NM_174936.4(PCSK9):c.1797C>T (p.Ser599=) AND Hypercholesterolemia, autosomal dominant, 3

Germline classification:: Likely benign (1 submission)
Last evaluated:: Aug 15, 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:: RCV004006570.2

Allele description [Variation Report for NM_174936.4(PCSK9):c.1797C>T (p.Ser599=)]

NM_174936.4(PCSK9):c.1797C>T (p.Ser599=)

Gene:

PCSK9:proprotein convertase subtilisin/kexin type 9 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

1p32.3

Genomic location:

Preferred name:

NM_174936.4(PCSK9):c.1797C>T (p.Ser599=)

HGVS:

NC_000001.11:g.55061490C>T
NG_009061.1:g.26944C>T
NM_001407240.1:c.1920C>T
NM_001407241.1:c.1839C>T
NM_001407242.1:c.1800C>T
NM_001407243.1:c.1740C>T
NM_001407244.1:c.1623C>T
NM_001407245.1:c.1605C>T
NM_001407246.1:c.1422C>T
NM_001407247.1:c.1296C>T
NM_174936.4:c.1797C>TMANE SELECT
NP_001394169.1:p.Ser640=
NP_001394170.1:p.Ser613=
NP_001394171.1:p.Ser600=
NP_001394172.1:p.Ser580=
NP_001394173.1:p.Ser541=
NP_001394174.1:p.Ser535=
NP_001394175.1:p.Ser474=
NP_001394176.1:p.Ser432=
NP_777596.2:p.Ser599=
NP_777596.2:p.Ser599=
LRG_275t1:c.1797C>T
LRG_275:g.26944C>T
LRG_275p1:p.Ser599=
NC_000001.10:g.55527163C>T
NC_000001.10:g.55527163C>T
NM_174936.3:c.1797C>T
NR_110451.3:n.2078C>T
NR_176318.1:n.1881C>T
NR_176319.1:n.2356C>T
NR_176320.1:n.2320C>T
NR_176321.1:n.2035C>T
NR_176322.1:n.1990C>T
NR_176323.1:n.1909C>T
NR_176324.1:n.2297C>T

Links:

dbSNP: rs1349990848

NCBI 1000 Genomes Browser:

rs1349990848

Molecular consequence:

NR_110451.3:n.2078C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176318.1:n.1881C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176319.1:n.2356C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176320.1:n.2320C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176321.1:n.2035C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176322.1:n.1990C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176323.1:n.1909C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176324.1:n.2297C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NM_001407240.1:c.1920C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001407241.1:c.1839C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001407242.1:c.1800C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001407243.1:c.1740C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001407244.1:c.1623C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001407245.1:c.1605C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001407246.1:c.1422C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001407247.1:c.1296C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_174936.4:c.1797C>T - synonymous variant - [Sequence Ontology: SO:0001819]

Observations:

Condition(s)

Name:: Hypercholesterolemia, autosomal dominant, 3 (FHCL3)
Synonyms:: Familial hypercholesterolemia 3; Familial Hypercholesterolemia, Autosomal Dominant, 3
Identifiers:: MONDO: MONDO:0011369; MedGen: C1863551; OMIM: 603776

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Hypselobarbus pulchellus mitochondrion, complete genome
Hypselobarbus pulchellus mitochondrion, complete genome
gi|1111670690|ref|NC_032081.1||gnl| GENOMES|63438

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV004846491	All of Us Research Program, National Institutes of Health	criteria provided, single submitter (ACMG Guidelines, 2015)	Likely Benign (Aug 15, 2023)	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

SCV004846491

All of Us Research Program, National Institutes of Health

criteria provided, single submitter

(ACMG Guidelines, 2015)

Likely Benign
(Aug 15, 2023)

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	unknown	1	not provided	not provided	108544	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 All of Us Research Program, National Institutes of Health, SCV004846491.1

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	1	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	108544	not provided	not provided		1	not provided	not provided	not provided

Last Updated: Sep 1, 2024

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