SAMD9 — 2634 ClinVar variants

All ClinVar germline SAMD9 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 1680 flagged for review →

9 Pathogenic · 3 Pathogenic/Likely pathogenic · 21 Likely pathogenic · 78 Conflicting · 5 Benign · 24 Benign/Likely benign · 704 Likely benign · 1790 Uncertain significance

Full SAMD9 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 1680

Variants where the independent computational evidence doesn't line up with the clinical picture — a QC signal for a second look, not a reclassification.

Predictors vs ClinVar 24

ClinVar calls these pathogenic, but the computational predictors lean tolerated — the highest-value review flag.

Predictors agree, ClinVar conflicts 50

ClinVar submitters conflict, but the independent predictors unanimously agree — a QC review flag, not a reclassification.

Predictors lean, ClinVar uncertain 1263

ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification. · showing the 150 best-reviewed of 1263

Predictors split 343

The independent predictors disagree with each other — read with care. · showing the 150 best-reviewed of 343

All SAMD9 variants

Pathogenic 9

Pathogenic/Likely pathogenic 3

Likely pathogenic 21

Conflicting classifications of pathogenicity 78

Benign 5

Benign/Likely benign 24

  • p.Ala1057= Multiple submitters Inborn genetic diseases
  • p.Ala132= Multiple submitters Inborn genetic diseases
  • p.Ala1556Thr Multiple submitters Inborn genetic diseases
  • p.Ala454Thr Multiple submitters normophosphatemic familial tumoral calcinosis
  • p.Arg75Trp Multiple submitters
  • p.Asn1221= Multiple submitters Inborn genetic diseases
  • p.Asn449= Multiple submitters normophosphatemic familial tumoral calcinosis
  • p.Asp1218Ter Multiple submitters normophosphatemic familial tumoral calcinosis
  • p.Asp255= Multiple submitters Inborn genetic diseases
  • p.Asp881Gly Multiple submitters normophosphatemic familial tumoral calcinosis
  • p.Gln604= Multiple submitters MIRAGE syndrome
  • p.Glu1065= Multiple submitters Inborn genetic diseases
  • p.Glu1368Lys Multiple submitters monosomy 7 myelodysplasia and leukemia syndrome 2
  • p.Gly952Ala Multiple submitters
  • p.Ile143Thr Multiple submitters
  • p.Ile1578Thr Multiple submitters monosomy 7 myelodysplasia and leukemia syndrome 2
  • p.Ile332Thr Multiple submitters
  • p.Lys620= Multiple submitters monosomy 7 myelodysplasia and leukemia syndrome 2
  • p.Phe1275= Multiple submitters
  • p.Ser86Phe Multiple submitters normophosphatemic familial tumoral calcinosis
  • p.Thr479Met Multiple submitters
  • p.Tyr320= Multiple submitters
  • p.Val549Leu Multiple submitters
  • p.Val640= Multiple submitters Inborn genetic diseases

Likely benign 704

Showing the top 300 by review status; the full set is in the sitemap.

  • p.Ala1087= Multiple submitters Inborn genetic diseases
  • p.Ala1089= Multiple submitters Inborn genetic diseases
  • p.Ala1151= Multiple submitters Inborn genetic diseases
  • p.Ala1162= Multiple submitters Inborn genetic diseases
  • p.Ala1249= Multiple submitters Inborn genetic diseases
  • p.Ala1556= Multiple submitters Inborn genetic diseases
  • p.Ala204= Multiple submitters Inborn genetic diseases
  • p.Ala280= Multiple submitters Inborn genetic diseases
  • p.Ala44= Multiple submitters Inborn genetic diseases
  • p.Ala845= Multiple submitters Inborn genetic diseases
  • p.Arg1038= Multiple submitters Inborn genetic diseases
  • p.Arg1040= Multiple submitters Inborn genetic diseases
  • p.Arg107= Multiple submitters Inborn genetic diseases
  • p.Arg1132= Multiple submitters Inborn genetic diseases
  • p.Arg1294= Multiple submitters Inborn genetic diseases
  • p.Arg1473= Multiple submitters Inborn genetic diseases
  • p.Arg302= Multiple submitters Inborn genetic diseases
  • p.Arg536= Multiple submitters Inborn genetic diseases
  • p.Arg75= Multiple submitters Inborn genetic diseases
  • p.Arg788= Multiple submitters Inborn genetic diseases
  • p.Asn10= Multiple submitters Inborn genetic diseases
  • p.Asn1003Ser Multiple submitters normophosphatemic familial tumoral calcinosis
  • p.Asn1138= Multiple submitters Inborn genetic diseases
  • p.Asn1141= Multiple submitters Inborn genetic diseases
  • p.Asn1367= Multiple submitters Inborn genetic diseases
  • p.Asn1443= Multiple submitters Inborn genetic diseases
  • p.Asn171= Multiple submitters Inborn genetic diseases
  • p.Asn232= Multiple submitters Inborn genetic diseases
  • p.Asn327= Multiple submitters Inborn genetic diseases
  • p.Asn330= Multiple submitters Inborn genetic diseases
  • p.Asn385= Multiple submitters Inborn genetic diseases
  • p.Asn418= Multiple submitters Inborn genetic diseases
  • p.Asn899= Multiple submitters Inborn genetic diseases
  • p.Asp1030= Multiple submitters Inborn genetic diseases
  • p.Asp1041= Multiple submitters Inborn genetic diseases
  • p.Asp1172= Multiple submitters Inborn genetic diseases
  • p.Asp12= Multiple submitters Inborn genetic diseases
  • p.Asp1218= Multiple submitters Inborn genetic diseases
  • p.Asp13= Multiple submitters Inborn genetic diseases
  • p.Asp1305= Multiple submitters Inborn genetic diseases
  • p.Asp1447= Multiple submitters Inborn genetic diseases
  • p.Asp148= Multiple submitters Inborn genetic diseases
  • p.Asp29= Multiple submitters Inborn genetic diseases
  • p.Asp351= Multiple submitters Inborn genetic diseases
  • p.Asp358= Multiple submitters Inborn genetic diseases
  • p.Asp365= Multiple submitters Inborn genetic diseases
  • p.Asp40= Multiple submitters Inborn genetic diseases
  • p.Asp499= Multiple submitters Inborn genetic diseases
  • p.Asp520= Multiple submitters Inborn genetic diseases
  • p.Asp551= Multiple submitters Inborn genetic diseases
  • p.Asp668= Multiple submitters Inborn genetic diseases
  • p.Asp709= Multiple submitters Inborn genetic diseases
  • p.Asp799= Multiple submitters Inborn genetic diseases
  • p.Asp849= Multiple submitters Inborn genetic diseases
  • p.Cys1376= Multiple submitters Inborn genetic diseases
  • p.Cys283= Multiple submitters Inborn genetic diseases
  • p.Cys835= Multiple submitters Inborn genetic diseases
  • p.Cys938= Multiple submitters Inborn genetic diseases
  • p.Gln1029= Multiple submitters Inborn genetic diseases
  • p.Gln1108= Multiple submitters
  • p.Gln1168= Multiple submitters Inborn genetic diseases
  • p.Gln1375= Multiple submitters Inborn genetic diseases
  • p.Gln1399= Multiple submitters Inborn genetic diseases
  • p.Gln1420= Multiple submitters Inborn genetic diseases
  • p.Gln1444= Multiple submitters Inborn genetic diseases
  • p.Gln1500= Multiple submitters Inborn genetic diseases
  • p.Gln317= Multiple submitters Inborn genetic diseases
  • p.Gln584= Multiple submitters Inborn genetic diseases
  • p.Gln598= Multiple submitters Inborn genetic diseases
  • p.Gln626= Multiple submitters Inborn genetic diseases
  • p.Gln789= Multiple submitters Inborn genetic diseases
  • p.Gln811= Multiple submitters Inborn genetic diseases
  • p.Gln855= Multiple submitters Inborn genetic diseases
  • p.Glu1062= Multiple submitters Inborn genetic diseases
  • p.Glu1174= Multiple submitters Inborn genetic diseases
  • p.Glu1176= Multiple submitters Inborn genetic diseases
  • p.Glu1289= Multiple submitters Inborn genetic diseases
  • p.Glu1356Gly Multiple submitters Inborn genetic diseases
  • p.Glu1490= Multiple submitters Inborn genetic diseases
  • p.Glu218= Multiple submitters Inborn genetic diseases
  • p.Glu433= Multiple submitters Inborn genetic diseases
  • p.Glu441= Multiple submitters Inborn genetic diseases
  • p.Glu52= Multiple submitters Inborn genetic diseases
  • p.Glu666= Multiple submitters Inborn genetic diseases
  • p.Glu680= Multiple submitters Inborn genetic diseases
  • p.Glu802= Multiple submitters Inborn genetic diseases
  • p.Glu861= Multiple submitters Inborn genetic diseases
  • p.Glu974= Multiple submitters Inborn genetic diseases
  • p.Gly1023= Multiple submitters Inborn genetic diseases
  • p.Gly1048= Multiple submitters Inborn genetic diseases
  • p.Gly1100= Multiple submitters Inborn genetic diseases
  • p.Gly1142= Multiple submitters Inborn genetic diseases
  • p.Gly1318= Multiple submitters Inborn genetic diseases
  • p.Gly1466= Multiple submitters Inborn genetic diseases
  • p.Gly1559= Multiple submitters Inborn genetic diseases
  • p.Gly1564= Multiple submitters Inborn genetic diseases
  • p.Gly1575= Multiple submitters Inborn genetic diseases
  • p.Gly249= Multiple submitters Inborn genetic diseases
  • p.Gly346= Multiple submitters Inborn genetic diseases
  • p.Gly400= Multiple submitters Inborn genetic diseases
  • p.Gly687= Multiple submitters Inborn genetic diseases
  • p.Gly743= Multiple submitters Inborn genetic diseases
  • p.Gly907= Multiple submitters Inborn genetic diseases
  • p.His1043= Multiple submitters Inborn genetic diseases
  • p.His1059= Multiple submitters Inborn genetic diseases
  • p.His1470= Multiple submitters Inborn genetic diseases
  • p.His1494= Multiple submitters Inborn genetic diseases
  • p.His244= Multiple submitters Inborn genetic diseases
  • p.His263= Multiple submitters Inborn genetic diseases
  • p.His32Leu Multiple submitters
  • p.His53= Multiple submitters Inborn genetic diseases
  • p.His61= Multiple submitters Inborn genetic diseases
  • p.His985= Multiple submitters Inborn genetic diseases
  • p.Ile1007= Multiple submitters Inborn genetic diseases
  • p.Ile1208= Multiple submitters Inborn genetic diseases
  • p.Ile1210= Multiple submitters Inborn genetic diseases
  • p.Ile1284= Multiple submitters Inborn genetic diseases
  • p.Ile1365Thr Multiple submitters Inborn genetic diseases
  • p.Ile1389= Multiple submitters Inborn genetic diseases
  • p.Ile1393= Multiple submitters Inborn genetic diseases
  • p.Ile28= Multiple submitters Inborn genetic diseases
  • p.Ile332= Multiple submitters Inborn genetic diseases
  • p.Ile448= Multiple submitters Inborn genetic diseases
  • p.Ile635= Multiple submitters Inborn genetic diseases
  • p.Ile718= Multiple submitters Inborn genetic diseases
  • p.Ile733= Multiple submitters Inborn genetic diseases
  • p.Ile872= Multiple submitters Inborn genetic diseases
  • p.Ile887= Multiple submitters Inborn genetic diseases
  • p.Leu1002= Multiple submitters Inborn genetic diseases
  • p.Leu1028= Multiple submitters Inborn genetic diseases
  • p.Leu1034= Multiple submitters Inborn genetic diseases
  • p.Leu1058= Multiple submitters Inborn genetic diseases
  • p.Leu1071= Multiple submitters Inborn genetic diseases
  • p.Leu1103= Multiple submitters Inborn genetic diseases
  • p.Leu1153= Multiple submitters Inborn genetic diseases
  • p.Leu1181= Multiple submitters Inborn genetic diseases
  • p.Leu1223= Multiple submitters Inborn genetic diseases
  • p.Leu1260= Multiple submitters Inborn genetic diseases
  • p.Leu1277= Multiple submitters Inborn genetic diseases
  • p.Leu1319= Multiple submitters Inborn genetic diseases
  • p.Leu1372= Multiple submitters Inborn genetic diseases
  • p.Leu1373= Multiple submitters Inborn genetic diseases
  • p.Leu1511= Multiple submitters Inborn genetic diseases
  • p.Leu1530= Multiple submitters Inborn genetic diseases
  • p.Leu1561= Multiple submitters Inborn genetic diseases
  • p.Leu159= Multiple submitters Inborn genetic diseases
  • p.Leu177= Multiple submitters Inborn genetic diseases
  • p.Leu293= Multiple submitters Inborn genetic diseases
  • p.Leu415= Multiple submitters Inborn genetic diseases
  • p.Leu440= Multiple submitters Inborn genetic diseases
  • p.Leu46= Multiple submitters Inborn genetic diseases
  • p.Leu5= Multiple submitters Inborn genetic diseases
  • p.Leu540= Multiple submitters Inborn genetic diseases
  • p.Leu544= Multiple submitters Inborn genetic diseases
  • p.Leu546= Multiple submitters Inborn genetic diseases
  • p.Leu590= Multiple submitters Inborn genetic diseases
  • p.Leu673= Multiple submitters Inborn genetic diseases
  • p.Leu74= Multiple submitters Inborn genetic diseases
  • p.Leu754= Multiple submitters Inborn genetic diseases
  • p.Leu763= Multiple submitters Inborn genetic diseases
  • p.Leu795= Multiple submitters Inborn genetic diseases
  • p.Leu797= Multiple submitters Inborn genetic diseases
  • p.Leu857= Multiple submitters Inborn genetic diseases
  • p.Leu987= Multiple submitters Inborn genetic diseases
  • p.Lys1247= Multiple submitters Inborn genetic diseases
  • p.Lys1385= Multiple submitters Inborn genetic diseases
  • p.Lys1465= Multiple submitters Inborn genetic diseases
  • p.Lys242= Multiple submitters Inborn genetic diseases
  • p.Lys31= Multiple submitters Inborn genetic diseases
  • p.Lys338= Multiple submitters Inborn genetic diseases
  • p.Lys386= Multiple submitters Inborn genetic diseases
  • p.Lys676= Multiple submitters Inborn genetic diseases
  • p.Lys72= Multiple submitters Inborn genetic diseases
  • p.Lys948= Multiple submitters Inborn genetic diseases
  • p.Lys959= Multiple submitters Inborn genetic diseases
  • p.Lys97= Multiple submitters Inborn genetic diseases
  • p.Phe1018= Multiple submitters Inborn genetic diseases
  • p.Phe1083= Multiple submitters Inborn genetic diseases
  • p.Phe1099= Multiple submitters Inborn genetic diseases
  • p.Phe1231= Multiple submitters Inborn genetic diseases
  • p.Phe1271= Multiple submitters Inborn genetic diseases
  • p.Phe1307= Multiple submitters Inborn genetic diseases
  • p.Phe1557= Multiple submitters Inborn genetic diseases
  • p.Phe1572= Multiple submitters Inborn genetic diseases
  • p.Phe672= Multiple submitters Inborn genetic diseases
  • p.Phe694= Multiple submitters Inborn genetic diseases
  • p.Phe758= Multiple submitters Inborn genetic diseases
  • p.Pro1183= Multiple submitters Inborn genetic diseases
  • p.Pro120= Multiple submitters Inborn genetic diseases
  • p.Pro1239= Multiple submitters Inborn genetic diseases
  • p.Pro125= Multiple submitters Inborn genetic diseases
  • p.Pro1255= Multiple submitters Inborn genetic diseases
  • p.Pro1441= Multiple submitters Inborn genetic diseases
  • p.Pro1555= Multiple submitters Inborn genetic diseases
  • p.Pro1581= Multiple submitters Inborn genetic diseases
  • p.Pro311= Multiple submitters Inborn genetic diseases
  • p.Pro510= Multiple submitters Inborn genetic diseases
  • p.Pro63= Multiple submitters Inborn genetic diseases
  • p.Pro633= Multiple submitters Inborn genetic diseases
  • p.Ser1074= Multiple submitters Inborn genetic diseases
  • p.Ser110= Multiple submitters Inborn genetic diseases
  • p.Ser1185= Multiple submitters Inborn genetic diseases
  • p.Ser1267= Multiple submitters Inborn genetic diseases
  • p.Ser129= Multiple submitters Inborn genetic diseases
  • p.Ser1510= Multiple submitters Inborn genetic diseases
  • p.Ser1577= Multiple submitters Inborn genetic diseases
  • p.Ser224= Multiple submitters Inborn genetic diseases
  • p.Ser348= Multiple submitters Inborn genetic diseases
  • p.Ser638= Multiple submitters Inborn genetic diseases
  • p.Ser697= Multiple submitters Inborn genetic diseases
  • p.Ser698= Multiple submitters Inborn genetic diseases
  • p.Ser82= Multiple submitters Inborn genetic diseases
  • p.Ser934= Multiple submitters Inborn genetic diseases
  • p.Thr1020= Multiple submitters Inborn genetic diseases
  • p.Thr1191= Multiple submitters Inborn genetic diseases
  • p.Thr1207= Multiple submitters Inborn genetic diseases
  • p.Thr1258= Multiple submitters Inborn genetic diseases
  • p.Thr130= Multiple submitters Inborn genetic diseases
  • p.Thr1361= Multiple submitters Inborn genetic diseases
  • p.Thr1377= Multiple submitters Inborn genetic diseases
  • p.Thr1550= Multiple submitters Inborn genetic diseases
  • p.Thr160= Multiple submitters Inborn genetic diseases
  • p.Thr203= Multiple submitters Inborn genetic diseases
  • p.Thr256= Multiple submitters Inborn genetic diseases
  • p.Thr298= Multiple submitters Inborn genetic diseases
  • p.Thr353= Multiple submitters Inborn genetic diseases
  • p.Thr37= Multiple submitters Inborn genetic diseases
  • p.Thr425= Multiple submitters Inborn genetic diseases
  • p.Thr474= Multiple submitters Inborn genetic diseases
  • p.Thr479= Multiple submitters Inborn genetic diseases
  • p.Thr639= Multiple submitters Inborn genetic diseases
  • p.Thr728= Multiple submitters Inborn genetic diseases
  • p.Thr745= Multiple submitters Inborn genetic diseases
  • p.Thr85= Multiple submitters Inborn genetic diseases
  • p.Thr912= Multiple submitters Inborn genetic diseases
  • p.Tyr1182= Multiple submitters Inborn genetic diseases
  • p.Tyr1189= Multiple submitters Inborn genetic diseases
  • p.Tyr1227= Multiple submitters Inborn genetic diseases
  • p.Tyr1253= Multiple submitters Inborn genetic diseases
  • p.Tyr1274= Multiple submitters Inborn genetic diseases
  • p.Tyr1303= Multiple submitters Inborn genetic diseases
  • p.Tyr1426= Multiple submitters Inborn genetic diseases
  • p.Tyr149= Multiple submitters Inborn genetic diseases
  • p.Tyr1543= Multiple submitters Inborn genetic diseases
  • p.Tyr1573= Multiple submitters Inborn genetic diseases
  • p.Tyr410= Multiple submitters Inborn genetic diseases
  • p.Tyr469= Multiple submitters Inborn genetic diseases
  • p.Tyr505= Multiple submitters Inborn genetic diseases
  • p.Tyr711= Multiple submitters Inborn genetic diseases
  • p.Tyr783= Multiple submitters Inborn genetic diseases
  • p.Tyr791= Multiple submitters Inborn genetic diseases
  • p.Tyr808= Multiple submitters Inborn genetic diseases
  • p.Tyr812= Multiple submitters Inborn genetic diseases
  • p.Tyr896= Multiple submitters Inborn genetic diseases
  • p.Tyr927= Multiple submitters Inborn genetic diseases
  • p.Tyr963= Multiple submitters Inborn genetic diseases
  • p.Val101= Multiple submitters Inborn genetic diseases
  • p.Val1067= Multiple submitters Inborn genetic diseases
  • p.Val1203= Multiple submitters Inborn genetic diseases
  • p.Val1232= Multiple submitters Inborn genetic diseases
  • p.Val1570= Multiple submitters Inborn genetic diseases
  • p.Val162= Multiple submitters Inborn genetic diseases
  • p.Val343= Multiple submitters Inborn genetic diseases
  • p.Val451= Multiple submitters Inborn genetic diseases
  • p.Val452= Multiple submitters Inborn genetic diseases
  • p.Val468= Multiple submitters Inborn genetic diseases
  • p.Val55= Multiple submitters Inborn genetic diseases
  • p.Val706= Multiple submitters Inborn genetic diseases
  • c.*3G>A Single submitter
  • p.Ala1066= Single submitter Inborn genetic diseases
  • p.Ala1069= Single submitter Inborn genetic diseases
  • p.Ala1106= Single submitter Inborn genetic diseases
  • p.Ala1195= Single submitter
  • p.Ala1435= Single submitter
  • p.Ala1459= Single submitter
  • p.Ala1459Ser Single submitter Inborn genetic diseases
  • p.Ala1479= Single submitter
  • p.Ala1534= Single submitter Inborn genetic diseases
  • p.Ala199= Single submitter Inborn genetic diseases
  • p.Ala206= Single submitter Inborn genetic diseases
  • p.Ala259= Single submitter Inborn genetic diseases
  • p.Ala361= Single submitter
  • p.Ala370= Single submitter
  • p.Ala376Thr Single submitter
  • p.Ala438= Single submitter
  • p.Ala64= Single submitter Inborn genetic diseases
  • p.Ala651= Single submitter
  • p.Ala677= Single submitter Inborn genetic diseases
  • p.Ala716= Single submitter
  • p.Ala722= Single submitter Inborn genetic diseases
  • p.Ala78= Single submitter Inborn genetic diseases
  • p.Ala785= Single submitter
  • p.Ala819= Single submitter
  • p.Ala852= Single submitter Inborn genetic diseases
  • p.Ala949= Single submitter
  • p.Ala949Pro Single submitter
  • p.Ala95= Single submitter Inborn genetic diseases
  • p.Arg106= Single submitter Inborn genetic diseases
  • p.Arg106His Single submitter
  • p.Arg106Ser Single submitter Inborn genetic diseases

Uncertain significance 1790

Showing the top 300 by review status; the full set is in the sitemap.