ClinVar Miner

List of variants in gene MSH2 reported as likely benign for Lynch syndrome

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Gene type:
ClinVar version:
Total variants: 208
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HGVS dbSNP gnomAD frequency
NM_000251.3(MSH2):c.942+4A>T rs749778569 0.02181
NM_000251.3(MSH2):c.984C>T (p.Ala328=) rs4987189 0.00495
NM_000251.3(MSH2):c.339G>A (p.Lys113=) rs35898375 0.00313
NM_000251.3(MSH2):c.*226A>G rs17225060 0.00201
NM_000251.3(MSH2):c.1737A>G (p.Lys579=) rs61756467 0.00138
NM_000251.3(MSH2):c.1563T>C (p.Tyr521=) rs63750330 0.00053
NM_000251.3(MSH2):c.1680T>C (p.Asn560=) rs200056411 0.00043
NM_000251.3(MSH2):c.2154A>G (p.Gln718=) rs63750810 0.00033
NM_000251.3(MSH2):c.471C>A (p.Gly157=) rs61756463 0.00029
NM_000251.3(MSH2):c.1787A>G (p.Asn596Ser) rs41295288 0.00022
NM_000251.3(MSH2):c.1255C>A (p.Gln419Lys) rs63750006 0.00019
NM_000251.3(MSH2):c.1276+47T>A rs148018406 0.00019
NM_000251.3(MSH2):c.138C>G (p.His46Gln) rs33946261 0.00019
NM_000251.3(MSH2):c.1730T>C (p.Ile577Thr) rs63749910 0.00018
NM_000251.3(MSH2):c.505A>G (p.Ile169Val) rs63750716 0.00013
NM_000251.3(MSH2):c.198C>T (p.Tyr66=) rs730881784 0.00011
NM_000251.3(MSH2):c.*221G>T rs587779060 0.00010
NM_000251.3(MSH2):c.2367C>T (p.Ala789=) rs786202414 0.00009
NM_000251.3(MSH2):c.2802G>A (p.Thr934=) rs150259097 0.00009
NM_000251.3(MSH2):c.1159C>T (p.Leu387Phe) rs751249745 0.00008
NM_000251.3(MSH2):c.1488A>G (p.Leu496=) rs267607960 0.00008
NM_000251.3(MSH2):c.2500G>A (p.Ala834Thr) rs63750757 0.00008
NM_000251.3(MSH2):c.4G>A (p.Ala2Thr) rs63750466 0.00008
NM_000251.3(MSH2):c.1087G>T (p.Val363Leu) rs377345366 0.00007
NM_000251.3(MSH2):c.1560A>G (p.Gly520=) rs63750820 0.00007
NM_000251.3(MSH2):c.1638G>A (p.Lys546=) rs372350768 0.00007
NM_000251.3(MSH2):c.642A>G (p.Arg214=) rs768931909 0.00007
NM_000251.3(MSH2):c.1077-7A>G rs370807334 0.00006
NM_000251.3(MSH2):c.2271C>T (p.Tyr757=) rs56076152 0.00006
NM_000251.3(MSH2):c.512G>A (p.Arg171Lys) rs63750902 0.00006
NM_000251.3(MSH2):c.944G>T (p.Gly315Val) rs202026056 0.00006
NM_000251.3(MSH2):c.1842A>C (p.Gly614=) rs923770168 0.00005
NM_000251.3(MSH2):c.843A>T (p.Ser281=) rs150197753 0.00005
NM_000251.3(MSH2):c.1189C>G (p.Gln397Glu) rs63750611 0.00004
NM_000251.3(MSH2):c.1830C>T (p.His610=) rs766326295 0.00004
NM_000251.3(MSH2):c.2211-6C>A rs267608003 0.00004
NM_000251.3(MSH2):c.2580G>A (p.Ser860=) rs752428475 0.00004
NM_000251.3(MSH2):c.287G>A (p.Arg96His) rs63750002 0.00004
NM_000251.3(MSH2):c.336C>A (p.Ser112=) rs34312619 0.00004
NM_000251.3(MSH2):c.576C>T (p.Ile192=) rs864622381 0.00004
NM_000251.3(MSH2):c.1617T>C (p.Phe539=) rs730881759 0.00003
NM_000251.3(MSH2):c.1863A>T (p.Arg621=) rs786203119 0.00003
NM_000251.3(MSH2):c.2120G>A (p.Cys707Tyr) rs373226409 0.00003
NM_000251.3(MSH2):c.2528G>A (p.Cys843Tyr) rs747700106 0.00003
NM_000251.3(MSH2):c.2558A>C (p.Glu853Ala) rs63750797 0.00003
NM_000251.3(MSH2):c.399C>T (p.Asp133=) rs61756462 0.00003
NM_000251.3(MSH2):c.594A>G (p.Glu198=) rs369685768 0.00003
NM_000251.3(MSH2):c.817G>A (p.Val273Ile) rs530814648 0.00003
NM_000251.3(MSH2):c.991A>G (p.Asn331Asp) rs267607938 0.00003
NM_000251.3(MSH2):c.1014A>C (p.Gly338=) rs774083607 0.00002
NM_000251.3(MSH2):c.1131A>G (p.Gln377=) rs181852377 0.00002
NM_000251.3(MSH2):c.1764T>C (p.Tyr588=) rs63750844 0.00002
NM_000251.3(MSH2):c.1854A>G (p.Pro618=) rs786203744 0.00002
NM_000251.3(MSH2):c.2010C>T (p.Pro670=) rs766618212 0.00002
NM_000251.3(MSH2):c.2061C>G (p.Leu687=) rs63750032 0.00002
NM_000251.3(MSH2):c.232G>A (p.Val78Ile) rs772779997 0.00002
NM_000251.3(MSH2):c.304G>A (p.Val102Ile) rs193922373 0.00002
NM_000251.3(MSH2):c.42G>A (p.Ala14=) rs374396150 0.00002
NM_000251.3(MSH2):c.438T>C (p.Gly146=) rs587779161 0.00002
NM_000251.3(MSH2):c.51C>A (p.Val17=) rs397515879 0.00002
NM_000251.3(MSH2):c.646A>G (p.Ile216Val) rs63749936 0.00002
NM_000251.3(MSH2):c.762T>C (p.Asn254=) rs587779180 0.00002
NM_000251.3(MSH2):c.-10A>G rs765201464 0.00001
NM_000251.3(MSH2):c.-8G>A rs1064795641 0.00001
NM_000251.3(MSH2):c.105C>A (p.Arg35=) rs775554736 0.00001
NM_000251.3(MSH2):c.1077-15G>T rs753277524 0.00001
NM_000251.3(MSH2):c.1077-3C>T rs758182607 0.00001
NM_000251.3(MSH2):c.115C>A (p.Arg39=) rs786202334 0.00001
NM_000251.3(MSH2):c.1194A>G (p.Ala398=) rs1060504412 0.00001
NM_000251.3(MSH2):c.1248T>C (p.Asn416=) rs786201156 0.00001
NM_000251.3(MSH2):c.129T>C (p.Tyr43=) rs63750894 0.00001
NM_000251.3(MSH2):c.1311G>T (p.Val437=) rs730881781 0.00001
NM_000251.3(MSH2):c.1329T>G (p.Leu443=) rs1558493510 0.00001
NM_000251.3(MSH2):c.132G>A (p.Thr44=) rs766856128 0.00001
NM_000251.3(MSH2):c.1344C>T (p.Ser448=) rs1010360604 0.00001
NM_000251.3(MSH2):c.1356A>G (p.Glu452=) rs63751212 0.00001
NM_000251.3(MSH2):c.1374A>G (p.Leu458=) rs767639853 0.00001
NM_000251.3(MSH2):c.1378A>G (p.Met460Val) rs575905950 0.00001
NM_000251.3(MSH2):c.1410A>T (p.Val470=) rs757958558 0.00001
NM_000251.3(MSH2):c.1440A>G (p.Glu480=) rs138049198 0.00001
NM_000251.3(MSH2):c.1480T>C (p.Ser494Pro) rs55653533 0.00001
NM_000251.3(MSH2):c.1539G>A (p.Leu513=) rs777195739 0.00001
NM_000251.3(MSH2):c.156G>T (p.Leu52=) rs750241099 0.00001
NM_000251.3(MSH2):c.1578C>G (p.Thr526=) rs1057520435 0.00001
NM_000251.3(MSH2):c.164G>A (p.Arg55Gln) rs748196422 0.00001
NM_000251.3(MSH2):c.1692C>G (p.Thr564=) rs786203290 0.00001
NM_000251.3(MSH2):c.1914G>A (p.Arg638=) rs1177447151 0.00001
NM_000251.3(MSH2):c.2006-14A>G rs1430430076 0.00001
NM_000251.3(MSH2):c.2082T>C (p.Phe694=) rs748210094 0.00001
NM_000251.3(MSH2):c.2094G>A (p.Glu698=) rs773555449 0.00001
NM_000251.3(MSH2):c.2106G>A (p.Val702=) rs786201108 0.00001
NM_000251.3(MSH2):c.2211-7G>A rs764972956 0.00001
NM_000251.3(MSH2):c.2248T>C (p.Leu750=) rs527725593 0.00001
NM_000251.3(MSH2):c.2397T>C (p.Asn799=) rs368988823 0.00001
NM_000251.3(MSH2):c.2579C>T (p.Ser860Leu) rs63750849 0.00001
NM_000251.3(MSH2):c.2595C>T (p.Ile865=) rs547695133 0.00001
NM_000251.3(MSH2):c.2640T>C (p.Gly880=) rs1368565489 0.00001
NM_000251.3(MSH2):c.2667C>G (p.Ser889=) rs561680100 0.00001
NM_000251.3(MSH2):c.2804G>A (p.Ter935=) rs876658335 0.00001
NM_000251.3(MSH2):c.285T>C (p.Val95=) rs1369335343 0.00001
NM_000251.3(MSH2):c.375T>G (p.Pro125=) rs1427268231 0.00001
NM_000251.3(MSH2):c.459C>T (p.Ser153=) rs63751065 0.00001
NM_000251.3(MSH2):c.624A>C (p.Gly208=) rs786202651 0.00001
NM_000251.3(MSH2):c.63C>T (p.Arg21=) rs1060504419 0.00001
NM_000251.3(MSH2):c.646-13T>C rs761205332 0.00001
NM_000251.3(MSH2):c.646-3T>C rs267607930 0.00001
NM_000251.3(MSH2):c.693C>T (p.Asp231=) rs541325199 0.00001
NM_000251.3(MSH2):c.702A>G (p.Thr234=) rs780121922 0.00001
NM_000251.3(MSH2):c.741C>G (p.Gly247=) rs747321505 0.00001
NM_000251.3(MSH2):c.763A>G (p.Ser255Gly) rs761529282 0.00001
NM_000251.3(MSH2):c.816G>A (p.Ala272=) rs368912987 0.00001
NM_000251.3(MSH2):c.867T>C (p.Phe289=) rs863224342 0.00001
NM_000251.3(MSH2):c.915A>C (p.Ala305=) rs757483245 0.00001
NM_000251.3(MSH2):c.951T>A (p.Val317=) rs1553353105 0.00001
NM_000251.3(MSH2):c.972G>A (p.Gln324=) rs63750505 0.00001
NM_000251.3(MSH2):c.-13A>G
NM_000251.3(MSH2):c.-5T>G rs1553348652
NM_000251.3(MSH2):c.1032G>A (p.Gln344=) rs375799148
NM_000251.3(MSH2):c.1062C>T (p.Asn354=) rs876659861
NM_000251.3(MSH2):c.1092A>G (p.Glu364=)
NM_000251.3(MSH2):c.1114T>C (p.Leu372=) rs770201760
NM_000251.3(MSH2):c.1117A>C (p.Arg373=) rs781061998
NM_000251.3(MSH2):c.117G>C (p.Arg39=) rs63750974
NM_000251.3(MSH2):c.1191A>G (p.Gln397=) rs768694189
NM_000251.3(MSH2):c.123C>T (p.Asp41=) rs761960690
NM_000251.3(MSH2):c.1242A>T (p.Leu414=) rs757250110
NM_000251.3(MSH2):c.1277-11_1277-9del rs2103751490
NM_000251.3(MSH2):c.12G>T (p.Gln4His) rs878853800
NM_000251.3(MSH2):c.1341C>T (p.Phe447=) rs587781373
NM_000251.3(MSH2):c.138C>T (p.His46=) rs33946261
NM_000251.3(MSH2):c.1401A>G (p.Glu467=) rs1558508085
NM_000251.3(MSH2):c.1419A>G (p.Ser473=) rs746674539
NM_000251.3(MSH2):c.1470G>A (p.Lys490=)
NM_000251.3(MSH2):c.147C>T (p.Asp49=) rs730881771
NM_000251.3(MSH2):c.1511-10G>T rs587779096
NM_000251.3(MSH2):c.153G>T (p.Leu51=)
NM_000251.3(MSH2):c.1548T>C (p.Ser516=)
NM_000251.3(MSH2):c.1572T>A (p.Arg524=) rs2104177298
NM_000251.3(MSH2):c.1575A>G (p.Val525=)
NM_000251.3(MSH2):c.1596C>T (p.Val532=) rs1553366607
NM_000251.3(MSH2):c.1599T>G (p.Leu533=)
NM_000251.3(MSH2):c.1602T>A (p.Arg534=) rs267607965
NM_000251.3(MSH2):c.1626A>G (p.Val542=) rs1553366635
NM_000251.3(MSH2):c.165G>C (p.Arg55=) rs772201676
NM_000251.3(MSH2):c.1661+6C>T rs267607973
NM_000251.3(MSH2):c.1662C>T (p.Ser554=) rs587778525
NM_000251.3(MSH2):c.1707A>G (p.Glu569=) rs1573560484
NM_000251.3(MSH2):c.1746C>T (p.Val582=) rs786201486
NM_000251.3(MSH2):c.1755T>C (p.Ser585=) rs63750112
NM_000251.3(MSH2):c.1759+11_1759+15del rs878853805
NM_000251.3(MSH2):c.1760-110_1760-108dup rs587779109
NM_000251.3(MSH2):c.1850T>C (p.Val617Ala) rs1260310695
NM_000251.3(MSH2):c.1857T>C (p.Tyr619=) rs63750312
NM_000251.3(MSH2):c.1890A>G (p.Gly630=) rs778523544
NM_000251.3(MSH2):c.1908A>G (p.Ala636=) rs1553368652
NM_000251.3(MSH2):c.1938T>C (p.Asp646=) rs775484022
NM_000251.3(MSH2):c.1965A>G (p.Val655=) rs767941059
NM_000251.3(MSH2):c.2005+8dup rs267607992
NM_000251.3(MSH2):c.2028A>C (p.Ser676=) rs1057522032
NM_000251.3(MSH2):c.2031A>G (p.Thr677=) rs786203923
NM_000251.3(MSH2):c.2043A>G (p.Gln681=) rs730881763
NM_000251.3(MSH2):c.2061C>T (p.Leu687=) rs63750032
NM_000251.3(MSH2):c.2095T>C (p.Ser699Pro) rs1428704795
NM_000251.3(MSH2):c.2100A>G (p.Ala700=) rs771426077
NM_000251.3(MSH2):c.2121C>T (p.Cys707=) rs1553369139
NM_000251.3(MSH2):c.2139G>C (p.Gly713=) rs63750003
NM_000251.3(MSH2):c.2139G>T (p.Gly713=) rs63750003
NM_000251.3(MSH2):c.2220C>T (p.Thr740=) rs2104399110
NM_000251.3(MSH2):c.2229A>G (p.Ser743=)
NM_000251.3(MSH2):c.2317A>G (p.Lys773Glu) rs1558521813
NM_000251.3(MSH2):c.2576_2584del (p.Glu859_Gln861del) rs587781278
NM_000251.3(MSH2):c.2583A>G (p.Gln861=) rs63751093
NM_000251.3(MSH2):c.2625G>A (p.Leu875=)
NM_000251.3(MSH2):c.2635-13A>G rs1553370816
NM_000251.3(MSH2):c.2681T>G (p.Met894Arg) rs1558526026
NM_000251.3(MSH2):c.2691T>C (p.Thr897=) rs148653184
NM_000251.3(MSH2):c.271G>C (p.Asp91His) rs1558457163
NM_000251.3(MSH2):c.2736A>G (p.Lys912=) rs1339217169
NM_000251.3(MSH2):c.2757T>C (p.Asn919=) rs1354355913
NM_000251.3(MSH2):c.276T>G (p.Leu92=) rs1060504425
NM_000251.3(MSH2):c.2790A>C (p.Ile930=) rs587779155
NM_000251.3(MSH2):c.27G>A (p.Leu9=) rs1553348705
NM_000251.3(MSH2):c.280C>T (p.Leu94=) rs1330621664
NM_000251.3(MSH2):c.294T>C (p.Tyr98=) rs763872353
NM_000251.3(MSH2):c.384C>G (p.Leu128=) rs766694099
NM_000251.3(MSH2):c.405C>T (p.Leu135=)
NM_000251.3(MSH2):c.460G>A (p.Ala154Thr) rs759712763
NM_000251.3(MSH2):c.504C>T (p.Ser168=) rs1200735883
NM_000251.3(MSH2):c.519A>T (p.Leu173=)
NM_000251.3(MSH2):c.552C>T (p.Phe184=) rs786202238
NM_000251.3(MSH2):c.606C>G (p.Pro202=) rs63750600
NM_000251.3(MSH2):c.660A>C (p.Gly220=)
NM_000251.3(MSH2):c.66C>T (p.Phe22=) rs200632093
NM_000251.3(MSH2):c.696T>C (p.Phe232=) rs1286296966
NM_000251.3(MSH2):c.6G>C (p.Ala2=) rs368270856
NM_000251.3(MSH2):c.6G>T (p.Ala2=) rs368270856
NM_000251.3(MSH2):c.768T>C (p.Ala256=) rs891676803
NM_000251.3(MSH2):c.816G>T (p.Ala272=) rs368912987
NM_000251.3(MSH2):c.825G>A (p.Lys275=) rs1270712488
NM_000251.3(MSH2):c.837C>T (p.Leu279=) rs747730026
NM_000251.3(MSH2):c.896A>G (p.Tyr299Cys) rs1558464315
NM_000251.3(MSH2):c.915A>G (p.Ala305=) rs757483245
NM_000251.3(MSH2):c.93C>T (p.Thr31=)
NM_000251.3(MSH2):c.942+11_942+29del
NM_000251.3(MSH2):c.942+19_942+29del rs11309117
NM_000251.3(MSH2):c.942+20_942+29del rs11309117
NM_000251.3(MSH2):c.942+24_942+29del rs11309117
NM_000251.3(MSH2):c.96C>T (p.Thr32=) rs1230480510

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