NM_181507.2(HPS5):c.2521G>T (p.Val841Phe) AND Inborn genetic diseases

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Jun 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:: RCV002520707.2

Allele description [Variation Report for NM_181507.2(HPS5):c.2521G>T (p.Val841Phe)]

NM_181507.2(HPS5):c.2521G>T (p.Val841Phe)

Gene:

HPS5:HPS5 biogenesis of lysosomal organelles complex 2 subunit 2 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

11p15.1

Genomic location:

Preferred name:

NM_181507.2(HPS5):c.2521G>T (p.Val841Phe)

HGVS:

NC_000011.10:g.18287933C>A
NG_008877.1:g.39242G>T
NM_007216.4:c.2179G>T
NM_181507.2:c.2521G>TMANE SELECT
NM_181508.1:c.2179G>T
NP_009147.3:p.Val727Phe
NP_852608.1:p.Val841Phe
NP_852608.1:p.Val841Phe
NP_852609.1:p.Val727Phe
LRG_586t1:c.2521G>T
LRG_586:g.39242G>T
LRG_586p1:p.Val841Phe
NC_000011.9:g.18309480C>A
NM_181507.1:c.2521G>T

Protein change:

V727F

Links:

dbSNP: rs142090060

NCBI 1000 Genomes Browser:

rs142090060

Molecular consequence:

NM_007216.4:c.2179G>T - missense variant - [Sequence Ontology: SO:0001583]
NM_181507.2:c.2521G>T - missense variant - [Sequence Ontology: SO:0001583]
NM_181508.1:c.2179G>T - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:: Inborn genetic diseases
Identifiers:: MeSH: D030342; MedGen: C0950123

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV003689197	Ambry Genetics	criteria provided, single submitter (Ambry Variant Classification Scheme 2023)	Uncertain significance (Jun 30, 2022)	germline	clinical testing	Citation Link

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV003689197

Ambry Genetics

criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)

Uncertain significance
(Jun 30, 2022)

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

Details of each submission

From Ambry Genetics, SCV003689197.2

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

Description

The c.2521G>T (p.V841F) alteration is located in exon 17 (coding exon 16) of the HPS5 gene. This alteration results from a G to T substitution at nucleotide position 2521, causing the valine (V) at amino acid position 841 to be replaced by a phenylalanine (F). Based on insufficient or conflicting evidence, the clinical significance of this alteration remains unclear.

#	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

Last Updated: Sep 29, 2024

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