NM_005334.3(HCFC1):c.3563C>T (p.Ser1188Leu) AND Methylmalonic acidemia with homocystinuria, type cblX

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

Germline classification:: Benign (1 submission)
Last evaluated:: Nov 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:: RCV000821405.8

Allele description

NM_005334.3(HCFC1):c.3563C>T (p.Ser1188Leu)

Gene:

HCFC1:host cell factor C1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

Xq28

Genomic location:

Preferred name:

NM_005334.3(HCFC1):c.3563C>T (p.Ser1188Leu)

HGVS:

NC_000023.11:g.153954836G>A
NG_012513.1:g.21533C>T
NM_005334.3:c.3563C>TMANE SELECT
NP_005325.2:p.Ser1188Leu
NC_000023.10:g.153220287G>A
NM_005334.2:c.3563C>T

Protein change:

S1188L

Links:

dbSNP: rs782473277

NCBI 1000 Genomes Browser:

rs782473277

Molecular consequence:

NM_005334.3:c.3563C>T - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:: Methylmalonic acidemia with homocystinuria, type cblX (MAHCX)
Synonyms:: INTELLECTUAL DEVELOPMENTAL DISORDER, X-LINKED 3
Identifiers:: MONDO: MONDO:0010657; MedGen: C0796208; Orphanet: 369962; OMIM: 309541

Recent activity

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PREDICTED: Homo sapiens consortin, connexin sorting protein (CNST), transcript v...
PREDICTED: Homo sapiens consortin, connexin sorting protein (CNST), transcript variant X9, mRNA
gi|2462505377|ref|XM_054334761.1|

Nucleotide
PREDICTED: Homo sapiens consortin, connexin sorting protein (CNST), transcript v...
PREDICTED: Homo sapiens consortin, connexin sorting protein (CNST), transcript variant X1, mRNA
gi|2462505363|ref|XM_054334754.1|

Nucleotide

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000962160	Invitae	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Benign (Nov 12, 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

SCV000962160

Invitae

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Benign
(Nov 12, 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	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, SCV000962160.6

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

Last Updated: Sep 1, 2024

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