VHL — 814 ClinVar variants

All ClinVar germline VHL variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 362 flagged for review →

84 Pathogenic · 31 Pathogenic/Likely pathogenic · 36 Likely pathogenic · 135 Conflicting · 20 Benign · 45 Benign/Likely benign · 103 Likely benign · 360 Uncertain significance

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

⚑ Evidence disagreements 362

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 3

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

Predictors agree, ClinVar conflicts 86

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

Predicted LoF vs a conflicting call 5

ClinVar submitters conflict, and it's a predicted loss-of-function change in a gene where LoF causes disease — flagged for review, not resolved (verify NMD-escape for C-terminal truncations). Non-missense.

Predictors lean, ClinVar uncertain 162

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 162

Predictors split 106

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

All VHL variants

Pathogenic 84

  • p.Arg64Pro Expert panel von Hippel-Lindau disease
  • p.Asn78Ser Expert panel von Hippel-Lindau disease ⚠
  • p.Glu70Ter Expert panel von Hippel-Lindau disease
  • p.Pro86Leu Expert panel von Hippel-Lindau disease
  • p.Ser65Trp Expert panel von Hippel-Lindau disease
  • p.Trp88Ter Expert panel von Hippel-Lindau disease
  • c.340+1G>A Multiple submitters von Hippel-Lindau disease
  • p.Arg107His Multiple submitters von Hippel-Lindau disease ⚠
  • p.Arg113Ter Multiple submitters hereditary neoplastic syndrome
  • p.Arg60fs Multiple submitters von Hippel-Lindau disease
  • p.Arg69fs Multiple submitters Chuvash polycythemia
  • p.Arg82Pro Multiple submitters von Hippel-Lindau disease
  • p.Asn78Thr Multiple submitters von Hippel-Lindau disease
  • p.Gln73Ter Multiple submitters von Hippel-Lindau disease
  • p.Gln96Ter Multiple submitters von Hippel-Lindau disease
  • p.Glu55fs Multiple submitters von Hippel-Lindau disease
  • p.Glu94Ter Multiple submitters von Hippel-Lindau disease
  • p.Gly114Arg Multiple submitters von Hippel-Lindau disease
  • p.Gly93fs Multiple submitters hereditary neoplastic syndrome
  • p.Gly93Ser Multiple submitters hereditary neoplastic syndrome
  • p.Ser111Arg Multiple submitters von Hippel-Lindau disease
  • p.Ser111Asn Multiple submitters von Hippel-Lindau disease
  • p.Ser111Gly Multiple submitters von Hippel-Lindau disease
  • p.Ser65fs Multiple submitters Chuvash polycythemia
  • p.Ser65Leu Multiple submitters von Hippel-Lindau disease
  • p.Ser65Ter Multiple submitters von Hippel-Lindau disease
  • p.Ser68Ter Multiple submitters von Hippel-Lindau disease
  • p.Trp88Arg Multiple submitters von Hippel-Lindau disease
  • p.Tyr112Asn Multiple submitters Chuvash polycythemia
  • p.Tyr112Ter Multiple submitters hereditary neoplastic syndrome
  • p.Tyr98Cys Multiple submitters von Hippel-Lindau disease
  • p.Tyr98His Multiple submitters von Hippel-Lindau disease
  • p.Val62fs Multiple submitters von Hippel-Lindau disease
  • p.Val84Leu Multiple submitters Chuvash polycythemia ⚠
  • c.339_340+5del Single submitter von Hippel-Lindau disease
  • c.340+1G>T Single submitter von Hippel-Lindau disease
  • p.Ala122fs Single submitter hereditary neoplastic syndrome
  • p.Arg107fs Single submitter Chuvash polycythemia
  • p.Arg107Ser Single submitter Chuvash polycythemia ⚠
  • p.Arg161Pro Single submitter hereditary neoplastic syndrome
  • p.Arg182fs Single submitter hereditary neoplastic syndrome
  • p.Arg82fs Single submitter Chuvash polycythemia
  • p.Arg82Gly Single submitter Chuvash polycythemia
  • p.Asn174_Tyr175insTer Single submitter hereditary neoplastic syndrome
  • p.Asn78fs Single submitter von Hippel-Lindau disease
  • p.Asn78His Single submitter von Hippel-Lindau disease
  • p.Gln73fs Single submitter hereditary neoplastic syndrome
  • p.Gln96_Pro103del Single submitter Chuvash polycythemia
  • p.Glu160Ter Single submitter hereditary neoplastic syndrome
  • p.Glu70fs Single submitter hereditary neoplastic syndrome
  • p.Gly57fs Single submitter von Hippel-Lindau disease
  • p.His110fs Single submitter Chuvash polycythemia
  • p.Pro103fs Single submitter Chuvash polycythemia
  • p.Pro61fs Single submitter hereditary neoplastic syndrome
  • p.Pro71fs Single submitter Chuvash polycythemia
  • p.Ser111Cys Single submitter Chuvash polycythemia
  • p.Ser65Pro Single submitter von Hippel-Lindau disease
  • p.Ser65Thr Single submitter von Hippel-Lindau disease
  • p.Ser68Pro Single submitter von Hippel-Lindau disease
  • p.Ser72fs Single submitter hereditary neoplastic syndrome
  • p.Ser80fs Single submitter von Hippel-Lindau disease
  • p.Thr100fs Single submitter von Hippel-Lindau disease
  • p.Thr105fs Single submitter pheochromocytoma
  • p.Thr105Pro Single submitter von Hippel-Lindau disease
  • p.Trp88fs Single submitter hereditary neoplastic syndrome
  • p.Tyr98_Leu101del Single submitter Chuvash polycythemia
  • p.Tyr98Asn Single submitter von Hippel-Lindau disease
  • p.Tyr98fs Single submitter von Hippel-Lindau disease
  • p.Val130fs Single submitter hereditary neoplastic syndrome
  • p.Val194fs Single submitter hereditary neoplastic syndrome
  • p.Val83fs Single submitter hereditary neoplastic syndrome
  • p.Val84fs Single submitter hereditary neoplastic syndrome
  • p.Val84Glu Single submitter hereditary neoplastic syndrome
  • p.Val87fs Single submitter Chuvash polycythemia
  • c.340+2_340+6del No assertion criteria von Hippel-Lindau disease
  • p.Arg64_Ser65insTer No assertion criteria von Hippel-Lindau disease
  • p.Asn90fs No assertion criteria von Hippel-Lindau disease
  • p.Gly104fs No assertion criteria von Hippel-Lindau disease
  • p.Gly93Cys No assertion criteria von Hippel-Lindau disease
  • p.Ile75del No assertion criteria von Hippel-Lindau disease
  • p.Leu101fs No assertion criteria von Hippel-Lindau disease
  • p.Trp88Ser No assertion criteria von Hippel-Lindau disease
  • p.Tyr98Ter No assertion criteria von Hippel-Lindau disease
  • p.Val74fs No assertion criteria von Hippel-Lindau disease

Pathogenic/Likely pathogenic 31

  • c.340+1G>C Multiple submitters von Hippel-Lindau disease
  • c.340+2T>G Multiple submitters Chuvash polycythemia
  • p.Arg107Gly Multiple submitters pheochromocytoma
  • p.Arg107Pro Multiple submitters von Hippel-Lindau disease
  • p.Arg64fs Multiple submitters von Hippel-Lindau disease
  • p.Arg82Leu Multiple submitters hereditary neoplastic syndrome
  • p.Asn78Asp Multiple submitters von Hippel-Lindau disease ⚠
  • p.Cys77Ter Multiple submitters von Hippel-Lindau disease
  • p.Glu70Lys Multiple submitters hereditary neoplastic syndrome ⚠
  • p.Gly114Ser Multiple submitters von Hippel-Lindau disease ⚠
  • p.Gly93Arg Multiple submitters von Hippel-Lindau disease
  • p.Gly93Asp Multiple submitters Chuvash polycythemia
  • p.Gly93Val Multiple submitters von Hippel-Lindau disease
  • p.His115Pro Multiple submitters hereditary neoplastic syndrome
  • p.Ile75Ser Multiple submitters Chuvash polycythemia ⚠
  • p.Leu89Pro Multiple submitters hereditary neoplastic syndrome
  • p.Phe76del Multiple submitters hereditary neoplastic syndrome
  • p.Phe76Tyr Multiple submitters hereditary neoplastic syndrome
  • p.Pro81Leu Multiple submitters Inherited phaeochromocytoma and paraganglioma excluding NF1
  • p.Pro86Ala Multiple submitters hereditary neoplastic syndrome
  • p.Pro86Arg Multiple submitters von Hippel-Lindau disease
  • p.Pro86Ser Multiple submitters von Hippel-Lindau disease
  • p.Ser72Pro Multiple submitters von Hippel-Lindau disease
  • p.Ser80Asn Multiple submitters hereditary neoplastic syndrome
  • p.Ser80Gly Multiple submitters VHL-related disorder
  • p.Ser80Ile Multiple submitters von Hippel-Lindau disease
  • p.Tyr112Cys Multiple submitters hereditary neoplastic syndrome
  • p.Tyr112His Multiple submitters VHL-related disorder ⚠
  • p.Tyr112Ser Multiple submitters hereditary neoplastic syndrome
  • p.Tyr98Ser Multiple submitters von Hippel-Lindau disease
  • p.Val84Met Multiple submitters von Hippel-Lindau disease ⚠

Likely pathogenic 36

Conflicting classifications of pathogenicity 135

Benign 20

  • p.Arg82= Expert panel von Hippel-Lindau disease
  • p.Glu52Lys Expert panel von Hippel-Lindau disease ⚠
  • p.Pro25Leu Expert panel von Hippel-Lindau disease
  • p.Pro40Leu Expert panel von Hippel-Lindau disease
  • p.Pro61= Expert panel von Hippel-Lindau disease
  • p.Pro81Ser Expert panel von Hippel-Lindau disease ⚠
  • c.341-37G>A Multiple submitters
  • c.-195G>A Multiple submitters hereditary neoplastic syndrome
  • c.-258C>T Multiple submitters hereditary neoplastic syndrome
  • c.-530G>C Multiple submitters hereditary neoplastic syndrome
  • c.340+7_340+24dup Single submitter von Hippel-Lindau disease
  • c.341-323G>T Single submitter hereditary neoplastic syndrome
  • c.-26C>G Single submitter
  • p.Asp92His Single submitter hereditary neoplastic syndrome
  • p.Glu32= Single submitter hereditary neoplastic syndrome
  • p.Glu46Lys Single submitter hereditary neoplastic syndrome ⚠
  • p.Glu53Lys Single submitter hereditary neoplastic syndrome ⚠
  • p.His125Asn Single submitter hereditary neoplastic syndrome
  • p.Pro40= Single submitter von Hippel-Lindau disease
  • p.Val62= Single submitter von Hippel-Lindau disease

Benign/Likely benign 45

  • c.340+10C>T Multiple submitters von Hippel-Lindau disease
  • c.340+5G>C Multiple submitters von Hippel-Lindau disease
  • c.-11T>C Multiple submitters von Hippel-Lindau disease
  • c.-77C>T Multiple submitters von Hippel-Lindau disease
  • p.Ala50= Multiple submitters von Hippel-Lindau disease
  • p.Arg108= Multiple submitters Chuvash polycythemia
  • p.Arg64= Multiple submitters hereditary neoplastic syndrome
  • p.Arg69= Multiple submitters Chuvash polycythemia
  • p.Arg79= Multiple submitters Chuvash polycythemia
  • p.Asn67= Multiple submitters hereditary neoplastic syndrome
  • p.Asn7= Multiple submitters Chuvash polycythemia
  • p.Asp9= Multiple submitters von Hippel-Lindau disease
  • p.Asp92= Multiple submitters hereditary neoplastic syndrome
  • p.Glu10= Multiple submitters Chuvash polycythemia
  • p.Glu16= Multiple submitters Chuvash polycythemia
  • p.Glu22= Multiple submitters Chuvash polycythemia
  • p.Glu36= Multiple submitters von Hippel-Lindau disease
  • p.Glu37= Multiple submitters hereditary neoplastic syndrome
  • p.Glu41= Multiple submitters von Hippel-Lindau disease
  • p.Glu47= Multiple submitters Chuvash polycythemia
  • p.Glu55= Multiple submitters Chuvash polycythemia
  • p.Gly24= Multiple submitters Chuvash polycythemia
  • p.His110= Multiple submitters hereditary neoplastic syndrome
  • p.Ile75= Multiple submitters von Hippel-Lindau disease
  • p.Leu101= Multiple submitters Chuvash polycythemia
  • p.Phe76= Multiple submitters hereditary neoplastic syndrome
  • p.Phe91= Multiple submitters Chuvash polycythemia
  • p.Pro102= Multiple submitters von Hippel-Lindau disease
  • p.Pro103= Multiple submitters hereditary neoplastic syndrome
  • p.Pro25= Multiple submitters von Hippel-Lindau disease
  • p.Pro59= Multiple submitters Chuvash polycythemia
  • p.Pro71= Multiple submitters Chuvash polycythemia
  • p.Pro81= Multiple submitters Chuvash polycythemia
  • p.Pro86= Multiple submitters von Hippel-Lindau disease
  • p.Pro95= Multiple submitters Chuvash polycythemia
  • p.Pro97= Multiple submitters hereditary neoplastic syndrome
  • p.Pro99= Multiple submitters von Hippel-Lindau disease
  • p.Ser38= Multiple submitters hereditary neoplastic syndrome
  • p.Ser65= Multiple submitters Chuvash polycythemia
  • p.Ser80= Multiple submitters Chuvash polycythemia
  • p.Tyr112= Multiple submitters von Hippel-Lindau disease
  • p.Tyr23= Multiple submitters Chuvash polycythemia
  • p.Tyr98= Multiple submitters Chuvash polycythemia
  • p.Val74= Multiple submitters Chuvash polycythemia
  • p.Val87= Multiple submitters von Hippel-Lindau disease

Likely benign 103

  • p.Gly30Glu Expert panel von Hippel-Lindau disease
  • c.340+10C>A Multiple submitters von Hippel-Lindau disease
  • c.340+10C>G Multiple submitters von Hippel-Lindau disease
  • c.340+11G>A Multiple submitters von Hippel-Lindau disease
  • c.340+20G>A Multiple submitters von Hippel-Lindau disease
  • c.340+7G>C Multiple submitters von Hippel-Lindau disease
  • c.340+7G>T Multiple submitters von Hippel-Lindau disease
  • c.340+8C>A Multiple submitters Chuvash polycythemia
  • c.340+8C>T Multiple submitters von Hippel-Lindau disease
  • c.340+9C>T Multiple submitters von Hippel-Lindau disease
  • c.-16C>T Multiple submitters
  • p.Ala11= Multiple submitters von Hippel-Lindau disease
  • p.Ala35= Multiple submitters hereditary neoplastic syndrome
  • p.Ala5= Multiple submitters Chuvash polycythemia
  • p.Arg4= Multiple submitters Chuvash polycythemia
  • p.Arg60= Multiple submitters Chuvash polycythemia
  • p.Asn90= Multiple submitters Chuvash polycythemia
  • p.Gln96= Multiple submitters hereditary neoplastic syndrome
  • p.Glu21= Multiple submitters von Hippel-Lindau disease
  • p.Glu52= Multiple submitters hereditary neoplastic syndrome
  • p.Gly106= Multiple submitters hereditary neoplastic syndrome
  • p.Gly29= Multiple submitters Chuvash polycythemia
  • p.Gly34= Multiple submitters hereditary neoplastic syndrome
  • p.Ile109= Multiple submitters Chuvash polycythemia
  • p.Leu63= Multiple submitters Chuvash polycythemia
  • p.Leu89= Multiple submitters Chuvash polycythemia
  • p.Ser33= Multiple submitters hereditary neoplastic syndrome
  • p.Thr105= Multiple submitters von Hippel-Lindau disease
  • p.Val13= Multiple submitters hereditary neoplastic syndrome
  • p.Val20= Multiple submitters hereditary neoplastic syndrome
  • p.Val83= Multiple submitters Chuvash polycythemia
  • p.Val84= Multiple submitters Chuvash polycythemia
  • c.340+10del Single submitter Chuvash polycythemia
  • c.340+11G>T Single submitter von Hippel-Lindau disease
  • c.340+14G>C Single submitter Chuvash polycythemia
  • c.340+14G>T Single submitter
  • c.340+15C>T Single submitter von Hippel-Lindau disease
  • c.340+16T>G Single submitter Chuvash polycythemia
  • c.340+20G>T Single submitter Chuvash polycythemia
  • c.340+5_340+17dup Single submitter Chuvash polycythemia
  • c.340+9C>G Single submitter von Hippel-Lindau disease
  • c.-13G>T Single submitter
  • c.-23G>C Single submitter
  • c.-25C>A Single submitter
  • c.-29C>A Single submitter
  • c.-31T>C Single submitter
  • c.-36C>G Single submitter
  • c.-36C>T Single submitter
  • c.-38C>T Single submitter
  • c.-40C>T Single submitter
  • c.-47C>G Single submitter
  • c.-70G>A Single submitter von Hippel-Lindau disease
  • p.Ala15= Single submitter Chuvash polycythemia
  • p.Ala18= Single submitter hereditary neoplastic syndrome
  • p.Ala18Gly Single submitter hereditary neoplastic syndrome
  • p.Ala18Ser Single submitter hereditary neoplastic syndrome
  • p.Ala56= Single submitter Chuvash polycythemia
  • p.Arg113Gln Single submitter hereditary neoplastic syndrome
  • p.Arg182= Single submitter hereditary neoplastic syndrome
  • p.Arg3= Single submitter von Hippel-Lindau disease
  • p.Arg58= Single submitter Chuvash polycythemia
  • p.Arg69His Single submitter hereditary neoplastic syndrome ⚠
  • p.Cys77= Single submitter hereditary neoplastic syndrome
  • p.Glu12= Single submitter hereditary neoplastic syndrome
  • p.Glu31= Single submitter von Hippel-Lindau disease
  • p.Glu53= Single submitter Chuvash polycythemia
  • p.Glu6= Single submitter Chuvash polycythemia
  • p.Glu6Lys Single submitter hereditary neoplastic syndrome
  • p.Glu70= Single submitter Chuvash polycythemia
  • p.Glu94= Single submitter von Hippel-Lindau disease
  • p.Gly14= Single submitter hereditary neoplastic syndrome
  • p.Gly19= Single submitter von Hippel-Lindau disease
  • p.Gly30= Single submitter Chuvash polycythemia
  • p.Gly39= Single submitter hereditary neoplastic syndrome
  • p.Gly44= Single submitter von Hippel-Lindau disease
  • p.Gly49= Single submitter hereditary neoplastic syndrome
  • p.Gly57= Single submitter Chuvash polycythemia
  • p.Ile109Thr Single submitter hereditary neoplastic syndrome
  • p.Leu116Ile Single submitter hereditary neoplastic syndrome
  • p.Leu118Val Single submitter hereditary neoplastic syndrome
  • p.Leu48= Single submitter von Hippel-Lindau disease
  • p.Leu85= Single submitter hereditary neoplastic syndrome
  • p.Lys171= Single submitter hereditary neoplastic syndrome
  • p.Met211Arg Single submitter hereditary neoplastic syndrome
  • p.Phe91Val Single submitter von Hippel-Lindau disease
  • p.Pro2= Single submitter hereditary neoplastic syndrome
  • p.Pro45= Single submitter Chuvash polycythemia
  • p.Pro97Arg Single submitter hereditary neoplastic syndrome ⚠
  • p.Ser111= Single submitter Chuvash polycythemia
  • p.Ser43= Single submitter Chuvash polycythemia
  • p.Ser68= Single submitter von Hippel-Lindau disease
  • p.Thr100= Single submitter Chuvash polycythemia
  • p.Thr105Arg Single submitter hereditary neoplastic syndrome
  • p.Val62_Leu63= Single submitter Chuvash polycythemia
  • p.Val66= Single submitter von Hippel-Lindau disease
  • p.Val66Ala Single submitter hereditary neoplastic syndrome
  • p.Val66Glu Single submitter hereditary neoplastic syndrome
  • p.Val66Met Single submitter hereditary neoplastic syndrome
  • c.341-1133C>T No assertion criteria hereditary neoplastic syndrome
  • c.341-1135T>C No assertion criteria hereditary neoplastic syndrome
  • c.341-1173C>T No assertion criteria hereditary neoplastic syndrome
  • c.-28G>C No assertion criteria VHL-related disorder
  • c.-78G>C No assertion criteria VHL-related disorder

Uncertain significance 360

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