NM_000251.3(MSH2):c.778G>T (p.Glu260Ter) AND Lynch syndrome 1

Germline classification:: Pathogenic (1 submission)
Last evaluated:: Jul 27, 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:: RCV003455942.1

Allele description [Variation Report for NM_000251.3(MSH2):c.778G>T (p.Glu260Ter)]

NM_000251.3(MSH2):c.778G>T (p.Glu260Ter)

Gene:

MSH2:mutS homolog 2 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

2p21

Genomic location:

Preferred name:

NM_000251.3(MSH2):c.778G>T (p.Glu260Ter)

HGVS:

NC_000002.12:g.47412546G>T
NG_007110.2:g.14423G>T
NM_000251.3:c.778G>TMANE SELECT
NM_001258281.1:c.580G>T
NM_001406631.1:c.778G>T
NM_001406632.1:c.778G>T
NM_001406633.1:c.778G>T
NM_001406634.1:c.778G>T
NM_001406635.1:c.778G>T
NM_001406636.1:c.778G>T
NM_001406637.1:c.778G>T
NM_001406638.1:c.778G>T
NM_001406639.1:c.778G>T
NM_001406640.1:c.778G>T
NM_001406641.1:c.778G>T
NM_001406642.1:c.778G>T
NM_001406643.1:c.778G>T
NM_001406644.1:c.778G>T
NM_001406645.1:c.778G>T
NM_001406646.1:c.778G>T
NM_001406647.1:c.778G>T
NM_001406648.1:c.778G>T
NM_001406649.1:c.778G>T
NM_001406650.1:c.778G>T
NM_001406651.1:c.778G>T
NM_001406652.1:c.778G>T
NM_001406653.1:c.718G>T
NM_001406654.1:c.358G>T
NM_001406655.1:c.778G>T
NM_001406656.1:c.-218G>T
NM_001406657.1:c.778G>T
NM_001406658.1:c.-541G>T
NM_001406659.1:c.-691G>T
NM_001406660.1:c.-888G>T
NM_001406661.1:c.-843G>T
NM_001406662.1:c.-760G>T
NM_001406666.1:c.778G>T
NM_001406669.1:c.-691G>T
NM_001406672.1:c.778G>T
NM_001406674.1:c.778G>T
NP_000242.1:p.Glu260Ter
NP_000242.1:p.Glu260Ter
NP_001245210.1:p.Glu194Ter
NP_001393560.1:p.Glu260Ter
NP_001393561.1:p.Glu260Ter
NP_001393562.1:p.Glu260Ter
NP_001393563.1:p.Glu260Ter
NP_001393564.1:p.Glu260Ter
NP_001393565.1:p.Glu260Ter
NP_001393566.1:p.Glu260Ter
NP_001393567.1:p.Glu260Ter
NP_001393568.1:p.Glu260Ter
NP_001393569.1:p.Glu260Ter
NP_001393570.1:p.Glu260Ter
NP_001393571.1:p.Glu260Ter
NP_001393572.1:p.Glu260Ter
NP_001393573.1:p.Glu260Ter
NP_001393574.1:p.Glu260Ter
NP_001393575.1:p.Glu260Ter
NP_001393576.1:p.Glu260Ter
NP_001393577.1:p.Glu260Ter
NP_001393578.1:p.Glu260Ter
NP_001393579.1:p.Glu260Ter
NP_001393580.1:p.Glu260Ter
NP_001393581.1:p.Glu260Ter
NP_001393582.1:p.Glu240Ter
NP_001393583.1:p.Glu120Ter
NP_001393584.1:p.Glu260Ter
NP_001393586.1:p.Glu260Ter
NP_001393595.1:p.Glu260Ter
NP_001393601.1:p.Glu260Ter
NP_001393603.1:p.Glu260Ter
LRG_218t1:c.778G>T
LRG_218:g.14423G>T
LRG_218p1:p.Glu260Ter
NC_000002.11:g.47639685G>T
NM_000251.2:c.778G>T
NR_176230.1:n.814G>T
NR_176231.1:n.814G>T
NR_176232.1:n.814G>T
NR_176233.1:n.806G>T
NR_176234.1:n.814G>T
NR_176235.1:n.814G>T
NR_176236.1:n.814G>T
NR_176237.1:n.814G>T
NR_176238.1:n.814G>T
NR_176239.1:n.814G>T
NR_176240.1:n.814G>T
NR_176241.1:n.814G>T
NR_176242.1:n.814G>T
NR_176243.1:n.814G>T
NR_176244.1:n.814G>T
NR_176245.1:n.814G>T
NR_176246.1:n.814G>T
NR_176247.1:n.814G>T
NR_176248.1:n.814G>T
NR_176249.1:n.814G>T
NR_176250.1:n.814G>T

Protein change:

E120*

Molecular consequence:

NM_001406656.1:c.-218G>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
NM_001406658.1:c.-541G>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
NM_001406659.1:c.-691G>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
NM_001406660.1:c.-888G>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
NM_001406661.1:c.-843G>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
NM_001406662.1:c.-760G>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
NM_001406669.1:c.-691G>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
NR_176230.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176231.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176232.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176233.1:n.806G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176234.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176235.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176236.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176237.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176238.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176239.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176240.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176241.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176242.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176243.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176244.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176245.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176246.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176247.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176248.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176249.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176250.1:n.814G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NM_000251.3:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001258281.1:c.580G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406631.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406632.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406633.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406634.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406635.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406636.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406637.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406638.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406639.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406640.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406641.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406642.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406643.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406644.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406645.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406646.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406647.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406648.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406649.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406650.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406651.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406652.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406653.1:c.718G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406654.1:c.358G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406655.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406657.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406666.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406672.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001406674.1:c.778G>T - nonsense - [Sequence Ontology: SO:0001587]

Condition(s)

Name:: Lynch syndrome 1
Synonyms:: COLON CANCER, FAMILIAL NONPOLYPOSIS, TYPE 1; MSH2-Related Hereditary Non-Polyposis Colon Cancer; Lynch syndrome I; See all synonyms [MedGen]
Identifiers:: MONDO: MONDO:0007356; MedGen: C2936783; Orphanet: 144; OMIM: 120435

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Homo sapiens beta-carotene 15,15'-monooxygenase 1, mRNA (cDNA clone IMAGE:473485...
Homo sapiens beta-carotene 15,15'-monooxygenase 1, mRNA (cDNA clone IMAGE:4734856), with apparent retained intron
gi|18490381|gb|BC022269.1|

Nucleotide

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV004186832	Myriad Genetics, Inc.	criteria provided, single submitter (Myriad Autosomal Dominant, Autosomal Recessive and X-Linked Classification Criteria (2023))	Pathogenic (Jul 27, 2023)	unknown	clinical testing	Citation Link

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV004186832

Myriad Genetics, Inc.

criteria provided, single submitter

(Myriad Autosomal Dominant, Autosomal Recessive and X-Linked Classification Criteria (2023))

Pathogenic
(Jul 27, 2023)

unknown

clinical testing

Citation Link

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	unknown	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing

Details of each submission

From Myriad Genetics, Inc., SCV004186832.1

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

Description

This variant is considered pathogenic. This variant creates a termination codon and is predicted to result in premature protein truncation.

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

Last Updated: Jun 9, 2024

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