NM_001352514.2(HLCS):c.574C>G (p.Pro192Ala) AND Inborn genetic diseases

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Mar 19, 2025
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:: RCV002556911.3

Allele description [Variation Report for NM_001352514.2(HLCS):c.574C>G (p.Pro192Ala)]

NM_001352514.2(HLCS):c.574C>G (p.Pro192Ala)

Gene:

HLCS:holocarboxylase synthetase [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

21q22.13

Genomic location:

Preferred name:

NM_001352514.2(HLCS):c.574C>G (p.Pro192Ala)

HGVS:

NC_000021.9:g.36937312G>C
NG_016193.2:g.58083C>G
NM_000411.8:c.133C>G
NM_001242784.3:c.133C>G
NM_001242785.2:c.133C>G
NM_001352514.2:c.574C>GMANE SELECT
NM_001352515.2:c.133C>G
NM_001352516.2:c.133C>G
NM_001352517.1:c.133C>G
NM_001352518.2:c.133C>G
NP_000402.3:p.Pro45Ala
NP_001229713.1:p.Pro45Ala
NP_001229714.1:p.Pro45Ala
NP_001339443.1:p.Pro192Ala
NP_001339444.1:p.Pro45Ala
NP_001339445.1:p.Pro45Ala
NP_001339446.1:p.Pro45Ala
NP_001339447.1:p.Pro45Ala
NC_000021.8:g.38309612G>C
NM_000411.6:c.133C>G
NR_148020.2:n.433C>G
NR_148021.1:n.590C>G

Protein change:

P192A

Links:

dbSNP: rs200950813

Molecular consequence:

NM_000411.8:c.133C>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001242784.3:c.133C>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001242785.2:c.133C>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001352514.2:c.574C>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001352515.2:c.133C>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001352516.2:c.133C>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001352517.1:c.133C>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001352518.2:c.133C>G - missense variant - [Sequence Ontology: SO:0001583]
NR_148020.2:n.433C>G - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_148021.1:n.590C>G - non-coding transcript variant - [Sequence Ontology: SO:0001619]

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
SCV003660360	Ambry Genetics	criteria provided, single submitter (Ambry Variant Classification Scheme 2023)	Uncertain significance (Mar 19, 2025)	germline	clinical testing	Citation Link

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV003660360

Ambry Genetics

criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)

Uncertain significance
(Mar 19, 2025)

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, SCV003660360.3

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

Description

The c.133C>G (p.P45A) alteration is located in exon 5 (coding exon 2) of the HLCS gene. This alteration results from a C to G substitution at nucleotide position 133, causing the proline (P) at amino acid position 45 to be replaced by an alanine (A). 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: Mar 7, 2026

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