ITK — 596 ClinVar variants

All ClinVar germline ITK variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 222 flagged for review →

14 Pathogenic · 1 Pathogenic/Likely pathogenic · 6 Likely pathogenic · 21 Conflicting · 42 Benign · 3 Benign/Likely benign · 238 Likely benign · 271 Uncertain significance

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

⚑ Evidence disagreements 222

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 3

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

Predictors lean, ClinVar uncertain 128

ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.

Predictors split 91

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

All ITK variants

Pathogenic 14

  • p.Arg59Ter Single submitter lymphoproliferative syndrome 1
  • p.Asp127fs Single submitter lymphoproliferative syndrome 1
  • p.Gln17Ter Single submitter lymphoproliferative syndrome 1
  • p.Glu309Ter Single submitter lymphoproliferative syndrome 1
  • p.Glu401Ter Single submitter lymphoproliferative syndrome 1
  • p.Gly555fs Single submitter lymphoproliferative syndrome 1
  • p.Lys248Ter Single submitter lymphoproliferative syndrome 1
  • p.Lys291Ter Single submitter lymphoproliferative syndrome 1
  • p.Lys310fs Single submitter
  • p.Trp130Ter Single submitter lymphoproliferative syndrome 1
  • p.Tyr273Ter Single submitter lymphoproliferative syndrome 1
  • p.Tyr305fs Single submitter Inborn genetic diseases
  • p.Tyr76Ter Single submitter lymphoproliferative syndrome 1
  • p.Tyr588Ter No assertion criteria lymphoproliferative syndrome 1

Pathogenic/Likely pathogenic 1

Likely pathogenic 6

  • c.1233-1G>A Single submitter lymphoproliferative syndrome 1
  • c.139-2A>G Single submitter lymphoproliferative syndrome 1
  • c.455-1G>C Single submitter lymphoproliferative syndrome 1
  • p.Arg29His Single submitter lymphoproliferative syndrome 1
  • p.Arg335Trp Single submitter lymphoproliferative syndrome 1
  • p.Arg44fs Single submitter lymphoproliferative syndrome 1

Conflicting classifications of pathogenicity 21

  • c.1060+12A>C Single submitter lymphoproliferative syndrome 1
  • c.138+13T>C Single submitter lymphoproliferative syndrome 1
  • c.139-6C>T Single submitter autoinflammatory syndrome
  • c.1792-4C>T Single submitter lymphoproliferative syndrome 1
  • c.495+12C>T Single submitter lymphoproliferative syndrome 1
  • c.496-4C>G Single submitter lymphoproliferative syndrome 1
  • p.Ala270= Single submitter autoinflammatory syndrome
  • p.Ala485= Single submitter lymphoproliferative syndrome 1
  • p.Arg394Gln Single submitter lymphoproliferative syndrome 1 ⚠
  • p.Arg581Trp Single submitter lymphoproliferative syndrome 1 ⚠
  • p.Asp359His Single submitter lymphoproliferative syndrome 1 ⚠
  • p.Cys132= Single submitter lymphoproliferative syndrome 1
  • p.Gln373= Single submitter lymphoproliferative syndrome 1
  • p.Leu11= Single submitter lymphoproliferative syndrome 1
  • p.Leu426= Single submitter autoinflammatory syndrome
  • p.Lys119Arg Single submitter lymphoproliferative syndrome 1 ⚠
  • p.Pro171Leu Single submitter Inborn genetic diseases ⚠
  • p.Pro521= Single submitter lymphoproliferative syndrome 1
  • p.Pro79= Single submitter lymphoproliferative syndrome 1
  • p.Thr504Ser Single submitter lymphoproliferative syndrome 1 ⚠
  • p.Val211Leu Single submitter lymphoproliferative syndrome 1 ⚠

Benign 42

Benign/Likely benign 3

  • c.244-8G>A Multiple submitters autoinflammatory syndrome
  • p.Arg193Gln Multiple submitters autoinflammatory syndrome
  • p.Val587Ile Multiple submitters autoinflammatory syndrome

Likely benign 238

  • c.1449+7G>C Multiple submitters lymphoproliferative syndrome 1
  • c.1515-10C>T Multiple submitters lymphoproliferative syndrome 1
  • c.495+9G>C Multiple submitters lymphoproliferative syndrome 1
  • c.*980C>T Multiple submitters lymphoproliferative syndrome 1
  • p.Arg610Cys Multiple submitters lymphoproliferative syndrome 1
  • p.Gly375= Multiple submitters lymphoproliferative syndrome 1
  • p.Gly555= Multiple submitters lymphoproliferative syndrome 1
  • p.Phe506= Multiple submitters lymphoproliferative syndrome 1
  • p.Thr110= Multiple submitters lymphoproliferative syndrome 1
  • p.Tyr225= Multiple submitters lymphoproliferative syndrome 1
  • c.1060+11C>A Single submitter lymphoproliferative syndrome 1
  • c.1061-17C>T Single submitter lymphoproliferative syndrome 1
  • c.1061-20A>G Single submitter lymphoproliferative syndrome 1
  • c.1061-7C>T Single submitter lymphoproliferative syndrome 1
  • c.1232+15C>A Single submitter lymphoproliferative syndrome 1
  • c.1232+19G>C Single submitter lymphoproliferative syndrome 1
  • c.1233-15G>C Single submitter lymphoproliferative syndrome 1
  • c.1233-16T>C Single submitter lymphoproliferative syndrome 1
  • c.1233-6C>T Single submitter lymphoproliferative syndrome 1
  • c.1233-8T>C Single submitter lymphoproliferative syndrome 1
  • c.138+19_138+20dup Single submitter lymphoproliferative syndrome 1
  • c.139-20A>T Single submitter lymphoproliferative syndrome 1
  • c.139-4A>C Single submitter lymphoproliferative syndrome 1
  • c.1449+10T>C Single submitter lymphoproliferative syndrome 1
  • c.1449+16G>C Single submitter lymphoproliferative syndrome 1
  • c.1449+7G>T Single submitter lymphoproliferative syndrome 1
  • c.1450-10T>C Single submitter lymphoproliferative syndrome 1
  • c.1450-13G>A Single submitter lymphoproliferative syndrome 1
  • c.1450-16C>T Single submitter lymphoproliferative syndrome 1
  • c.1450-20T>C Single submitter lymphoproliferative syndrome 1
  • c.1450-4C>T Single submitter lymphoproliferative syndrome 1
  • c.1450-8C>G Single submitter lymphoproliferative syndrome 1
  • c.1450-9C>T Single submitter lymphoproliferative syndrome 1
  • c.1514+11G>C Single submitter lymphoproliferative syndrome 1
  • c.1514+13T>A Single submitter lymphoproliferative syndrome 1
  • c.1514+17G>T Single submitter lymphoproliferative syndrome 1
  • c.1515-11T>C Single submitter lymphoproliferative syndrome 1
  • c.1515-18C>T Single submitter lymphoproliferative syndrome 1
  • c.1515-8C>G Single submitter lymphoproliferative syndrome 1
  • c.1633+14T>C Single submitter lymphoproliferative syndrome 1
  • c.1633+17G>A Single submitter lymphoproliferative syndrome 1
  • c.1634-17C>A Single submitter lymphoproliferative syndrome 1
  • c.1634-17C>T Single submitter lymphoproliferative syndrome 1
  • c.1634-20G>A Single submitter lymphoproliferative syndrome 1
  • c.1634-5T>C Single submitter lymphoproliferative syndrome 1
  • c.1634-7C>A Single submitter lymphoproliferative syndrome 1
  • c.1791+11G>A Single submitter lymphoproliferative syndrome 1
  • c.1791+14G>A Single submitter lymphoproliferative syndrome 1
  • c.1791+18T>C Single submitter lymphoproliferative syndrome 1
  • c.1791+9A>G Single submitter lymphoproliferative syndrome 1
  • c.1792-17C>T Single submitter lymphoproliferative syndrome 1
  • c.1792-6C>T Single submitter lymphoproliferative syndrome 1
  • c.243+10T>C Single submitter lymphoproliferative syndrome 1
  • c.243+14del Single submitter lymphoproliferative syndrome 1
  • c.243+16G>T Single submitter lymphoproliferative syndrome 1
  • c.243+20A>G Single submitter lymphoproliferative syndrome 1
  • c.243+9A>C Single submitter lymphoproliferative syndrome 1
  • c.243+9A>G Single submitter lymphoproliferative syndrome 1
  • c.244-14G>A Single submitter lymphoproliferative syndrome 1
  • c.244-17TG[4] Single submitter lymphoproliferative syndrome 1
  • c.244-7T>C Single submitter lymphoproliferative syndrome 1
  • c.244-8G>C Single submitter lymphoproliferative syndrome 1
  • c.325+10C>T Single submitter lymphoproliferative syndrome 1
  • c.326-17G>A Single submitter lymphoproliferative syndrome 1
  • c.326-17G>T Single submitter lymphoproliferative syndrome 1
  • c.326-9C>T Single submitter lymphoproliferative syndrome 1
  • c.454+11G>A Single submitter lymphoproliferative syndrome 1
  • c.454+19C>T Single submitter lymphoproliferative syndrome 1
  • c.454+9C>G Single submitter lymphoproliferative syndrome 1
  • c.455-14T>A Single submitter lymphoproliferative syndrome 1
  • c.455-14T>C Single submitter lymphoproliferative syndrome 1
  • c.455-16G>T Single submitter lymphoproliferative syndrome 1
  • c.455-17T>C Single submitter lymphoproliferative syndrome 1
  • c.455-9T>C Single submitter lymphoproliferative syndrome 1
  • c.495+11G>C Single submitter lymphoproliferative syndrome 1
  • c.495+13G>A Single submitter lymphoproliferative syndrome 1
  • c.495+13G>T Single submitter lymphoproliferative syndrome 1
  • c.495+16A>G Single submitter lymphoproliferative syndrome 1
  • c.495+17G>A Single submitter lymphoproliferative syndrome 1
  • c.495+17G>C Single submitter lymphoproliferative syndrome 1
  • c.495+20C>T Single submitter lymphoproliferative syndrome 1
  • c.496-16T>C Single submitter lymphoproliferative syndrome 1
  • c.496-18G>C Single submitter lymphoproliferative syndrome 1
  • c.647+10C>A Single submitter lymphoproliferative syndrome 1
  • c.647+11T>G Single submitter lymphoproliferative syndrome 1
  • c.647+15T>C Single submitter lymphoproliferative syndrome 1
  • c.647+16G>A Single submitter lymphoproliferative syndrome 1
  • c.647+18C>G Single submitter lymphoproliferative syndrome 1
  • c.647+19T>G Single submitter lymphoproliferative syndrome 1
  • c.647+20G>A Single submitter lymphoproliferative syndrome 1
  • c.647+9T>C Single submitter lymphoproliferative syndrome 1
  • c.648-8T>C Single submitter lymphoproliferative syndrome 1
  • c.648-9T>C Single submitter lymphoproliferative syndrome 1
  • c.713+16T>C Single submitter lymphoproliferative syndrome 1
  • c.714-11C>T Single submitter lymphoproliferative syndrome 1
  • c.714-12C>T Single submitter lymphoproliferative syndrome 1
  • c.714-13T>C Single submitter lymphoproliferative syndrome 1
  • c.714-5T>C Single submitter lymphoproliferative syndrome 1
  • c.714-9T>C Single submitter lymphoproliferative syndrome 1
  • c.768+17T>C Single submitter lymphoproliferative syndrome 1
  • c.768+18G>A Single submitter lymphoproliferative syndrome 1
  • c.769-19T>C Single submitter lymphoproliferative syndrome 1
  • c.769-20A>G Single submitter lymphoproliferative syndrome 1
  • c.851+14T>C Single submitter lymphoproliferative syndrome 1
  • c.851+18C>T Single submitter lymphoproliferative syndrome 1
  • c.851+20C>A Single submitter lymphoproliferative syndrome 1
  • c.852-6T>C Single submitter lymphoproliferative syndrome 1
  • c.852-7_852-4del Single submitter lymphoproliferative syndrome 1
  • c.985+10A>G Single submitter lymphoproliferative syndrome 1
  • c.985+19G>T Single submitter lymphoproliferative syndrome 1
  • c.985+20T>C Single submitter lymphoproliferative syndrome 1
  • c.986-4C>T Single submitter lymphoproliferative syndrome 1
  • c.*1083A>G Single submitter lymphoproliferative syndrome 1
  • c.*1943T>C Single submitter lymphoproliferative syndrome 1
  • c.*492T>C Single submitter lymphoproliferative syndrome 1
  • p.Ala105= Single submitter lymphoproliferative syndrome 1
  • p.Ala178= Single submitter lymphoproliferative syndrome 1
  • p.Ala476= Single submitter lymphoproliferative syndrome 1
  • p.Ala604= Single submitter lymphoproliferative syndrome 1
  • p.Ala613= Single submitter lymphoproliferative syndrome 1
  • p.Ala93= Single submitter lymphoproliferative syndrome 1
  • p.Arg101= Single submitter lymphoproliferative syndrome 1
  • p.Arg193= Single submitter lymphoproliferative syndrome 1
  • p.Arg210= Single submitter lymphoproliferative syndrome 1
  • p.Arg29= Single submitter lymphoproliferative syndrome 1
  • p.Arg304= Single submitter lymphoproliferative syndrome 1
  • p.Arg333= Single submitter lymphoproliferative syndrome 1
  • p.Arg342= Single submitter
  • p.Arg451= Single submitter lymphoproliferative syndrome 1
  • p.Arg481= Single submitter lymphoproliferative syndrome 1
  • p.Arg562= Single submitter lymphoproliferative syndrome 1
  • p.Arg581= Single submitter lymphoproliferative syndrome 1
  • p.Arg602= Single submitter lymphoproliferative syndrome 1
  • p.Arg610= Single submitter lymphoproliferative syndrome 1
  • p.Asn113= Single submitter lymphoproliferative syndrome 1
  • p.Asn195= Single submitter lymphoproliferative syndrome 1
  • p.Asn2= Single submitter lymphoproliferative syndrome 1
  • p.Asn233= Single submitter lymphoproliferative syndrome 1
  • p.Asn286= Single submitter lymphoproliferative syndrome 1
  • p.Asn326= Single submitter lymphoproliferative syndrome 1
  • p.Asn384= Single submitter lymphoproliferative syndrome 1
  • p.Asn493= Single submitter lymphoproliferative syndrome 1
  • p.Asp482= Single submitter lymphoproliferative syndrome 1
  • p.Asp510= Single submitter lymphoproliferative syndrome 1
  • p.Asp570= Single submitter lymphoproliferative syndrome 1
  • p.Asp601= Single submitter lymphoproliferative syndrome 1
  • p.Asp85= Single submitter lymphoproliferative syndrome 1
  • p.Cys133= Single submitter lymphoproliferative syndrome 1
  • p.Cys463= Single submitter lymphoproliferative syndrome 1
  • p.Gln183= Single submitter lymphoproliferative syndrome 1
  • p.Gln511= Single submitter lymphoproliferative syndrome 1
  • p.Glu172= Single submitter lymphoproliferative syndrome 1
  • p.Glu309= Single submitter lymphoproliferative syndrome 1
  • p.Glu427= Single submitter lymphoproliferative syndrome 1
  • p.Glu439= Single submitter lymphoproliferative syndrome 1
  • p.Glu468= Single submitter lymphoproliferative syndrome 1
  • p.Glu56= Single submitter lymphoproliferative syndrome 1
  • p.Glu8= Single submitter lymphoproliferative syndrome 1
  • p.Gly219= Single submitter lymphoproliferative syndrome 1
  • p.Gly260= Single submitter lymphoproliferative syndrome 1
  • p.Gly329= Single submitter lymphoproliferative syndrome 1
  • p.Gly354= Single submitter lymphoproliferative syndrome 1
  • p.Gly396= Single submitter lymphoproliferative syndrome 1
  • p.Gly53= Single submitter lymphoproliferative syndrome 1
  • p.His217= Single submitter lymphoproliferative syndrome 1
  • p.His440= Single submitter lymphoproliferative syndrome 1
  • p.His586= Single submitter lymphoproliferative syndrome 1
  • p.Ile358= Single submitter lymphoproliferative syndrome 1
  • p.Ile479= Single submitter lymphoproliferative syndrome 1
  • p.Ile5= Single submitter lymphoproliferative syndrome 1
  • p.Ile55= Single submitter lymphoproliferative syndrome 1
  • p.Ile557= Single submitter lymphoproliferative syndrome 1
  • p.Ile571= Single submitter lymphoproliferative syndrome 1
  • p.Leu136= Single submitter lymphoproliferative syndrome 1
  • p.Leu179= Single submitter lymphoproliferative syndrome 1
  • p.Leu190= Single submitter lymphoproliferative syndrome 1
  • p.Leu201= Single submitter lymphoproliferative syndrome 1
  • p.Leu226= Single submitter lymphoproliferative syndrome 1
  • p.Leu253= Single submitter lymphoproliferative syndrome 1
  • p.Leu33= Single submitter lymphoproliferative syndrome 1
  • p.Leu351= Single submitter lymphoproliferative syndrome 1
  • p.Leu363= Single submitter lymphoproliferative syndrome 1
  • p.Leu379= Single submitter lymphoproliferative syndrome 1
  • p.Leu38= Single submitter lymphoproliferative syndrome 1
  • p.Leu383= Single submitter lymphoproliferative syndrome 1
  • p.Leu421= Single submitter lymphoproliferative syndrome 1
  • p.Leu460= Single submitter lymphoproliferative syndrome 1
  • p.Leu473= Single submitter lymphoproliferative syndrome 1
  • p.Leu508= Single submitter lymphoproliferative syndrome 1
  • p.Leu57= Single submitter
  • p.Leu577= Single submitter lymphoproliferative syndrome 1
  • p.Leu89= Single submitter lymphoproliferative syndrome 1
  • p.Lys138= Single submitter lymphoproliferative syndrome 1
  • p.Lys280= Single submitter lymphoproliferative syndrome 1
  • p.Lys291= Single submitter lymphoproliferative syndrome 1
  • p.Lys355= Single submitter lymphoproliferative syndrome 1
  • p.Phe340Ser Single submitter Inborn genetic diseases
  • p.Phe530= Single submitter lymphoproliferative syndrome 1
  • p.Phe532= Single submitter lymphoproliferative syndrome 1
  • p.Phe92= Single submitter lymphoproliferative syndrome 1
  • p.Pro156= Single submitter lymphoproliferative syndrome 1
  • p.Pro158= Single submitter lymphoproliferative syndrome 1
  • p.Pro167= Single submitter lymphoproliferative syndrome 1
  • p.Pro558= Single submitter lymphoproliferative syndrome 1
  • p.Pro73= Single submitter lymphoproliferative syndrome 1
  • p.Pro94= Single submitter lymphoproliferative syndrome 1
  • p.Ser134= Single submitter lymphoproliferative syndrome 1
  • p.Ser203= Single submitter lymphoproliferative syndrome 1
  • p.Ser24= Single submitter lymphoproliferative syndrome 1
  • p.Ser276= Single submitter lymphoproliferative syndrome 1
  • p.Ser444= Single submitter lymphoproliferative syndrome 1
  • p.Ser539= Single submitter lymphoproliferative syndrome 1
  • p.Ser565= Single submitter lymphoproliferative syndrome 1
  • p.Ser572= Single submitter lymphoproliferative syndrome 1
  • p.Ser58= Single submitter lymphoproliferative syndrome 1
  • p.Ter621= Single submitter lymphoproliferative syndrome 1
  • p.Thr141= Single submitter lymphoproliferative syndrome 1
  • p.Thr269= Single submitter lymphoproliferative syndrome 1
  • p.Thr274= Single submitter lymphoproliferative syndrome 1
  • p.Thr348= Single submitter lymphoproliferative syndrome 1
  • p.Thr50= Single submitter lymphoproliferative syndrome 1
  • p.Thr516= Single submitter lymphoproliferative syndrome 1
  • p.Thr518= Single submitter lymphoproliferative syndrome 1
  • p.Thr573= Single submitter lymphoproliferative syndrome 1
  • p.Tyr305= Single submitter lymphoproliferative syndrome 1
  • p.Val175= Single submitter lymphoproliferative syndrome 1
  • p.Val211= Single submitter lymphoproliferative syndrome 1
  • p.Val227= Single submitter lymphoproliferative syndrome 1
  • p.Val264= Single submitter lymphoproliferative syndrome 1
  • p.Val331= Single submitter lymphoproliferative syndrome 1
  • p.Val377= Single submitter lymphoproliferative syndrome 1
  • p.Val434= Single submitter lymphoproliferative syndrome 1
  • p.Val466= Single submitter lymphoproliferative syndrome 1
  • p.Val568= Single submitter lymphoproliferative syndrome 1
  • p.Val63= Single submitter lymphoproliferative syndrome 1
  • p.Val66= Single submitter lymphoproliferative syndrome 1
  • p.Val83= Single submitter lymphoproliferative syndrome 1
  • c.1061-19CT[6] No assertion criteria ITK-related disorder

Uncertain significance 271