NM_000398.7(CYB5R3):c.367G>A (p.Ala123Thr) AND not provided

This record was updated by the submitter. Please see the current version.

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Aug 6, 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:: RCV002904553.2

Allele description

NM_000398.7(CYB5R3):c.367G>A (p.Ala123Thr)

Gene:

CYB5R3:cytochrome b5 reductase 3 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

22q13.2

Genomic location:

Preferred name:

NM_000398.7(CYB5R3):c.367G>A (p.Ala123Thr)

HGVS:

NC_000022.11:g.42628248C>T
NG_012194.1:g.26152G>A
NM_000398.7:c.367G>AMANE SELECT
NM_001031678.1:c.367G>A
NM_001129819.2:c.298G>A
NM_001171660.2:c.466G>A
NM_001171661.1:c.298G>A
NM_007326.4:c.298G>A
NP_000389.1:p.Ala123Thr
NP_001026848.1:p.Ala123Thr
NP_001123291.1:p.Ala100Thr
NP_001165131.1:p.Ala156Thr
NP_001165132.1:p.Ala100Thr
NP_015565.1:p.Ala100Thr
NC_000022.10:g.43024254C>T

Protein change:

A100T

Molecular consequence:

NM_000398.7:c.367G>A - missense variant - [Sequence Ontology: SO:0001583]
NM_001031678.1:c.367G>A - missense variant - [Sequence Ontology: SO:0001583]
NM_001129819.2:c.298G>A - missense variant - [Sequence Ontology: SO:0001583]
NM_001171660.2:c.466G>A - missense variant - [Sequence Ontology: SO:0001583]
NM_001171661.1:c.298G>A - missense variant - [Sequence Ontology: SO:0001583]
NM_007326.4:c.298G>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

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DNA/RNA polymerase superfamily protein [Cucumis melo var. makuwa]
DNA/RNA polymerase superfamily protein [Cucumis melo var. makuwa]
gi|1735223924|gb|KAA0065718.1||gnl| STE|E6C27_scaffold7876G00010

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV003258893	Invitae	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Uncertain significance (Aug 6, 2022)	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

SCV003258893

Invitae

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Uncertain significance
(Aug 6, 2022)

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	not provided	not provided	not provided	not provided	not provided	clinical testing

Citations

PubMed

Sherloc: a comprehensive refinement of the ACMG-AMP variant classification criteria.

Nykamp K, Anderson M, Powers M, Garcia J, Herrera B, Ho YY, Kobayashi Y, Patil N, Thusberg J, Westbrook M; Invitae Clinical Genomics Group., Topper S.

Genet Med. 2017 Oct;19(10):1105-1117. doi: 10.1038/gim.2017.37. Epub 2017 May 11. Erratum in: Genet Med. 2020 Jan;22(1):240. doi: 10.1038/s41436-019-0624-9.

PubMed [citation]

PMID:: 28492532
PMCID:: PMC5632818

Details of each submission

From Invitae, SCV003258893.2

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

Description

In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance. Algorithms developed to predict the effect of missense changes on protein structure and function (SIFT, PolyPhen-2, Align-GVGD) all suggest that this variant is likely to be tolerated. This variant has not been reported in the literature in individuals affected with CYB5R3-related conditions. This variant is present in population databases (rs367914897, gnomAD 0.01%). This sequence change replaces alanine, which is neutral and non-polar, with threonine, which is neutral and polar, at codon 123 of the CYB5R3 protein (p.Ala123Thr).

#	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: Mar 16, 2024

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