FANCD2 — 2020 ClinVar variants

All ClinVar germline FANCD2 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 637 flagged for review →

98 Pathogenic · 47 Pathogenic/Likely pathogenic · 119 Likely pathogenic · 88 Conflicting · 105 Benign · 48 Benign/Likely benign · 768 Likely benign · 747 Uncertain significance

Full FANCD2 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 637

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 2

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

Predictors agree, ClinVar conflicts 35

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

Predictors lean, ClinVar uncertain 531

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 531

Predictors split 69

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

All FANCD2 variants

Pathogenic 98

Pathogenic/Likely pathogenic 47

  • c.1279-1G>A Multiple submitters Fanconi anemia complementation group D2
  • c.1948-6C>A Multiple submitters Fanconi anemia
  • c.2609_2613del Multiple submitters Fanconi anemia complementation group D2
  • c.2715+1G>A Multiple submitters Fanconi anemia
  • c.3107_3108del Multiple submitters Fanconi anemia complementation group D2
  • c.3888+2T>G Multiple submitters Fanconi anemia
  • c.491+1G>A Multiple submitters Fanconi anemia
  • c.990-1G>A Multiple submitters Fanconi anemia complementation group D2
  • p.Ala629fs Multiple submitters Fanconi anemia
  • p.Arg1097Ter Multiple submitters Fanconi anemia
  • p.Arg1236His Multiple submitters FANCD2-related disorders ⚠
  • p.Arg1273Ter Multiple submitters Fanconi anemia
  • p.Arg174Ter Multiple submitters Fanconi anemia complementation group D2
  • p.Arg185fs Multiple submitters Fanconi anemia
  • p.Arg253Ter Multiple submitters Fanconi anemia
  • p.Arg302Trp Multiple submitters Fanconi anemia ⚠
  • p.Arg530Ter Multiple submitters Fanconi anemia complementation group D2
  • p.Arg794Ter Multiple submitters Fanconi anemia complementation group D2
  • p.Arg926Ter Multiple submitters Fanconi anemia complementation group D2
  • p.Asn920Ter Multiple submitters Fanconi anemia
  • p.Gln1080Ter Multiple submitters Fanconi anemia
  • p.Gln1100fs Multiple submitters Fanconi anemia
  • p.Gln1161Ter Multiple submitters Fanconi anemia
  • p.Gln1308Ter Multiple submitters Fanconi anemia
  • p.Gln340Ter Multiple submitters Fanconi anemia
  • p.Gln562Ter Multiple submitters Fanconi anemia
  • p.Gln623Ter Multiple submitters Fanconi anemia
  • p.Gln626Ter Multiple submitters Fanconi anemia
  • p.Gln718Ter Multiple submitters Fanconi anemia
  • p.Glu169Ter Multiple submitters Fanconi anemia complementation group D2
  • p.Glu949Ter Multiple submitters Fanconi anemia
  • p.His654fs Multiple submitters Fanconi anemia complementation group D2
  • p.Ile945_Leu946insTer Multiple submitters Fanconi anemia complementation group D2
  • p.Leu1364fs Multiple submitters Fanconi anemia complementation group D2
  • p.Leu785fs Multiple submitters Fanconi anemia
  • p.Leu816Ter Multiple submitters Fanconi anemia
  • p.Lys1099fs Multiple submitters Fanconi anemia complementation group D2
  • p.Lys31fs Multiple submitters Fanconi anemia complementation group D2
  • p.Lys33fs Multiple submitters Fanconi anemia complementation group D2
  • p.Lys77fs Multiple submitters Fanconi anemia complementation group D2
  • p.Pro526fs Multiple submitters Fanconi anemia
  • p.Ser64fs Multiple submitters Fanconi anemia
  • p.Thr914fs Multiple submitters Fanconi anemia
  • p.Tyr1267fs Multiple submitters Fanconi anemia
  • p.Tyr356Ter Multiple submitters Fanconi anemia
  • p.Tyr684Ter Multiple submitters Fanconi anemia
  • p.Tyr829Ter Multiple submitters Fanconi anemia complementation group D2

Likely pathogenic 119

  • c.1279-2A>G Multiple submitters Fanconi anemia complementation group D2
  • c.206-1G>T Multiple submitters Fanconi anemia
  • c.2169-1G>C Multiple submitters Fanconi anemia
  • c.2269+1G>A Multiple submitters Fanconi anemia complementation group D2
  • c.3224+1G>T Multiple submitters Fanconi anemia complementation group D2
  • c.3467-2A>G Multiple submitters Fanconi anemia
  • c.3560+1G>A Multiple submitters Fanconi anemia
  • c.377+1G>A Multiple submitters FANCD2-related disorders
  • c.3889-2A>G Multiple submitters Fanconi anemia complementation group D2
  • c.64+2T>G Multiple submitters Fanconi anemia complementation group D2
  • c.696-121C>G Multiple submitters Fanconi anemia
  • p.Asn1032fs Multiple submitters Fanconi anemia complementation group D2
  • p.Gln1113Ter Multiple submitters Fanconi anemia complementation group D2
  • p.Gln76fs Multiple submitters Fanconi anemia complementation group D2
  • p.Gly1101fs Multiple submitters Fanconi anemia complementation group D2
  • p.Ser1127fs Multiple submitters Fanconi anemia complementation group D2
  • p.Thr395fs Multiple submitters Fanconi anemia
  • c.1098+2T>A Single submitter Fanconi anemia
  • c.1134+1G>A Single submitter Fanconi anemia
  • c.1135-1G>C Single submitter Fanconi anemia complementation group D2
  • c.1278+1G>T Single submitter Fanconi anemia
  • c.1278+6T>C Single submitter Fanconi anemia complementation group D2
  • c.1279-2A>C Single submitter Fanconi anemia complementation group D2
  • c.1545+1G>T Single submitter Fanconi anemia complementation group D2
  • c.1546-1G>A Single submitter Fanconi anemia
  • c.1656+1G>A Single submitter Fanconi anemia
  • c.1656+1G>T Single submitter
  • c.1766+1G>A Single submitter Fanconi anemia
  • c.1947+1G>A Single submitter Fanconi anemia
  • c.1948-2A>G Single submitter Fanconi anemia complementation group D2
  • c.2021+1G>T Single submitter Fanconi anemia complementation group D2
  • c.205+1G>A Single submitter Fanconi anemia
  • c.205+2T>A Single submitter Fanconi anemia complementation group D2
  • c.2168_2168+1delinsT Single submitter Fanconi anemia
  • c.2168+2T>C Single submitter Fanconi anemia
  • c.2270-1G>A Single submitter Fanconi anemia complementation group D2
  • c.2270-1G>C Single submitter Fanconi anemia
  • c.2386-2A>G Single submitter Fanconi anemia
  • c.2495-2A>G Single submitter Fanconi anemia
  • c.273+2T>C Single submitter Fanconi anemia
  • c.2860-2A>G Single submitter Fanconi anemia complementation group D2
  • c.3224+1G>C Single submitter Fanconi anemia
  • c.3225-6_3232del Single submitter Fanconi anemia complementation group D2
  • c.3335+1G>A Single submitter Fanconi anemia complementation group D2
  • c.3466+1G>A Single submitter Fanconi anemia complementation group D2
  • c.3466+1G>C Single submitter Fanconi anemia
  • c.3561-1del Single submitter Fanconi anemia
  • c.3561-1G>A Single submitter Fanconi anemia
  • c.3749_3777+789del Single submitter Fanconi anemia
  • c.377+2T>C Single submitter Fanconi anemia complementation group D2
  • c.3778-1G>A Single submitter Fanconi anemia complementation group D2
  • c.378-1G>C Single submitter Fanconi anemia complementation group D2
  • c.3849+1G>A Single submitter Fanconi anemia
  • c.3849+1G>T Single submitter Fanconi anemia
  • c.3889-1G>A Single submitter Fanconi anemia
  • c.3963_3963+1inv Single submitter Fanconi anemia
  • c.3963+1G>A Single submitter Fanconi anemia
  • c.4038+2T>G Single submitter Fanconi anemia
  • c.4039-2A>G Single submitter Fanconi anemia
  • c.4186-2A>G Single submitter Fanconi anemia complementation group D2
  • c.4281+7_4281+8del Single submitter Fanconi anemia complementation group D2
  • c.571-2A>G Single submitter Fanconi anemia
  • c.64+1_64+2del Single submitter Fanconi anemia
  • c.65-1G>T Single submitter Fanconi anemia
  • c.65-2A>G Single submitter Fanconi anemia complementation group D2
  • c.694_695+14del Single submitter Fanconi anemia
  • c.695+1G>A Single submitter Fanconi anemia
  • c.695+2T>G Single submitter Fanconi anemia complementation group D2
  • c.888+1G>A Single submitter Fanconi anemia
  • c.990-2A>G Single submitter Fanconi anemia complementation group D2
  • p.Ala1199_Ile1200insTer Single submitter Fanconi anemia
  • p.Arg1318Ter Single submitter Fanconi anemia complementation group D2
  • p.Asn1085fs Single submitter Fanconi anemia complementation group D2
  • p.Asp221fs Single submitter Fanconi anemia complementation group D2
  • p.Asp348fs Single submitter Fanconi anemia complementation group D2
  • p.Cys1024fs Single submitter Fanconi anemia complementation group D2
  • p.Cys893fs Single submitter Fanconi anemia complementation group D2
  • p.Gln1105Ter Single submitter Fanconi anemia complementation group D2
  • p.Gln1349Ter Single submitter Fanconi anemia complementation group D2
  • p.Gln223fs Single submitter Fanconi anemia complementation group D2
  • p.Gln264Ter Single submitter
  • p.Gln415Ter Single submitter Fanconi anemia complementation group D2
  • p.Gln418Ter Single submitter Fanconi anemia
  • p.Gln440Ter Single submitter Fanconi anemia complementation group D2
  • p.Gln470Ter Single submitter Fanconi anemia complementation group D2
  • p.Gln544_Asn545insTer Single submitter Fanconi anemia complementation group D2
  • p.Gln597fs Single submitter Fanconi anemia complementation group D2
  • p.Gln640fs Single submitter
  • p.Gln65Ter Single submitter Fanconi anemia complementation group D2
  • p.Gln802fs Single submitter Fanconi anemia complementation group D2
  • p.Glu101fs Single submitter Fanconi anemia complementation group D2
  • p.Glu1153Ter Single submitter FANCD2-related disorders
  • p.Glu237fs Single submitter Fanconi anemia complementation group D2
  • p.Glu622Ter Single submitter Fanconi anemia complementation group D2
  • p.Glu63fs Single submitter Fanconi anemia complementation group D2
  • p.Glu927Ter Single submitter Fanconi anemia complementation group D2
  • p.His86fs Single submitter FANCD2-related disorders
  • p.Ile282fs Single submitter Fanconi anemia complementation group D2
  • p.Leu1367Ter Single submitter Fanconi anemia complementation group D2
  • p.Leu153Ter Single submitter Fanconi anemia complementation group D2
  • p.Leu457Pro Single submitter Fanconi anemia complementation group D2
  • p.Leu649fs Single submitter Fanconi anemia complementation group D2
  • p.Leu826fs Single submitter Fanconi anemia complementation group D2
  • p.Lys378Ter Single submitter Fanconi anemia complementation group D2
  • p.Lys571fs Single submitter FANCD2-related disorders
  • p.Lys865fs Single submitter Fanconi anemia complementation group D2
  • p.Lys873fs Single submitter Fanconi anemia complementation group D2
  • p.Ser130fs Single submitter Fanconi anemia complementation group D2
  • p.Ser250Ter Single submitter FANCD2-related disorders
  • p.Ser352fs Single submitter Fanconi anemia complementation group D2
  • p.Ser619fs Single submitter FANCD2-related disorder
  • p.Ser8Ter Single submitter Fanconi anemia complementation group D2
  • p.Thr833fs Single submitter Fanconi anemia complementation group D2
  • p.Trp1075Ter Single submitter Fanconi anemia complementation group D2
  • p.Tyr103Ter Single submitter Fanconi anemia complementation group D2
  • p.Tyr570Ter Single submitter Fanconi anemia complementation group D2
  • p.Val1052fs Single submitter Fanconi anemia complementation group D2
  • p.Glu14fs No assertion criteria Fanconi anemia complementation group D2
  • p.Phe1073fs No assertion criteria Fanconi anemia complementation group D2

Conflicting classifications of pathogenicity 88

Benign 105

Benign/Likely benign 48

  • c.1135-25G>A Multiple submitters Fanconi anemia complementation group A
  • c.1414-9C>T Multiple submitters Fanconi anemia
  • c.1546-58A>T Multiple submitters hereditary breast ovarian cancer syndrome
  • c.2269+12A>G Multiple submitters Fanconi anemia complementation group D2
  • c.2715+113C>G Multiple submitters hereditary breast ovarian cancer syndrome
  • c.3105+15C>T Multiple submitters hereditary breast ovarian cancer syndrome
  • c.3466+34_3466+36dup Multiple submitters
  • c.3466+35_3466+36del Multiple submitters
  • c.3466+35_3466+36dup Multiple submitters
  • c.3466+36del Multiple submitters
  • c.3466+36dup Multiple submitters
  • c.3560+20C>T Multiple submitters Fanconi anemia complementation group D2
  • c.378-6_378-5del Multiple submitters Fanconi anemia
  • c.3849+13A>G Multiple submitters hereditary breast ovarian cancer syndrome
  • c.3850-15C>T Multiple submitters Fanconi anemia complementation group D2
  • c.4038+8G>A Multiple submitters Fanconi anemia
  • c.4281+115C>A Multiple submitters Fanconi anemia
  • c.4281+270A>G Multiple submitters Fanconi anemia complementation group D2
  • c.439-16A>G Multiple submitters hereditary breast ovarian cancer syndrome
  • c.695+16G>C Multiple submitters hereditary breast ovarian cancer syndrome
  • c.696-138C>T Multiple submitters
  • c.784-19C>T Multiple submitters hereditary breast ovarian cancer syndrome
  • c.-6G>C Multiple submitters hereditary neoplastic syndrome
  • c.*3C>T Multiple submitters
  • p.Ala1149Val Multiple submitters Fanconi anemia
  • p.Arg328Gln Multiple submitters Fanconi anemia
  • p.Asn503= Multiple submitters hereditary breast ovarian cancer syndrome
  • p.Asn545Ser Multiple submitters Fanconi anemia
  • p.Gln1402= Multiple submitters Fanconi anemia
  • p.Gln623Pro Multiple submitters hereditary neoplastic syndrome
  • p.Gln65His Multiple submitters hereditary neoplastic syndrome
  • p.Gln823= Multiple submitters hereditary breast ovarian cancer syndrome
  • p.Gln959= Multiple submitters hereditary breast ovarian cancer syndrome
  • p.Gly901Val Multiple submitters Fanconi anemia
  • p.Leu446Val Multiple submitters Fanconi anemia
  • p.Leu456Arg Multiple submitters Fanconi anemia
  • p.Leu918= Multiple submitters Fanconi anemia complementation group D2
  • p.Lys828= Multiple submitters hereditary breast ovarian cancer syndrome
  • p.Phe386Val Multiple submitters ovarian cancer
  • p.Pro701= Multiple submitters Fanconi anemia
  • p.Pro714Leu Multiple submitters hereditary breast ovarian cancer syndrome
  • p.Ser390= Multiple submitters hereditary breast ovarian cancer syndrome
  • p.Thr193Ala Multiple submitters hereditary neoplastic syndrome
  • p.Thr393= Multiple submitters Fanconi anemia
  • p.Thr467= Multiple submitters Fanconi anemia complementation group D2
  • p.Thr611= Multiple submitters Fanconi anemia
  • p.Thr908Ile Multiple submitters Fanconi anemia
  • p.Val374= Multiple submitters hereditary breast ovarian cancer syndrome

Likely benign 768

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

Uncertain significance 747

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