ClinVar Genomic variation as it relates to human health
NM_000179.3(MSH6):c.496T>C (p.Tyr166His)
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.
Stars represent the aggregate review status, or the level of review supporting the aggregate germline classification for this VCV record. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the review status. The number of submissions which contribute to this review status is shown in parentheses.
No data submitted for somatic clinical impact
No data submitted for oncogenicity
Variant Details
- Identifiers
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NM_000179.3(MSH6):c.496T>C (p.Tyr166His)
Variation ID: 2044598 Accession: VCV002044598.2
- Type and length
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single nucleotide variant, 1 bp
- Location
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Cytogenetic: 2p16.3 2: 47795932 (GRCh38) [ NCBI UCSC ] 2: 48023071 (GRCh37) [ NCBI UCSC ]
- Timeline in ClinVar
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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 Feb 8, 2023 Feb 20, 2024 Dec 17, 2021 - HGVS
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Nucleotide Protein Molecular
consequenceNM_000179.3:c.496T>C MANE Select Help Transcripts from the Matched Annotation from the NCBI and EMBL-EBI (MANE) collaboration.
NP_000170.1:p.Tyr166His missense NM_001281492.2:c.238-2679T>C intron variant NM_001281493.2:c.-279-2679T>C intron variant NM_001281494.2:c.-407T>C 5 prime UTR NM_001406795.1:c.592T>C NP_001393724.1:p.Tyr198His missense NM_001406796.1:c.496T>C NP_001393725.1:p.Tyr166His missense NM_001406797.1:c.199T>C NP_001393726.1:p.Tyr67His missense NM_001406798.1:c.496T>C NP_001393727.1:p.Tyr166His missense NM_001406799.1:c.-30T>C NM_001406800.1:c.496T>C NP_001393729.1:p.Tyr166His missense NM_001406801.1:c.199T>C NP_001393730.1:p.Tyr67His missense NM_001406802.1:c.592T>C NP_001393731.1:p.Tyr198His missense NM_001406803.1:c.496T>C NP_001393732.1:p.Tyr166His missense NM_001406804.1:c.418T>C NP_001393733.1:p.Tyr140His missense NM_001406805.1:c.199T>C NP_001393734.1:p.Tyr67His missense NM_001406806.1:c.-30T>C NM_001406807.1:c.-30T>C NM_001406808.1:c.496T>C NP_001393737.1:p.Tyr166His missense NM_001406809.1:c.496T>C NP_001393738.1:p.Tyr166His missense NM_001406813.1:c.502T>C NP_001393742.1:p.Tyr168His missense NM_001406814.1:c.-499T>C NM_001406817.1:c.496T>C NP_001393746.1:p.Tyr166His missense NM_001406818.1:c.199T>C NP_001393747.1:p.Tyr67His missense NM_001406819.1:c.199T>C NP_001393748.1:p.Tyr67His missense NM_001406820.1:c.199T>C NP_001393749.1:p.Tyr67His missense NM_001406821.1:c.199T>C NP_001393750.1:p.Tyr67His missense NM_001406822.1:c.199T>C NP_001393751.1:p.Tyr67His missense NM_001406824.1:c.199T>C NP_001393753.1:p.Tyr67His missense NM_001406825.1:c.199T>C NP_001393754.1:p.Tyr67His missense NM_001406826.1:c.328T>C NP_001393755.1:p.Tyr110His missense NM_001406827.1:c.199T>C NP_001393756.1:p.Tyr67His missense NM_001406828.1:c.199T>C NP_001393757.1:p.Tyr67His missense NM_001406830.1:c.199T>C NP_001393759.1:p.Tyr67His missense NM_001407362.1:c.496T>C NP_001394291.1:p.Tyr166His missense NR_176256.1:n.585T>C NR_176257.1:n.585T>C NR_176258.1:n.585T>C NR_176259.1:n.585T>C NR_176260.1:n.585T>C NR_176261.1:n.585T>C NC_000002.12:g.47795932T>C NC_000002.11:g.48023071T>C NG_007111.1:g.17786T>C LRG_219:g.17786T>C LRG_219t1:c.496T>C LRG_219p1:p.Tyr166His - Protein change
- Y110H, Y166H, Y168H, Y198H, Y67H, Y140H
- Other names
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- Canonical SPDI
- NC_000002.12:47795931:T:C
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Functional
consequence HelpThe effect of the variant on RNA or protein function, based on experimental evidence from submitters.
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Global minor allele
frequency (GMAF) HelpThe 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.
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Allele frequency
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The frequency of the allele represented by this VCV record.
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- Links
Genes
Gene | OMIM | ClinGen Gene Dosage Sensitivity Curation |
Variation Viewer
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Links to Variation Viewer, a genome browser to view variation data from NCBI databases. |
Related variants | ||
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HI score
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The haploinsufficiency score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team. |
TS score
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The triplosensitivity score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team. |
Within gene
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The number of variants in ClinVar that are contained within this gene, with a link to view the list of variants. |
All
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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. |
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MSH6 | Sufficient evidence for dosage pathogenicity | No evidence available |
GRCh38 GRCh37 |
9149 | 9460 |
Conditions - Germline
Condition
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The condition for this variant-condition (RCV) record in ClinVar. |
Classification
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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
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The most recent date that a submitter evaluated this variant for the condition. |
Variation/condition record
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The RCV accession number, with most recent version number, for the variant-condition record, with a link to the RCV web page. |
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Uncertain significance (1) |
criteria provided, single submitter
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Dec 17, 2021 | RCV002903808.2 |
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
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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
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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. |
More information
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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. |
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Uncertain significance
(Dec 17, 2021)
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criteria provided, single submitter
Method: clinical testing
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Hereditary nonpolyposis colorectal neoplasms
Affected status: unknown
Allele origin:
germline
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Invitae
Accession: SCV003250974.2
First in ClinVar: Feb 07, 2023 Last updated: Feb 20, 2024 |
Comment:
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 … (more)
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. Advanced modeling of protein sequence and biophysical properties (such as structural, functional, and spatial information, amino acid conservation, physicochemical variation, residue mobility, and thermodynamic stability) performed at Invitae indicates that this missense variant is not expected to disrupt MSH6 protein function. This variant has not been reported in the literature in individuals affected with MSH6-related conditions. This variant is not present in population databases (gnomAD no frequency). This sequence change replaces tyrosine, which is neutral and polar, with histidine, which is basic and polar, at codon 166 of the MSH6 protein (p.Tyr166His). (less)
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Germline Functional Evidence
There is no functional evidence in ClinVar for this variation. If you have generated functional data for this variation, please consider submitting that data to ClinVar. |
Citations for germline classification of this variant
HelpThere 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 this variant ...
HelpRecord last updated Feb 20, 2024
This date represents the last time this VCV record was updated. The update may be due to an update to one of the included submitted records (SCVs), or due to an update that ClinVar made to the variant such as adding HGVS expressions or a rs number. So this date may be different from the date of the “most recent submission” reported at the top of this page.