VCV000374575.49 - ClinVar

NM_152263.4(TPM3):c.831C>T (p.His277=)

Germline

Classification

criteria provided, conflicting classifications. Learn more about how ClinVar calculates review status.

Conflicting classifications of pathogenicity
Uncertain significance (1); Likely benign (1)

2 out of 2 submissions contributed to this classification

The aggregate germline classification for this variant, typically for a monogenic or Mendelian disorder as in the ACMG/AMP guidelines, or for response to a drug. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the aggregate classification.

Somatic

No data submitted for somatic clinical impact

Somatic

No data submitted for oncogenicity

Variant Details

Identifiers

NM_152263.4(TPM3):c.831C>T (p.His277=)

Variation ID: 374575 Accession: VCV000374575.49

Type and length

single nucleotide variant, 1 bp

Location

Cytogenetic: 1q21.3 1: 154169328 (GRCh38) [ NCBI UCSC ] 1: 154141804 (GRCh37) [ NCBI UCSC ]

Timeline in ClinVar

	First in ClinVar Help The date this variant first appeared in ClinVar with each type of classification.	Last submission Help The date of the most recent submission for each type of classification for this variant.	Last evaluated Help The most recent date that a submitter evaluated this variant for each type of classification.
Germline	Oct 30, 2017	Jun 20, 2026	May 2, 2023

HGVS

Nucleotide	Protein	Molecular consequence
NM_152263.4:c.831C>T MANE Select Help Transcripts from the Matched Annotation from the NCBI and EMBL-EBI (MANE) collaboration.	NP_689476.2:p.His277=	synonymous
NM_001043351.2:c.664+1072C>T		intron variant
NM_001043352.2:c.664+1072C>T		intron variant
NM_001043353.2:c.664+1072C>T		intron variant
NM_001278188.2:c.466+1072C>T		intron variant
NM_001278189.2:c.720C>T	NP_001265118.1:p.His240=	synonymous
NM_001278190.2:c.601+1072C>T		intron variant
NM_001278191.2:c.394+1072C>T		intron variant
NM_001349679.2:c.720C>T	NP_001336608.1:p.His240=	synonymous
NM_001364679.2:c.775+1072C>T		intron variant
NM_001364680.2:c.775+1072C>T		intron variant
NM_001364681.2:c.775+1072C>T		intron variant
NM_001364682.1:c.831C>T	NP_001351611.1:p.His277=	synonymous
NM_001364683.1:c.720C>T	NP_001351612.1:p.His240=	synonymous
NM_153649.4:c.664+1072C>T		intron variant
NC_000001.11:g.154169328G>A
NC_000001.10:g.154141804G>A
NG_008621.1:g.27806C>T
LRG_681:g.27806C>T
LRG_681t1:c.664+1072C>T
LRG_681t2:c.831C>T	LRG_681p2:p.His277=
LRG_681t3:c.664+1072C>T

... more HGVS ... less HGVS

Protein change

Other names

Canonical SPDI

NC_000001.11:154169327:G:A

Global minor allele frequency (GMAF) Help The global minor allele frequency calculated by the 1000 Genomes Project. The minor allele at this location is indicated in parentheses and may be different from the allele represented by this VCV record.

Allele frequency Help The frequency of the allele represented by this VCV record.

Exome Aggregation Consortium (ExAC) 0.00001

The Genome Aggregation Database (gnomAD), exomes 0.00001

The Genome Aggregation Database (gnomAD) 0.00003

Trans-Omics for Precision Medicine (TOPMed) 0.00003

Links

ClinGen: CA1125504 dbSNP: rs781032589 VarSome

Genes

Gene	OMIM	ClinGen Gene Dosage Sensitivity Curation		Variation Viewer Help Links to Variation Viewer, a genome browser to view variation data from NCBI databases.	Related variants
Gene	OMIM	HI score Help The haploinsufficiency score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team.	TS score Help The triplosensitivity score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team.		Within gene Help The number of variants in ClinVar that are contained within this gene, with a link to view the list of variants.	All Help The number of variants in ClinVar for this gene, including smaller variants within the gene and larger CNVs that overlap or fully contain the gene.
TPM3		-	-	GRCh38 GRCh37	436	460

Conditions - Germline

Condition Help The condition for this variant-condition (RCV) record in ClinVar.	Classification Help The aggregate germline classification for this variant-condition (RCV) record in ClinVar. The number of submissions that contribute to this aggregate classification is shown in parentheses. (# of submissions)	Review status Help The aggregate review status for this variant-condition (RCV) record in ClinVar. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the review status.	Last evaluated Help The most recent date that a submitter evaluated this variant for the condition.	Variation/condition record Help The RCV accession number, with most recent version number, for the variant-condition record, with a link to the RCV web page.
not provided	Uncertain significance (1)	criteria provided, single submitter	Mar 1, 2017	RCV000415940.37
Congenital myopathy 4B, autosomal recessive Congenital myopathy with fiber type disproportion	Likely benign (1)	criteria provided, single submitter	May 2, 2023	RCV001418356.10

Submissions - Germline

Classification Help The submitted germline classification for each SCV record. (Last evaluated)	Review status Help Stars represent the review status, or the level of review supporting the submitted (SCV) record. This value is calculated by NCBI based on data from the submitter. Read our rules for calculating the review status. This column also includes a link to the submitter’s assertion criteria if provided, and the collection method. (Assertion criteria)	Condition Help The condition for the classification, provided by the submitter for this submitted (SCV) record. This column also includes the affected status and allele origin of individuals observed with this variant.	Submitter Help The submitting organization for this submitted (SCV) record. This column also includes the SCV accession and version number, the date this SCV first appeared in ClinVar, and the date that this SCV was last updated in ClinVar.	Expand all rows Collapse all rows Help This column includes more information supporting the classification, including citations, the comment on classification, and detailed evidence provided as observations of the variant by the submitter.
Likely benign (May 02, 2023) C Contributing to aggregate classification	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Congenital myopathy with fiber type disproportion Congenital myopathy 4B, autosomal recessive Explanation for multiple conditions: Uncertain. The variant was classified for several related diseases, possibly a spectrum of disease; the variant may be associated with one or more the diseases.	Labcorp Genetics (formerly Invitae), Labcorp Accession: SCV001620582.6 First in ClinVar: May 16, 2021 Last updated: Feb 23, 2026	Observation: 1 Collection method: clinical testing Allele origin: germline Affected status: unknown Observation 1 Collection method: clinical testing Allele origin: germline Affected status: unknown

Uncertain significance (Mar 01, 2017) C Contributing to aggregate classification	criteria provided, single submitter (CeGaT Center For Human Genetics Tuebingen Variant Classification Criteria Version 2)	not provided	CeGaT Center for Human Genetics Tuebingen Accession: SCV000493382.45 First in ClinVar: Jan 30, 2017 Last updated: Jun 20, 2026	Observation: 1 Collection method: clinical testing Allele origin: germline Affected status: yes more Observation 1 Collection method: clinical testing Allele origin: germline Affected status: yes Number of individuals with the variant: 1

Citations for germline classification of this variant

There are no citations for germline classification of this variant in ClinVar. If you know of citations for this variation, please consider submitting that information to ClinVar.

Text-mined citations for rs781032589 ...

These citations are identified by LitVar using the rs number, so they may include citations for more than one variant at this location. Please review the LitVar results carefully for your variant of interest.

Record last updated Jun 20, 2026