NM_001018005.2(TPM1):c.375-5T>C AND not specified

Germline classification:: Likely benign (2 submissions)
Last evaluated:: Apr 4, 2012
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:: RCV000036329.15

Allele description [Variation Report for NM_001018005.2(TPM1):c.375-5T>C]

NM_001018005.2(TPM1):c.375-5T>C

Gene:

TPM1:tropomyosin 1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

15q22.2

Genomic location:

Preferred name:

NM_001018005.2(TPM1):c.375-5T>C

HGVS:

NC_000015.10:g.63059558T>C
NG_007557.1:g.21920T>C
NM_000366.6:c.375-5T>C
NM_001018004.2:c.375-5T>C
NM_001018005.2:c.375-5T>CMANE SELECT
NM_001018006.2:c.375-5T>C
NM_001018007.2:c.375-5T>C
NM_001018008.2:c.267-5T>C
NM_001018020.2:c.375-5T>C
NM_001301244.2:c.375-5T>C
NM_001301289.2:c.267-5T>C
NM_001330344.2:c.267-5T>C
NM_001330346.2:c.267-5T>C
NM_001330351.2:c.267-5T>C
NM_001365776.1:c.375-5T>C
NM_001365777.1:c.375-5T>C
NM_001365778.1:c.501-5T>C
NM_001365779.1:c.375-5T>C
NM_001365780.1:c.267-5T>C
NM_001365781.2:c.267-5T>C
NM_001365782.1:c.267-5T>C
LRG_387t1:c.375-5T>C
LRG_387:g.21920T>C
NC_000015.9:g.63351757T>C
NM_000366.5:c.375-5T>C
NM_001018005.1:c.375-5T>C
c.375-5T>C

Links:

dbSNP: rs377061868

NCBI 1000 Genomes Browser:

rs377061868

Molecular consequence:

NM_000366.6:c.375-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001018004.2:c.375-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001018005.2:c.375-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001018006.2:c.375-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001018007.2:c.375-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001018008.2:c.267-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001018020.2:c.375-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001301244.2:c.375-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001301289.2:c.267-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001330344.2:c.267-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001330346.2:c.267-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001330351.2:c.267-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001365776.1:c.375-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001365777.1:c.375-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001365778.1:c.501-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001365779.1:c.375-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001365780.1:c.267-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001365781.2:c.267-5T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001365782.1:c.267-5T>C - intron variant - [Sequence Ontology: SO:0001627]

Observations:

Condition(s)

Synonyms:: AllHighlyPenetrant
Identifiers:: MedGen: CN169374

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000059981	Laboratory for Molecular Medicine, Mass General Brigham Personalized Medicine	criteria provided, single submitter (LMM Criteria)	Likely benign (Apr 4, 2012)	germline	clinical testing	PubMed (1) [See all records that cite this PMID]
SCV001921908	Clinical Genetics, Academic Medical Center - VKGL Data-share Consensus See additional submitters Diagnostic Laboratory, Department of Genetics, University Medical Center Groningen	no assertion criteria provided	Benign	germline	clinical testing

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV000059981

Laboratory for Molecular Medicine, Mass General Brigham Personalized Medicine

criteria provided, single submitter

(LMM Criteria)

Likely benign
(Apr 4, 2012)

germline

clinical testing

PubMed (1)
[See all records that cite this PMID]

SCV001921908

Clinical Genetics, Academic Medical Center - VKGL Data-share Consensus

See additional submitters

no assertion criteria provided

Benign

germline

clinical testing

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	not provided	11	8	not provided	not provided	not provided	clinical testing
not provided	germline	yes	not provided	not provided	not provided	not provided	not provided	clinical testing

Citations

PubMed

A systematic approach to assessing the clinical significance of genetic variants.

Duzkale H, Shen J, McLaughlin H, Alfares A, Kelly MA, Pugh TJ, Funke BH, Rehm HL, Lebo MS.

Clin Genet. 2013 Nov;84(5):453-63. doi: 10.1111/cge.12257.

PubMed [citation]

PMID:: 24033266
PMCID:: PMC3995020

Details of each submission

From Laboratory for Molecular Medicine, Mass General Brigham Personalized Medicine, SCV000059981.6

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	11	not provided	not provided	clinical testing	PubMed (1)

Description

375-5T>C in intron 3 of TPM1: This variant is not expected to have clinical sig nificance because it is not located within the highly conserved splice consensu s sequence and splicing variants have not previously been identified in the TPM1 gene. In addition, it has been identified in both hypertrophic and dilated card iomyopathy probands in combination with another, pathogenic variant. It has been identified in 1/3738 African American chromosomes from a broad population by th e NHLBI Exome Sequencing Project (http://evs.gs.washington.edu/EVS/).

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	not provided	not provided	not provided	not provided		11	not provided	8	not provided

From Clinical Genetics, Academic Medical Center - VKGL Data-share Consensus, SCV001921908.1

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

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	yes	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Oct 13, 2024

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