HDAC9 — 115 ClinVar variants
All ClinVar germline HDAC9 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 83 flagged for review →
11 Benign · 9 Likely benign · 95 Uncertain significance
Full HDAC9 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 83
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 lean, ClinVar uncertain 58
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
- HDAC9 p.Ala339Ser Uncertain significance Single submitter
- HDAC9 p.Ala346Thr Uncertain significance Single submitter
- HDAC9 p.Ala346Val Uncertain significance Single submitter
- HDAC9 p.Ala593Gly Uncertain significance Single submitter
- HDAC9 p.Ala625Ser Uncertain significance Single submitter
- HDAC9 p.Ala625Val Uncertain significance Single submitter
- HDAC9 p.Ala635Val Uncertain significance Single submitter
- HDAC9 p.Ala753Thr Uncertain significance Single submitter
- HDAC9 p.Arg123Thr Uncertain significance Single submitter
- HDAC9 p.Arg445His Uncertain significance Single submitter
- HDAC9 p.Arg451Gln Uncertain significance Single submitter
- HDAC9 p.Asp558Glu Uncertain significance Single submitter
- HDAC9 p.Asp810Glu Uncertain significance Single submitter
- HDAC9 p.Asp960Tyr Uncertain significance Single submitter
- HDAC9 p.Gln469Glu Uncertain significance Single submitter
- HDAC9 p.Gln726Pro Uncertain significance Single submitter
- HDAC9 p.Glu304Lys Uncertain significance Single submitter
- HDAC9 p.Glu567Gln Uncertain significance Single submitter
- HDAC9 p.Gly277Cys Uncertain significance Single submitter
- HDAC9 p.Gly633Ala Uncertain significance Single submitter
- HDAC9 p.His121Arg Uncertain significance Single submitter
- HDAC9 p.His175Arg Uncertain significance Single submitter
- HDAC9 p.His584Tyr Uncertain significance Single submitter
- HDAC9 p.His657Arg Uncertain significance Single submitter
- HDAC9 p.His749Pro Uncertain significance Single submitter
- HDAC9 p.Ile312Thr Uncertain significance Single submitter
- HDAC9 p.Ile5Met Uncertain significance Single submitter
- HDAC9 p.Ile96Val Uncertain significance Single submitter
- HDAC9 p.Leu361His Uncertain significance Single submitter
- HDAC9 p.Leu505Pro Uncertain significance Single submitter
- HDAC9 p.Leu595Val Uncertain significance Single submitter
- HDAC9 p.Leu671Pro Uncertain significance Single submitter
- HDAC9 p.Leu867Val Uncertain significance Single submitter
- HDAC9 p.Lys351Ile Uncertain significance Single submitter
- HDAC9 p.Lys353Arg Uncertain significance Single submitter
- HDAC9 p.Met319Val Uncertain significance Single submitter
- HDAC9 p.Met626Lys Uncertain significance Single submitter
- HDAC9 p.Phe728Ser Uncertain significance Single submitter
- HDAC9 p.Pro285Gln Uncertain significance Single submitter
- HDAC9 p.Pro298Leu Uncertain significance Single submitter
- HDAC9 p.Pro328Ser Uncertain significance Single submitter
- HDAC9 p.Pro382Ala Uncertain significance Single submitter
- HDAC9 p.Pro717Ala Uncertain significance Single submitter
- HDAC9 p.Ser434Ala Uncertain significance Single submitter
- HDAC9 p.Ser634Phe Uncertain significance Single submitter
- HDAC9 p.Thr160Met Uncertain significance Single submitter
- HDAC9 p.Thr163Ala Uncertain significance Single submitter
- HDAC9 p.Thr205Pro Uncertain significance Single submitter
- HDAC9 p.Thr286Ser Uncertain significance Single submitter
- HDAC9 p.Thr358Met Uncertain significance Single submitter
- HDAC9 p.Thr360Met Uncertain significance Single submitter
- HDAC9 p.Thr707Ser Uncertain significance Single submitter
- HDAC9 p.Thr923Ile Uncertain significance Single submitter
- HDAC9 p.Val36Met Uncertain significance Single submitter
- HDAC9 p.Val545Gly Uncertain significance Single submitter
- HDAC9 p.Val609Leu Uncertain significance Single submitter
- HDAC9 p.Val620Leu Uncertain significance Single submitter
- HDAC9 p.Val952Ala Uncertain significance Single submitter
Predictors split 25
The independent predictors disagree with each other — read with care.
- HDAC9 p.Ala140Ser Uncertain significance Single submitter
- HDAC9 p.Ala238Thr Uncertain significance Single submitter
- HDAC9 p.Ala947Gly Uncertain significance Single submitter
- HDAC9 p.Arg122His Uncertain significance Single submitter
- HDAC9 p.Arg42His Uncertain significance Single submitter
- HDAC9 p.Arg950His Likely benign Single submitter
- HDAC9 p.Asn488Lys Uncertain significance Single submitter
- HDAC9 p.Asn813His Uncertain significance Single submitter
- HDAC9 p.Asn978Ser Uncertain significance Single submitter
- HDAC9 p.Asp214Gly Uncertain significance Single submitter
- HDAC9 p.Asp558Val Uncertain significance Single submitter
- HDAC9 p.Asp908Gly Uncertain significance Single submitter
- HDAC9 p.Gln665Arg Uncertain significance Single submitter
- HDAC9 p.Gln84Glu Uncertain significance Single submitter
- HDAC9 p.Glu699Gln Uncertain significance Single submitter
- HDAC9 p.Glu763Lys Uncertain significance Single submitter
- HDAC9 p.Ile693Val Uncertain significance Single submitter
- HDAC9 p.Leu427Phe Uncertain significance Single submitter
- HDAC9 p.Leu720His Uncertain significance Single submitter
- HDAC9 p.Lys105Asn Uncertain significance Single submitter
- HDAC9 p.Lys177Asn Uncertain significance Single submitter
- HDAC9 p.Lys258Asn Uncertain significance Single submitter
- HDAC9 p.Thr28Ala Uncertain significance Single submitter
- HDAC9 p.Thr940Met Uncertain significance Single submitter
- HDAC9 p.Ser751Cys Uncertain significance No assertion criteria
All HDAC9 variants
Benign 11
- p.Pro390= Multiple submitters
- c.1467+8249G>A Single submitter
- c.1910-4A>G Single submitter
- c.2379-5C>T Single submitter
- c.3022+17C>T Single submitter
- c.3023-91A>C Single submitter
- c.542+10G>A Single submitter
- p.Ile1004Thr Single submitter
- p.Lys727= Single submitter
- p.Pro624= Single submitter
- p.Thr583Lys Single submitter
Likely benign 9
- c.1467+6086C>T Single submitter
- c.26-37401A>G Single submitter
- p.Arg950His Single submitter ⚠
- p.Cys1023Ser Single submitter
- p.Gly652= Single submitter
- p.Ile762= Single submitter
- p.Pro338= Single submitter
- p.Pro376= Single submitter
- p.Thr165Ser Single submitter
Uncertain significance 95
- c.1910-2A>G Single submitter
- c.416-40TG[17] Single submitter
- p.Ala1028Val Single submitter
- p.Ala1068Val Single submitter
- p.Ala140Ser Single submitter ⚠
- p.Ala238Thr Single submitter ⚠
- p.Ala339Ser Single submitter ⚠
- p.Ala346Thr Single submitter ⚠
- p.Ala346Val Single submitter ⚠
- p.Ala593Gly Single submitter ⚠
- p.Ala625Ser Single submitter ⚠
- p.Ala625Val Single submitter ⚠
- p.Ala635Val Single submitter ⚠
- p.Ala753Thr Single submitter ⚠
- p.Ala947Gly Single submitter ⚠
- p.Arg1021Lys Single submitter
- p.Arg122His Single submitter ⚠
- p.Arg123Thr Single submitter ⚠
- p.Arg42His Single submitter ⚠
- p.Arg445His Single submitter ⚠
- p.Arg451Gln Single submitter ⚠
- p.Asn488Lys Single submitter ⚠
- p.Asn813His Single submitter ⚠
- p.Asn978Ser Single submitter ⚠
- p.Asp214Gly Single submitter ⚠
- p.Asp558Glu Single submitter ⚠
- p.Asp558Val Single submitter ⚠
- p.Asp810Glu Single submitter ⚠
- p.Asp908Gly Single submitter ⚠
- p.Asp960Tyr Single submitter ⚠
- p.Gln469Glu Single submitter ⚠
- p.Gln665Arg Single submitter ⚠
- p.Gln726Pro Single submitter ⚠
- p.Gln84Glu Single submitter ⚠
- p.Glu1065Asp Single submitter
- p.Glu304Lys Single submitter ⚠
- p.Glu567Gln Single submitter ⚠
- p.Glu699Gln Single submitter ⚠
- p.Glu763Lys Single submitter ⚠
- p.Gly277Cys Single submitter ⚠
- p.Gly633Ala Single submitter ⚠
- p.His121Arg Single submitter ⚠
- p.His175Arg Single submitter ⚠
- p.His584Tyr Single submitter ⚠
- p.His657Arg Single submitter ⚠
- p.His749Pro Single submitter ⚠
- p.Ile312Thr Single submitter ⚠
- p.Ile5Met Single submitter ⚠
- p.Ile693Val Single submitter ⚠
- p.Ile96Val Single submitter ⚠
- p.Leu1025Pro Single submitter
- p.Leu1030Val Single submitter
- p.Leu361His Single submitter ⚠
- p.Leu427Phe Single submitter ⚠
- p.Leu505Pro Single submitter ⚠
- p.Leu595Val Single submitter ⚠
- p.Leu671Pro Single submitter ⚠
- p.Leu720His Single submitter ⚠
- p.Leu867Val Single submitter ⚠
- p.Lys1012Arg Single submitter
- p.Lys105Asn Single submitter ⚠
- p.Lys177Asn Single submitter ⚠
- p.Lys258Asn Single submitter ⚠
- p.Lys351Ile Single submitter ⚠
- p.Lys353Arg Single submitter ⚠
- p.Met1Thr Single submitter syndromic intellectual disability
- p.Met319Val Single submitter ⚠
- p.Met626Lys Single submitter ⚠
- p.Phe728Ser Single submitter ⚠
- p.Pro1062Ser Single submitter
- p.Pro285Gln Single submitter ⚠
- p.Pro298Leu Single submitter ⚠
- p.Pro328Ser Single submitter ⚠
- p.Pro382Ala Single submitter ⚠
- p.Pro717Ala Single submitter ⚠
- p.Ser1056Arg Single submitter
- p.Ser434Ala Single submitter ⚠
- p.Ser634Phe Single submitter ⚠
- p.Thr160Met Single submitter ⚠
- p.Thr163Ala Single submitter ⚠
- p.Thr205Pro Single submitter ⚠
- p.Thr286Ser Single submitter ⚠
- p.Thr28Ala Single submitter ⚠
- p.Thr358Met Single submitter ⚠
- p.Thr360Met Single submitter ⚠
- p.Thr707Ser Single submitter ⚠
- p.Thr923Ile Single submitter ⚠
- p.Thr940Met Single submitter ⚠
- p.Val1019Met Single submitter
- p.Val36Met Single submitter ⚠
- p.Val545Gly Single submitter ⚠
- p.Val609Leu Single submitter ⚠
- p.Val620Leu Single submitter ⚠
- p.Val952Ala Single submitter ⚠
- p.Ser751Cys No assertion criteria ⚠