LIG4 — 786 ClinVar variants

All ClinVar germline LIG4 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 351 flagged for review →

77 Pathogenic · 14 Pathogenic/Likely pathogenic · 17 Likely pathogenic · 38 Conflicting · 20 Benign · 10 Benign/Likely benign · 241 Likely benign · 369 Uncertain significance

Full LIG4 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 351

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 23

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

Predictors lean, ClinVar uncertain 254

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 254

Predictors split 74

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

All LIG4 variants

Pathogenic 77

Pathogenic/Likely pathogenic 14

  • p.Arg293Ter Multiple submitters DNA ligase IV deficiency
  • p.Arg580Ter Multiple submitters DNA ligase IV deficiency
  • p.Arg814Ter Multiple submitters prenatal LIG4 syndrome with aqueductal stenosis
  • p.Asn294fs Multiple submitters plasma cell myeloma
  • p.Gln200fs Multiple submitters DNA ligase IV deficiency
  • p.Gln74Ter Multiple submitters DNA ligase IV deficiency
  • p.Gln773Ter Multiple submitters DNA ligase IV deficiency
  • p.Glu582fs Multiple submitters DNA ligase IV deficiency
  • p.His862fs Multiple submitters DNA ligase IV deficiency
  • p.Leu242fs Multiple submitters plasma cell myeloma
  • p.Leu382fs Multiple submitters DNA ligase IV deficiency
  • p.Ser267fs Multiple submitters DNA ligase IV deficiency
  • p.Trp46Ter Multiple submitters DNA ligase IV deficiency
  • p.Tyr698Ter Multiple submitters LIG4-related disorder

Likely pathogenic 17

Conflicting classifications of pathogenicity 38

Benign 20

  • c.-101-172C>T Multiple submitters severe combined immunodeficiency due to DCLRE1C deficiency
  • c.-28-37T>C Multiple submitters
  • c.*1035G>A Multiple submitters DNA ligase IV deficiency
  • c.*129A>G Multiple submitters DNA ligase IV deficiency
  • c.*131A>T Multiple submitters DNA ligase IV deficiency
  • c.*204A>G Multiple submitters DNA ligase IV deficiency
  • c.*677A>G Multiple submitters DNA ligase IV deficiency
  • p.Asp568= Multiple submitters DNA ligase IV deficiency
  • p.Ile658Val Multiple submitters DNA ligase IV deficiency
  • p.Leu171= Multiple submitters DNA ligase IV deficiency
  • p.Ser305= Multiple submitters DNA ligase IV deficiency
  • p.Tyr269= Multiple submitters DNA ligase IV deficiency
  • c.-101-95G>A Single submitter severe combined immunodeficiency due to DCLRE1C deficiency
  • c.-28-123dup Single submitter
  • c.-28-294C>T Single submitter
  • c.*1081C>T Single submitter DNA ligase IV deficiency
  • c.*685T>C Single submitter severe combined immunodeficiency due to DCLRE1C deficiency
  • c.*826A>T Single submitter DNA ligase IV deficiency
  • c.*983G>A Single submitter DNA ligase IV deficiency
  • p.Ser12Thr Single submitter DNA ligase IV deficiency

Benign/Likely benign 10

  • c.-7C>T Multiple submitters DNA ligase IV deficiency
  • c.*104C>G Multiple submitters DNA ligase IV deficiency
  • c.*3del Multiple submitters DNA ligase IV deficiency
  • c.*54G>A Multiple submitters DNA ligase IV deficiency
  • p.Ala3Val Multiple submitters DNA ligase IV deficiency
  • p.Ala857Thr Multiple submitters DNA ligase IV deficiency
  • p.Glu600Lys Multiple submitters DNA ligase IV deficiency
  • p.Pro491= Multiple submitters DNA ligase IV deficiency
  • p.Thr9Ile Multiple submitters DNA ligase IV deficiency
  • p.Val60= Multiple submitters severe combined immunodeficiency due to DCLRE1C deficiency

Likely benign 241

  • p.Ala562= Multiple submitters DNA ligase IV deficiency
  • p.Ala631Thr Multiple submitters DNA ligase IV deficiency
  • p.Arg505= Multiple submitters DNA ligase IV deficiency
  • p.Asn149= Multiple submitters DNA ligase IV deficiency
  • p.Asn651= Multiple submitters DNA ligase IV deficiency
  • p.Asn785= Multiple submitters DNA ligase IV deficiency
  • p.Ile840Val Multiple submitters DNA ligase IV deficiency
  • p.Leu503= Multiple submitters DNA ligase IV deficiency
  • p.Leu520= Multiple submitters DNA ligase IV deficiency
  • p.Leu70= Multiple submitters DNA ligase IV deficiency
  • p.Lys885= Multiple submitters DNA ligase IV deficiency
  • p.Pro313= Multiple submitters DNA ligase IV deficiency
  • p.Ser567= Multiple submitters DNA ligase IV deficiency
  • p.Ser734= Multiple submitters DNA ligase IV deficiency
  • p.Thr697= Multiple submitters DNA ligase IV deficiency
  • p.Tyr288= Multiple submitters DNA ligase IV deficiency
  • p.Val547= Multiple submitters DNA ligase IV deficiency
  • c.-101-31A>G Single submitter severe combined immunodeficiency due to DCLRE1C deficiency
  • c.-29+15T>G Single submitter DNA ligase IV deficiency
  • c.*34T>G Single submitter DNA ligase IV deficiency
  • c.*614A>C Single submitter DNA ligase IV deficiency
  • p.Ala11= Single submitter DNA ligase IV deficiency
  • p.Ala129= Single submitter DNA ligase IV deficiency
  • p.Ala161= Single submitter DNA ligase IV deficiency
  • p.Ala245= Single submitter DNA ligase IV deficiency
  • p.Ala251= Single submitter DNA ligase IV deficiency
  • p.Ala408= Single submitter DNA ligase IV deficiency
  • p.Ala417= Single submitter DNA ligase IV deficiency
  • p.Ala421= Single submitter DNA ligase IV deficiency
  • p.Ala486= Single submitter DNA ligase IV deficiency
  • p.Ala523= Single submitter DNA ligase IV deficiency
  • p.Ala631= Single submitter DNA ligase IV deficiency
  • p.Ala683= Single submitter DNA ligase IV deficiency
  • p.Ala724= Single submitter DNA ligase IV deficiency
  • p.Ala81= Single submitter DNA ligase IV deficiency
  • p.Ala839= Single submitter DNA ligase IV deficiency
  • p.Arg136= Single submitter DNA ligase IV deficiency
  • p.Arg163Ser Single submitter DNA ligase IV deficiency
  • p.Arg226= Single submitter DNA ligase IV deficiency
  • p.Arg25= Single submitter DNA ligase IV deficiency
  • p.Arg278= Single submitter DNA ligase IV deficiency
  • p.Arg293= Single submitter DNA ligase IV deficiency
  • p.Arg353= Single submitter DNA ligase IV deficiency
  • p.Arg385= Single submitter DNA ligase IV deficiency
  • p.Arg443= Single submitter DNA ligase IV deficiency
  • p.Arg476= Single submitter DNA ligase IV deficiency
  • p.Arg580= Single submitter DNA ligase IV deficiency
  • p.Arg585= Single submitter DNA ligase IV deficiency
  • p.Arg603= Single submitter DNA ligase IV deficiency
  • p.Arg628= Single submitter DNA ligase IV deficiency
  • p.Arg79= Single submitter DNA ligase IV deficiency
  • p.Arg802= Single submitter DNA ligase IV deficiency
  • p.Arg814= Single submitter DNA ligase IV deficiency
  • p.Arg815= Single submitter DNA ligase IV deficiency
  • p.Arg837= Single submitter
  • p.Arg884= Single submitter DNA ligase IV deficiency
  • p.Asn158= Single submitter DNA ligase IV deficiency
  • p.Asn297= Single submitter DNA ligase IV deficiency
  • p.Asn374= Single submitter DNA ligase IV deficiency
  • p.Asn680= Single submitter DNA ligase IV deficiency
  • p.Asn706= Single submitter DNA ligase IV deficiency
  • p.Asn772= Single submitter DNA ligase IV deficiency
  • p.Asp102= Single submitter
  • p.Asp150= Single submitter DNA ligase IV deficiency
  • p.Asp153= Single submitter DNA ligase IV deficiency
  • p.Asp237= Single submitter DNA ligase IV deficiency
  • p.Asp423= Single submitter DNA ligase IV deficiency
  • p.Asp597= Single submitter DNA ligase IV deficiency
  • p.Asp671= Single submitter DNA ligase IV deficiency
  • p.Asp677= Single submitter DNA ligase IV deficiency
  • p.Asp719= Single submitter DNA ligase IV deficiency
  • p.Asp763= Single submitter DNA ligase IV deficiency
  • p.Asp770= Single submitter DNA ligase IV deficiency
  • p.Cys137= Single submitter DNA ligase IV deficiency
  • p.Cys225= Single submitter DNA ligase IV deficiency
  • p.Cys363= Single submitter DNA ligase IV deficiency
  • p.Cys365= Single submitter DNA ligase IV deficiency
  • p.Cys552= Single submitter DNA ligase IV deficiency
  • p.Cys574= Single submitter DNA ligase IV deficiency
  • p.Cys901= Single submitter DNA ligase IV deficiency
  • p.Gln146= Single submitter DNA ligase IV deficiency
  • p.Gln173= Single submitter DNA ligase IV deficiency
  • p.Gln201= Single submitter DNA ligase IV deficiency
  • p.Gln280= Single submitter DNA ligase IV deficiency
  • p.Gln344= Single submitter DNA ligase IV deficiency
  • p.Gln773= Single submitter DNA ligase IV deficiency
  • p.Gln8= Single submitter DNA ligase IV deficiency
  • p.Gln904= Single submitter DNA ligase IV deficiency
  • p.Glu222= Single submitter DNA ligase IV deficiency
  • p.Glu257= Single submitter DNA ligase IV deficiency
  • p.Glu420= Single submitter DNA ligase IV deficiency
  • p.Glu453= Single submitter DNA ligase IV deficiency
  • p.Glu563= Single submitter DNA ligase IV deficiency
  • p.Glu589= Single submitter DNA ligase IV deficiency
  • p.Glu600= Single submitter DNA ligase IV deficiency
  • p.Glu705Lys Single submitter Inborn genetic diseases
  • p.Glu905= Single submitter DNA ligase IV deficiency
  • p.Gly120= Single submitter DNA ligase IV deficiency
  • p.Gly295= Single submitter DNA ligase IV deficiency
  • p.Gly31= Single submitter DNA ligase IV deficiency
  • p.Gly378= Single submitter DNA ligase IV deficiency
  • p.Gly469= Single submitter DNA ligase IV deficiency
  • p.Gly474= Single submitter DNA ligase IV deficiency
  • p.Gly494= Single submitter DNA ligase IV deficiency
  • p.Gly541= Single submitter DNA ligase IV deficiency
  • p.Gly619= Single submitter DNA ligase IV deficiency
  • p.Gly780= Single submitter DNA ligase IV deficiency
  • p.Gly835= Single submitter DNA ligase IV deficiency
  • p.His13= Single submitter DNA ligase IV deficiency
  • p.His316= Single submitter DNA ligase IV deficiency
  • p.His50= Single submitter DNA ligase IV deficiency
  • p.His501= Single submitter DNA ligase IV deficiency
  • p.His530Arg Single submitter DNA ligase IV deficiency
  • p.His614= Single submitter DNA ligase IV deficiency
  • p.His816= Single submitter DNA ligase IV deficiency
  • p.Ile190= Single submitter DNA ligase IV deficiency
  • p.Ile238= Single submitter DNA ligase IV deficiency
  • p.Ile240= Single submitter DNA ligase IV deficiency
  • p.Ile415= Single submitter DNA ligase IV deficiency
  • p.Ile437= Single submitter DNA ligase IV deficiency
  • p.Ile464= Single submitter DNA ligase IV deficiency
  • p.Ile564= Single submitter DNA ligase IV deficiency
  • p.Ile640= Single submitter DNA ligase IV deficiency
  • p.Ile689= Single submitter DNA ligase IV deficiency
  • p.Ile796= Single submitter DNA ligase IV deficiency
  • p.Ile840= Single submitter DNA ligase IV deficiency
  • p.Ile865= Single submitter DNA ligase IV deficiency
  • p.Leu107= Single submitter DNA ligase IV deficiency
  • p.Leu133= Single submitter DNA ligase IV deficiency
  • p.Leu166= Single submitter DNA ligase IV deficiency
  • p.Leu194= Single submitter DNA ligase IV deficiency
  • p.Leu221= Single submitter DNA ligase IV deficiency
  • p.Leu228= Single submitter DNA ligase IV deficiency
  • p.Leu242= Single submitter DNA ligase IV deficiency
  • p.Leu250= Single submitter DNA ligase IV deficiency
  • p.Leu370= Single submitter DNA ligase IV deficiency
  • p.Leu382= Single submitter DNA ligase IV deficiency
  • p.Leu435= Single submitter DNA ligase IV deficiency
  • p.Leu462= Single submitter DNA ligase IV deficiency
  • p.Leu515= Single submitter DNA ligase IV deficiency
  • p.Leu522= Single submitter DNA ligase IV deficiency
  • p.Leu599= Single submitter DNA ligase IV deficiency
  • p.Leu774= Single submitter DNA ligase IV deficiency
  • p.Leu810= Single submitter DNA ligase IV deficiency
  • p.Leu829= Single submitter DNA ligase IV deficiency
  • p.Leu843= Single submitter DNA ligase IV deficiency
  • p.Leu889= Single submitter DNA ligase IV deficiency
  • p.Leu96= Single submitter DNA ligase IV deficiency
  • p.Lys169= Single submitter DNA ligase IV deficiency
  • p.Lys195= Single submitter DNA ligase IV deficiency
  • p.Lys247= Single submitter DNA ligase IV deficiency
  • p.Lys273= Single submitter DNA ligase IV deficiency
  • p.Lys345= Single submitter DNA ligase IV deficiency
  • p.Lys376= Single submitter DNA ligase IV deficiency
  • p.Lys405= Single submitter DNA ligase IV deficiency
  • p.Lys439= Single submitter DNA ligase IV deficiency
  • p.Lys442= Single submitter DNA ligase IV deficiency
  • p.Lys449= Single submitter DNA ligase IV deficiency
  • p.Lys451= Single submitter DNA ligase IV deficiency
  • p.Lys521= Single submitter DNA ligase IV deficiency
  • p.Lys58= Single submitter DNA ligase IV deficiency
  • p.Lys722= Single submitter DNA ligase IV deficiency
  • p.Lys900= Single submitter DNA ligase IV deficiency
  • p.Phe204= Single submitter DNA ligase IV deficiency
  • p.Phe268= Single submitter DNA ligase IV deficiency
  • p.Phe302= Single submitter DNA ligase IV deficiency
  • p.Phe342= Single submitter DNA ligase IV deficiency
  • p.Phe664= Single submitter DNA ligase IV deficiency
  • p.Phe778= Single submitter DNA ligase IV deficiency
  • p.Phe847= Single submitter DNA ligase IV deficiency
  • p.Pro397= Single submitter DNA ligase IV deficiency
  • p.Pro440= Single submitter DNA ligase IV deficiency
  • p.Pro493= Single submitter DNA ligase IV deficiency
  • p.Pro497= Single submitter DNA ligase IV deficiency
  • p.Pro535= Single submitter DNA ligase IV deficiency
  • p.Pro551= Single submitter DNA ligase IV deficiency
  • p.Pro623= Single submitter DNA ligase IV deficiency
  • p.Pro676= Single submitter DNA ligase IV deficiency
  • p.Pro723= Single submitter DNA ligase IV deficiency
  • p.Pro73= Single submitter DNA ligase IV deficiency
  • p.Pro748= Single submitter DNA ligase IV deficiency
  • p.Pro809= Single submitter DNA ligase IV deficiency
  • p.Ser160= Single submitter DNA ligase IV deficiency
  • p.Ser170= Single submitter DNA ligase IV deficiency
  • p.Ser205= Single submitter DNA ligase IV deficiency
  • p.Ser236= Single submitter DNA ligase IV deficiency
  • p.Ser239= Single submitter DNA ligase IV deficiency
  • p.Ser456= Single submitter DNA ligase IV deficiency
  • p.Ser537= Single submitter DNA ligase IV deficiency
  • p.Ser612= Single submitter DNA ligase IV deficiency
  • p.Ser63= Single submitter DNA ligase IV deficiency
  • p.Ser715= Single submitter
  • p.Ser764= Single submitter DNA ligase IV deficiency
  • p.Ser804= Single submitter DNA ligase IV deficiency
  • p.Ser808= Single submitter DNA ligase IV deficiency
  • p.Ser822= Single submitter DNA ligase IV deficiency
  • p.Ser870= Single submitter DNA ligase IV deficiency
  • p.Ser892= Single submitter DNA ligase IV deficiency
  • p.Ter912= Single submitter DNA ligase IV deficiency
  • p.Thr218= Single submitter DNA ligase IV deficiency
  • p.Thr299= Single submitter DNA ligase IV deficiency
  • p.Thr312= Single submitter DNA ligase IV deficiency
  • p.Thr339= Single submitter DNA ligase IV deficiency
  • p.Thr341= Single submitter DNA ligase IV deficiency
  • p.Thr406= Single submitter DNA ligase IV deficiency
  • p.Thr750= Single submitter DNA ligase IV deficiency
  • p.Thr817= Single submitter DNA ligase IV deficiency
  • p.Thr87= Single submitter DNA ligase IV deficiency
  • p.Thr881= Single submitter DNA ligase IV deficiency
  • p.Thr9= Single submitter DNA ligase IV deficiency
  • p.Tyr298= Single submitter DNA ligase IV deficiency
  • p.Tyr335= Single submitter DNA ligase IV deficiency
  • p.Tyr364= Single submitter DNA ligase IV deficiency
  • p.Tyr438= Single submitter DNA ligase IV deficiency
  • p.Tyr525= Single submitter DNA ligase IV deficiency
  • p.Tyr65= Single submitter DNA ligase IV deficiency
  • p.Tyr761= Single submitter DNA ligase IV deficiency
  • p.Tyr765= Single submitter DNA ligase IV deficiency
  • p.Tyr803= Single submitter DNA ligase IV deficiency
  • p.Tyr82= Single submitter DNA ligase IV deficiency
  • p.Tyr93= Single submitter DNA ligase IV deficiency
  • p.Val217= Single submitter DNA ligase IV deficiency
  • p.Val224= Single submitter DNA ligase IV deficiency
  • p.Val287= Single submitter DNA ligase IV deficiency
  • p.Val355= Single submitter DNA ligase IV deficiency
  • p.Val369= Single submitter DNA ligase IV deficiency
  • p.Val403= Single submitter DNA ligase IV deficiency
  • p.Val431= Single submitter DNA ligase IV deficiency
  • p.Val555= Single submitter DNA ligase IV deficiency
  • p.Val557= Single submitter DNA ligase IV deficiency
  • p.Val637= Single submitter DNA ligase IV deficiency
  • p.Val666= Single submitter DNA ligase IV deficiency
  • p.Val690= Single submitter DNA ligase IV deficiency
  • p.Val721= Single submitter DNA ligase IV deficiency
  • p.Val777= Single submitter DNA ligase IV deficiency
  • p.Val852= Single submitter DNA ligase IV deficiency
  • p.Val860= Single submitter DNA ligase IV deficiency
  • c.-37C>G No assertion criteria LIG4-related disorder
  • p.Asn209= No assertion criteria LIG4-related disorder
  • p.His229= No assertion criteria LIG4-related disorder
  • p.Ile767Val No assertion criteria DNA ligase IV deficiency

Uncertain significance 369

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