STIM1 — 799 ClinVar variants

All ClinVar germline STIM1 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 343 flagged for review →

19 Pathogenic · 4 Pathogenic/Likely pathogenic · 12 Likely pathogenic · 23 Conflicting · 39 Benign · 15 Benign/Likely benign · 282 Likely benign · 405 Uncertain significance

Full STIM1 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 343

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 agree, ClinVar conflicts 13

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

Predictors lean, ClinVar uncertain 274

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 274

Predictors split 56

The independent predictors disagree with each other — read with care.

All STIM1 variants

Pathogenic 19

  • p.Arg304Trp Multiple submitters Stormorken syndrome ⚠
  • p.Ala397fs Single submitter Stormorken syndrome
  • p.Arg253Ter Single submitter Stormorken syndrome
  • p.Arg429Cys Single submitter Stormorken syndrome
  • p.Asn234fs Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Asp84Gly Single submitter tubular aggregate myopathy
  • p.Glu482fs Single submitter tubular aggregate myopathy
  • p.His109Tyr Single submitter tubular aggregate myopathy
  • p.Ile115Phe Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Ile290fs Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Ile484fs Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Leu488Ter Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Trp10Ter Single submitter Stormorken syndrome
  • p.Val485fs Single submitter myopathy, tubular aggregate, 1
  • c.970-1G>A No assertion criteria combined immunodeficiency due to STIM1 deficiency
  • p.Glu128fs No assertion criteria combined immunodeficiency due to STIM1 deficiency
  • p.His109Asn No assertion criteria myopathy, tubular aggregate, 1
  • p.His72Gln No assertion criteria myopathy, tubular aggregate, 1
  • p.Leu74Pro No assertion criteria combined immunodeficiency due to STIM1 deficiency

Pathogenic/Likely pathogenic 4

  • p.Arg50Ter Multiple submitters combined immunodeficiency due to STIM1 deficiency
  • p.His109Arg Multiple submitters Stormorken syndrome
  • p.Leu55fs Multiple submitters Stormorken syndrome
  • p.Ser88Gly Multiple submitters combined immunodeficiency due to STIM1 deficiency

Likely pathogenic 12

Conflicting classifications of pathogenicity 23

Benign 39

Benign/Likely benign 15

  • c.1138-15del Multiple submitters Stormorken syndrome
  • c.1239-13C>T Multiple submitters tubular aggregate myopathy
  • p.Arg287= Multiple submitters tubular aggregate myopathy
  • p.Asp78= Multiple submitters combined immunodeficiency due to STIM1 deficiency
  • p.Glu434= Multiple submitters tubular aggregate myopathy
  • p.Gly37= Multiple submitters tubular aggregate myopathy
  • p.Ile435= Multiple submitters Stormorken syndrome
  • p.Leu199= Multiple submitters combined immunodeficiency due to STIM1 deficiency
  • p.Leu390= Multiple submitters combined immunodeficiency due to STIM1 deficiency
  • p.Pro537= Multiple submitters tubular aggregate myopathy
  • p.Thr509Pro Multiple submitters
  • p.Thr535= Multiple submitters combined immunodeficiency due to STIM1 deficiency
  • p.Thr535Met Multiple submitters combined immunodeficiency due to STIM1 deficiency
  • p.Val129= Multiple submitters tubular aggregate myopathy
  • p.Val169= Multiple submitters Stormorken syndrome

Likely benign 282

  • c.1138-11C>T Multiple submitters Stormorken syndrome
  • c.1138-8C>T Multiple submitters tubular aggregate myopathy
  • c.140-9C>T Multiple submitters Stormorken syndrome
  • c.1568-9T>C Multiple submitters combined immunodeficiency due to STIM1 deficiency
  • c.1634+11G>A Multiple submitters Stormorken syndrome
  • c.1634+13C>A Multiple submitters Stormorken syndrome
  • c.386-11T>C Multiple submitters tubular aggregate myopathy
  • c.497+17G>A Multiple submitters combined immunodeficiency due to STIM1 deficiency
  • c.792-4C>A Multiple submitters Stormorken syndrome
  • c.792-4C>G Multiple submitters Stormorken syndrome
  • c.792-59G>T Multiple submitters
  • c.792-9C>T Multiple submitters Stormorken syndrome
  • c.969+10T>G Multiple submitters Stormorken syndrome
  • c.969+167T>C Multiple submitters
  • c.*172A>G Multiple submitters
  • p.Ala376= Multiple submitters combined immunodeficiency due to STIM1 deficiency
  • p.Ala38= Multiple submitters tubular aggregate myopathy
  • p.Arg531= Multiple submitters tubular aggregate myopathy
  • p.Asn131= Multiple submitters Stormorken syndrome
  • p.Asp576= Multiple submitters tubular aggregate myopathy
  • p.Glu318= Multiple submitters Stormorken syndrome
  • p.Glu59= Multiple submitters Stormorken syndrome
  • p.Glu66= Multiple submitters combined immunodeficiency due to STIM1 deficiency
  • p.Gly201= Multiple submitters Stormorken syndrome
  • p.Leu190= Multiple submitters combined immunodeficiency due to STIM1 deficiency
  • p.Lys246= Multiple submitters Stormorken syndrome
  • p.Phe65= Multiple submitters Stormorken syndrome
  • p.Pro487= Multiple submitters combined immunodeficiency due to STIM1 deficiency
  • p.Ser35= Multiple submitters Stormorken syndrome
  • p.Thr172= Multiple submitters combined immunodeficiency due to STIM1 deficiency
  • c.1137+10G>A Single submitter tubular aggregate myopathy
  • c.1137+116T>C Single submitter
  • c.1137+11C>G Single submitter Stormorken syndrome
  • c.1137+13C>T Single submitter Stormorken syndrome
  • c.1137+14T>G Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.1137+18A>G Single submitter Stormorken syndrome
  • c.1137+8C>T Single submitter tubular aggregate myopathy
  • c.1138-14C>A Single submitter Stormorken syndrome
  • c.1138-15dup Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.1138-16G>A Single submitter Stormorken syndrome
  • c.1138-4G>A Single submitter Stormorken syndrome
  • c.1238+10A>C Single submitter tubular aggregate myopathy
  • c.1238+12del Single submitter tubular aggregate myopathy
  • c.1238+14G>A Single submitter tubular aggregate myopathy
  • c.1238+16_1238+17insG Single submitter Stormorken syndrome
  • c.1238+19C>T Single submitter
  • c.1238+9C>T Single submitter tubular aggregate myopathy
  • c.1239-10_1239-9del Single submitter Stormorken syndrome
  • c.1239-10C>T Single submitter Stormorken syndrome
  • c.1239-17C>G Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.1239-20T>A Single submitter Stormorken syndrome
  • c.1239-4del Single submitter Stormorken syndrome
  • c.1239-6C>T Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.1239-8G>A Single submitter tubular aggregate myopathy
  • c.139+12C>T Single submitter tubular aggregate myopathy
  • c.139+13T>A Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.139+16G>A Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.139+246A>C Single submitter
  • c.139+6G>A Single submitter Stormorken syndrome
  • c.139+7C>A Single submitter Stormorken syndrome
  • c.140-15G>C Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.140-16T>G Single submitter Stormorken syndrome
  • c.140-8T>C Single submitter tubular aggregate myopathy
  • c.1474+16dup Single submitter Stormorken syndrome
  • c.1474+17C>A Single submitter tubular aggregate myopathy
  • c.1474+17C>T Single submitter Stormorken syndrome
  • c.1474+17del Single submitter Stormorken syndrome
  • c.1474+20G>A Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.1474+7G>A Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.1541+504T>C Single submitter
  • c.1568-10C>T Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.1568-12T>C Single submitter Stormorken syndrome
  • c.1568-13A>T Single submitter tubular aggregate myopathy
  • c.1568-15T>C Single submitter Stormorken syndrome
  • c.1568-4G>T Single submitter Stormorken syndrome
  • c.1568-7C>G Single submitter Stormorken syndrome
  • c.1634+101G>A Single submitter
  • c.1634+10G>A Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.1634+161A>T Single submitter
  • c.1634+171C>T Single submitter
  • c.1634+187C>T Single submitter
  • c.1634+2159A>T Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.1634+286C>T Single submitter
  • c.1634+299G>A Single submitter
  • c.1634+57T>C Single submitter
  • c.1634+7A>G Single submitter Stormorken syndrome
  • c.1635-11A>G Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.1635-15C>T Single submitter Stormorken syndrome
  • c.1635-16G>A Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.1635-20C>G Single submitter Stormorken syndrome
  • c.1635-9G>A Single submitter tubular aggregate myopathy
  • c.270+11C>T Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.270+12C>T Single submitter Stormorken syndrome
  • c.270+13A>G Single submitter Stormorken syndrome
  • c.270+18G>T Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.270+19C>T Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.271-11T>C Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.271-13T>C Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.271-19G>A Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.271-19G>C Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.271-3034_271-3023del Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.271-9C>T Single submitter tubular aggregate myopathy
  • c.385+16G>A Single submitter Stormorken syndrome
  • c.385+19A>G Single submitter Stormorken syndrome
  • c.385+20T>G Single submitter tubular aggregate myopathy
  • c.385+7G>A Single submitter tubular aggregate myopathy
  • c.385+7G>T Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.386-17C>G Single submitter Stormorken syndrome
  • c.386-18G>T Single submitter tubular aggregate myopathy
  • c.497+16G>A Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.497+17G>T Single submitter Stormorken syndrome
  • c.498-14C>G Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.498-14C>T Single submitter tubular aggregate myopathy
  • c.498-15T>C Single submitter Stormorken syndrome
  • c.498-16C>G Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.498-18T>A Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.498-4A>C Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.498-5A>G Single submitter
  • c.498-6C>T Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.613+11T>A Single submitter Stormorken syndrome
  • c.614-11CT[2] Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.614-20T>C Single submitter tubular aggregate myopathy
  • c.614-20T>G Single submitter Stormorken syndrome
  • c.614-4G>T Single submitter Stormorken syndrome
  • c.791+15T>G Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.791+75C>G Single submitter
  • c.791+7C>G Single submitter Stormorken syndrome
  • c.791+7C>T Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.792-11T>C Single submitter
  • c.792-4C>T Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.792-6C>T Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.792-8C>A Single submitter Stormorken syndrome
  • c.792-9C>A Single submitter tubular aggregate myopathy
  • c.792-9C>G Single submitter Stormorken syndrome
  • c.969+15A>T Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.969+16A>G Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.969+7G>A Single submitter tubular aggregate myopathy
  • c.969+7G>T Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.969+9G>A Single submitter Stormorken syndrome
  • c.970-15C>G Single submitter combined immunodeficiency due to STIM1 deficiency
  • c.970-16C>A Single submitter Stormorken syndrome
  • c.970-17T>C Single submitter Stormorken syndrome
  • c.970-19C>T Single submitter Stormorken syndrome
  • c.970-6G>T Single submitter Stormorken syndrome
  • c.*10G>C Single submitter
  • c.*1G>C Single submitter
  • p.Ala343= Single submitter Stormorken syndrome
  • p.Ala523= Single submitter tubular aggregate myopathy
  • p.Ala574= Single submitter Stormorken syndrome
  • p.Ala575= Single submitter Stormorken syndrome
  • p.Ala581= Single submitter tubular aggregate myopathy
  • p.Ala67= Single submitter tubular aggregate myopathy
  • p.Ala79= Single submitter tubular aggregate myopathy
  • p.Arg207= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Arg304= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Arg311= Single submitter tubular aggregate myopathy
  • p.Arg325= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Arg424= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Arg499His Single submitter
  • p.Arg533= Single submitter tubular aggregate myopathy
  • p.Arg573= Single submitter tubular aggregate myopathy
  • p.Arg589= Single submitter Stormorken syndrome
  • p.Asn171= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Asn234= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Asn363= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Asn444= Single submitter
  • p.Asn80= Single submitter Stormorken syndrome
  • p.Asp100= Single submitter tubular aggregate myopathy
  • p.Asp183= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Asp475= Single submitter tubular aggregate myopathy
  • p.Asp476= Single submitter tubular aggregate myopathy
  • p.Asp551= Single submitter Stormorken syndrome
  • p.Asp688= Single submitter Stormorken syndrome
  • p.Asp76= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Asp82= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Asp95= Single submitter Stormorken syndrome
  • p.Gln149= Single submitter tubular aggregate myopathy
  • p.Gln158= Single submitter Stormorken syndrome
  • p.Gln233= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Gln352= Single submitter Stormorken syndrome
  • p.Gln527= Single submitter Stormorken syndrome
  • p.Glu111= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Glu118= Single submitter Stormorken syndrome
  • p.Glu136= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Glu146= Single submitter Stormorken syndrome
  • p.Glu239= Single submitter Stormorken syndrome
  • p.Glu270= Single submitter tubular aggregate myopathy
  • p.Glu356= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Glu378= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Gly225= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Gly250= Single submitter tubular aggregate myopathy
  • p.Gly306= Single submitter tubular aggregate myopathy
  • p.Gly37Ala Single submitter Stormorken syndrome
  • p.Gly392= Single submitter tubular aggregate myopathy
  • p.Gly540= Single submitter Stormorken syndrome
  • p.Gly593= Single submitter tubular aggregate myopathy
  • p.Gly597= Single submitter Stormorken syndrome
  • p.Gly638Ser Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.His105= Single submitter tubular aggregate myopathy
  • p.His18= Single submitter Stormorken syndrome
  • p.His210= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.His281= Single submitter Stormorken syndrome
  • p.His395= Single submitter tubular aggregate myopathy
  • p.His407= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.His539= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.His595= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.His72= Single submitter Stormorken syndrome
  • p.His99= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Ile115= Single submitter Stormorken syndrome
  • p.Ile220= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Ile290= Single submitter Stormorken syndrome
  • p.Ile433= Single submitter Stormorken syndrome
  • p.Ile591= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Leu114= Single submitter Stormorken syndrome
  • p.Leu12= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Leu120= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Leu15= Single submitter Stormorken syndrome
  • p.Leu157= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Leu179= Single submitter Stormorken syndrome
  • p.Leu216= Single submitter Stormorken syndrome
  • p.Leu23= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Leu248= Single submitter Stormorken syndrome
  • p.Leu258= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Leu282= Single submitter Stormorken syndrome
  • p.Leu303= Single submitter tubular aggregate myopathy
  • p.Leu328= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Leu335= Single submitter tubular aggregate myopathy
  • p.Leu353= Single submitter Stormorken syndrome
  • p.Leu373= Single submitter Stormorken syndrome
  • p.Leu374= Single submitter tubular aggregate myopathy
  • p.Leu402= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Leu410= Single submitter Stormorken syndrome
  • p.Leu416= Single submitter tubular aggregate myopathy
  • p.Leu541= Single submitter Stormorken syndrome
  • p.Leu579= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Leu590= Single submitter tubular aggregate myopathy
  • p.Leu603= Single submitter Stormorken syndrome
  • p.Leu714= Single submitter Stormorken syndrome
  • p.Lys113= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Lys125= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Lys189= Single submitter
  • p.Lys243= Single submitter Stormorken syndrome
  • p.Lys267= Single submitter Stormorken syndrome
  • p.Lys382= Single submitter tubular aggregate myopathy
  • p.Phe439= Single submitter tubular aggregate myopathy
  • p.Phe710= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Pro165= Single submitter tubular aggregate myopathy
  • p.Pro466= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Ser106= Single submitter Stormorken syndrome
  • p.Ser116= Single submitter tubular aggregate myopathy
  • p.Ser127= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Ser36= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Ser401= Single submitter Stormorken syndrome
  • p.Ser417= Single submitter Stormorken syndrome
  • p.Ser43= Single submitter Stormorken syndrome
  • p.Ser449= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Ser550= Single submitter tubular aggregate myopathy
  • p.Ser552= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Ser631= Single submitter Stormorken syndrome
  • p.Ser64= Single submitter Stormorken syndrome
  • p.Thr102= Single submitter Stormorken syndrome
  • p.Thr133= Single submitter tubular aggregate myopathy
  • p.Thr143= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Thr173= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Thr177= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Thr182= Single submitter tubular aggregate myopathy
  • p.Thr307= Single submitter Stormorken syndrome
  • p.Thr34= Single submitter
  • p.Thr583= Single submitter Stormorken syndrome
  • p.Tyr150= Single submitter
  • p.Tyr231= Single submitter Stormorken syndrome
  • p.Val138= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Val198= Single submitter Stormorken syndrome
  • p.Val218= Single submitter tubular aggregate myopathy
  • p.Val277= Single submitter Stormorken syndrome
  • p.Val280= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Val357= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Val375= Single submitter combined immunodeficiency due to STIM1 deficiency
  • p.Val405= Single submitter
  • c.1634+100C>T No assertion criteria STIM1-related disorder
  • c.*2C>T No assertion criteria STIM1-related disorder
  • p.Ser312= No assertion criteria STIM1-related disorder

Uncertain significance 405

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