98015269del
NM_000110.3:c.1371_1384delCAGATGGGGTCTCC

Protein change:

W459fs

Molecular consequence:

NM_000110.4:c.1375_1388del - frameshift variant - [Sequence Ontology: SO:0001589]

Condition(s)

Name:: Dihydropyrimidine dehydrogenase deficiency (DPYDD)
Synonyms:: DPYD DEFICIENCY; DPD deficiency; Pyrimidinemia familial; See all synonyms [MedGen]
Identifiers:: MONDO: MONDO:0010130; MedGen: C1959620; Orphanet: 1675; OMIM: 274270

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Boechera lyallii voucher DUKE:P.J. Alexander 1107 internal transcribed spacer 1,...
Boechera lyallii voucher DUKE:P.J. Alexander 1107 internal transcribed spacer 1, partial sequence; 5.8S ribosomal RNA gene, complete sequence; and internal transcribed spacer 2, partial sequence
gi|401018598|gb|JX146959.1|

Nucleotide

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV004194085	Baylor Genetics	criteria provided, single submitter (ACMG Guidelines, 2015)	Likely pathogenic (Sep 30, 2023)	unknown	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

SCV004194085

Baylor Genetics

criteria provided, single submitter

(ACMG Guidelines, 2015)

Likely pathogenic
(Sep 30, 2023)

unknown

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	unknown	unknown	not provided	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 Baylor Genetics, SCV004194085.1

#	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	unknown	unknown	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Dec 30, 2023

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