PRMT9 — 144 ClinVar variants
All ClinVar germline PRMT9 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 107 flagged for review →
19 Pathogenic · 2 Conflicting · 9 Likely benign · 114 Uncertain significance
Full PRMT9 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 107
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 2
ClinVar submitters conflict, but the independent predictors unanimously agree — a QC review flag, not a reclassification.
-
PRMT9 p.Asp258Val
Conflicting
Single submitter
Neurodevelopmental abnormality
-
PRMT9 p.Gly185Glu
Conflicting
Single submitter
Neurodevelopmental abnormality
Predictors lean, ClinVar uncertain 92
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
-
PRMT9 p.Gln382Lys
Uncertain significance
Multiple submitters
Neurodevelopmental abnormality
- PRMT9 p.Ala16Pro Uncertain significance Single submitter
- PRMT9 p.Ala18Thr Uncertain significance Single submitter
- PRMT9 p.Ala288Thr Uncertain significance Single submitter
- PRMT9 p.Ala339Asp Uncertain significance Single submitter
- PRMT9 p.Ala388Gly Uncertain significance Single submitter
- PRMT9 p.Ala388Thr Uncertain significance Single submitter
- PRMT9 p.Ala513Val Uncertain significance Single submitter
- PRMT9 p.Ala55Val Uncertain significance Single submitter
- PRMT9 p.Ala806Pro Uncertain significance Single submitter
- PRMT9 p.Arg616His Uncertain significance Single submitter
- PRMT9 p.Arg719Cys Uncertain significance Single submitter
- PRMT9 p.Arg719His Uncertain significance Single submitter
- PRMT9 p.Arg737His Uncertain significance Single submitter
- PRMT9 p.Arg7Lys Uncertain significance Single submitter
- PRMT9 p.Asn105Asp Uncertain significance Single submitter
- PRMT9 p.Asn158Asp Uncertain significance Single submitter
- PRMT9 p.Asn332Ile Uncertain significance Single submitter
- PRMT9 p.Asn730Ser Uncertain significance Single submitter
- PRMT9 p.Asp418Gly Uncertain significance Single submitter
- PRMT9 p.Asp479His Uncertain significance Single submitter
- PRMT9 p.Cys290Ser Uncertain significance Single submitter
- PRMT9 p.Cys290Tyr Uncertain significance Single submitter
- PRMT9 p.Gln30His Uncertain significance Single submitter
- PRMT9 p.Gln382Glu Uncertain significance Single submitter
- PRMT9 p.Gln467Arg Uncertain significance Single submitter
- PRMT9 p.Gln614Arg Uncertain significance Single submitter
- PRMT9 p.Gln614Glu Uncertain significance Single submitter
- PRMT9 p.Gln67Arg Uncertain significance Single submitter
- PRMT9 p.Gln686Arg Uncertain significance Single submitter
- PRMT9 p.Gln706Glu Uncertain significance Single submitter
-
PRMT9 p.Glu264Asp
Uncertain significance
Single submitter
PRMT9-associated neurodevelopmental disorder
- PRMT9 p.Glu498Gly Uncertain significance Single submitter
- PRMT9 p.Glu631Gln Uncertain significance Single submitter
- PRMT9 p.Gly228Val Uncertain significance Single submitter
- PRMT9 p.Gly473Ser Uncertain significance Single submitter
- PRMT9 p.Gly536Ala Uncertain significance Single submitter
- PRMT9 p.Gly568Glu Uncertain significance Single submitter
- PRMT9 p.His201Tyr Uncertain significance Single submitter
- PRMT9 p.His317Arg Uncertain significance Single submitter
- PRMT9 p.His627Gln Uncertain significance Single submitter
- PRMT9 p.His639Arg Uncertain significance Single submitter
- PRMT9 p.His791Arg Uncertain significance Single submitter
-
PRMT9 p.Ile170Thr
Uncertain significance
Single submitter
PRMT9-associated neurodevelopmental disorder
- PRMT9 p.Ile303Val Uncertain significance Single submitter
- PRMT9 p.Ile349Leu Uncertain significance Single submitter
- PRMT9 p.Ile622Leu Uncertain significance Single submitter
- PRMT9 p.Ile691Thr Uncertain significance Single submitter
- PRMT9 p.Ile725Met Uncertain significance Single submitter
- PRMT9 p.Ile736Leu Uncertain significance Single submitter
- PRMT9 p.Ile748Thr Uncertain significance Single submitter
- PRMT9 p.Leu232Ser Uncertain significance Single submitter
- PRMT9 p.Leu422Phe Uncertain significance Single submitter
- PRMT9 p.Leu594Val Uncertain significance Single submitter
- PRMT9 p.Lys385Glu Uncertain significance Single submitter
- PRMT9 p.Lys448Arg Uncertain significance Single submitter
- PRMT9 p.Met114Val Uncertain significance Single submitter
- PRMT9 p.Met156Ile Uncertain significance Single submitter
- PRMT9 p.Met193Ile Uncertain significance Single submitter
- PRMT9 p.Phe71Leu Uncertain significance Single submitter
- PRMT9 p.Pro281Ser Uncertain significance Single submitter
- PRMT9 p.Pro338Leu Uncertain significance Single submitter
- PRMT9 p.Pro532Ala Uncertain significance Single submitter
- PRMT9 p.Pro629Leu Uncertain significance Single submitter
- PRMT9 p.Pro6His Uncertain significance Single submitter
- PRMT9 p.Ser269Thr Uncertain significance Single submitter
- PRMT9 p.Ser300Thr Uncertain significance Single submitter
- PRMT9 p.Ser342Phe Uncertain significance Single submitter
- PRMT9 p.Ser492Leu Uncertain significance Single submitter
- PRMT9 p.Ser501Asn Uncertain significance Single submitter
- PRMT9 p.Ser652Leu Uncertain significance Single submitter
- PRMT9 p.Ser807Thr Uncertain significance Single submitter
- PRMT9 p.Thr283Asn Uncertain significance Single submitter
- PRMT9 p.Thr389Ala Uncertain significance Single submitter
- PRMT9 p.Thr707Ile Uncertain significance Single submitter
- PRMT9 p.Thr717Ala Uncertain significance Single submitter
-
PRMT9 p.Thr802Ile
Uncertain significance
Single submitter
Neurodevelopmental abnormality
- PRMT9 p.Thr842Ala Uncertain significance Single submitter
- PRMT9 p.Thr842Ile Uncertain significance Single submitter
- PRMT9 p.Thr842Ser Uncertain significance Single submitter
- PRMT9 p.Val203Met Uncertain significance Single submitter
- PRMT9 p.Val436Ile Uncertain significance Single submitter
- PRMT9 p.Val439Ile Uncertain significance Single submitter
- PRMT9 p.Val457Leu Uncertain significance Single submitter
- PRMT9 p.Val544Ala Uncertain significance Single submitter
- PRMT9 p.Val575Ile Uncertain significance Single submitter
- PRMT9 p.Val703Leu Uncertain significance Single submitter
- PRMT9 p.Val714Ile Uncertain significance Single submitter
- PRMT9 p.Val754Ala Uncertain significance Single submitter
- PRMT9 p.Val773Ile Uncertain significance Single submitter
- PRMT9 p.Val777Phe Uncertain significance Single submitter
- PRMT9 p.Val822Ala Uncertain significance Single submitter
Predictors split 13
The independent predictors disagree with each other — read with care.
- PRMT9 p.Thr353Lys Uncertain significance Multiple submitters
- PRMT9 p.Arg21Trp Uncertain significance Single submitter
- PRMT9 p.Asn626Ser Uncertain significance Single submitter
- PRMT9 p.Asp118Ala Uncertain significance Single submitter
- PRMT9 p.Asp238His Uncertain significance Single submitter
- PRMT9 p.Glu139Lys Uncertain significance Single submitter
- PRMT9 p.Glu827Gly Uncertain significance Single submitter
- PRMT9 p.Leu761Ile Uncertain significance Single submitter
- PRMT9 p.Met225Ile Uncertain significance Single submitter
-
PRMT9 p.Phe591Ser
Uncertain significance
Single submitter
Neurodevelopmental abnormality
- PRMT9 p.Pro735Arg Uncertain significance Single submitter
- PRMT9 p.Tyr45Cys Uncertain significance Single submitter
- PRMT9 p.Val584Met Uncertain significance Single submitter
All PRMT9 variants
Pathogenic 19
- c.576-2A>G Single submitter Neurodevelopmental abnormality
- c.(846+1_847-1 Single submitter Neurodevelopmental abnormality
- p.Arg359Ter Single submitter Neurodevelopmental abnormality
- p.Gln382fs Single submitter Neurodevelopmental abnormality
- p.Gln440Ter Single submitter Neurodevelopmental abnormality
- p.Glu139Ter Single submitter Neurodevelopmental abnormality
- p.Gly189Arg Single submitter Neurodevelopmental abnormality
- p.Gly781fs Single submitter Neurodevelopmental abnormality
- p.Ile245fs Single submitter PRMT9-associated neurodevelopmental disorder
- p.Ile786fs Single submitter Neurodevelopmental abnormality
- p.Leu182fs Single submitter Neurodevelopmental abnormality
- p.Leu279fs Single submitter Neurodevelopmental abnormality
- p.Leu36fs Single submitter Neurodevelopmental abnormality
- p.Leu86Ter Single submitter Neurodevelopmental abnormality
- p.Leu87fs Single submitter Neurodevelopmental abnormality
- p.Thr164fs Single submitter Neurodevelopmental abnormality
- p.Trp73Ter Single submitter Neurodevelopmental abnormality
- p.Tyr90Ter Single submitter Neurodevelopmental abnormality
- p.Val640fs Single submitter Neurodevelopmental abnormality
Conflicting classifications of pathogenicity 2
- p.Asp258Val Single submitter Neurodevelopmental abnormality ⚠
- p.Gly185Glu Single submitter Neurodevelopmental abnormality ⚠
Likely benign 9
- c.189+10C>T Single submitter
- c.2045+16A>G Single submitter
- c.744-10C>T Single submitter
- p.Ile519Val Single submitter
- p.Lys179Arg Single submitter
- p.Ser202= Single submitter
- p.Thr234= Single submitter
- p.Val596Ile Single submitter
- p.Val596Leu Single submitter
Uncertain significance 114
- p.Gln382Lys Multiple submitters Neurodevelopmental abnormality ⚠
- p.Thr353Lys Multiple submitters ⚠
- c.576-1G>A Single submitter
- p.Ala16Pro Single submitter ⚠
- p.Ala18Thr Single submitter ⚠
- p.Ala288Thr Single submitter ⚠
- p.Ala339Asp Single submitter ⚠
- p.Ala388Gly Single submitter ⚠
- p.Ala388Thr Single submitter ⚠
- p.Ala513Val Single submitter ⚠
- p.Ala55Val Single submitter ⚠
- p.Ala806Pro Single submitter ⚠
- p.Arg21Trp Single submitter ⚠
- p.Arg616His Single submitter ⚠
- p.Arg719Cys Single submitter ⚠
- p.Arg719His Single submitter ⚠
- p.Arg737His Single submitter ⚠
- p.Arg7Lys Single submitter ⚠
- p.Arg82Trp Single submitter
- p.Asn105Asp Single submitter ⚠
- p.Asn158Asp Single submitter ⚠
- p.Asn158Ser Single submitter Meckel syndrome, type 9
- p.Asn332Ile Single submitter ⚠
- p.Asn626Ser Single submitter ⚠
- p.Asn730Ser Single submitter ⚠
- p.Asp118Ala Single submitter ⚠
- p.Asp238His Single submitter ⚠
- p.Asp418Gly Single submitter ⚠
- p.Asp461Glu Single submitter
- p.Asp479His Single submitter ⚠
- p.Cys290Ser Single submitter ⚠
- p.Cys290Tyr Single submitter ⚠
- p.Cys35Ser Single submitter
- p.Cys518Arg Single submitter
- p.Gln30His Single submitter ⚠
- p.Gln382Glu Single submitter ⚠
- p.Gln467Arg Single submitter ⚠
- p.Gln614Arg Single submitter ⚠
- p.Gln614Glu Single submitter ⚠
- p.Gln67Arg Single submitter ⚠
- p.Gln686Arg Single submitter ⚠
- p.Gln706Glu Single submitter ⚠
- p.Glu139Lys Single submitter ⚠
- p.Glu264Asp Single submitter PRMT9-associated neurodevelopmental disorder ⚠
- p.Glu498Gly Single submitter ⚠
- p.Glu631Gln Single submitter ⚠
- p.Glu827Gly Single submitter ⚠
- p.Gly228Val Single submitter ⚠
- p.Gly473Ser Single submitter ⚠
- p.Gly536Ala Single submitter ⚠
- p.Gly568Glu Single submitter ⚠
- p.His201Tyr Single submitter ⚠
- p.His272Tyr Single submitter
- p.His317Arg Single submitter ⚠
- p.His627Gln Single submitter ⚠
- p.His639Arg Single submitter ⚠
- p.His791Arg Single submitter ⚠
- p.Ile170Thr Single submitter PRMT9-associated neurodevelopmental disorder ⚠
- p.Ile303Val Single submitter ⚠
- p.Ile349Leu Single submitter ⚠
- p.Ile622Leu Single submitter ⚠
- p.Ile691Thr Single submitter ⚠
- p.Ile725Met Single submitter ⚠
- p.Ile736Leu Single submitter ⚠
- p.Ile748Thr Single submitter ⚠
- p.Leu232Ser Single submitter ⚠
- p.Leu422Phe Single submitter ⚠
- p.Leu594Val Single submitter ⚠
- p.Leu761Ile Single submitter ⚠
- p.Lys224fs Single submitter
- p.Lys385Glu Single submitter ⚠
- p.Lys448Arg Single submitter ⚠
- p.Met114Val Single submitter ⚠
- p.Met156Ile Single submitter ⚠
- p.Met193Ile Single submitter ⚠
- p.Met225Ile Single submitter ⚠
- p.Phe591Ser Single submitter Neurodevelopmental abnormality ⚠
- p.Phe71Leu Single submitter ⚠
- p.Pro281Ser Single submitter ⚠
- p.Pro338Leu Single submitter ⚠
- p.Pro532Ala Single submitter ⚠
- p.Pro629Leu Single submitter ⚠
- p.Pro6His Single submitter ⚠
- p.Pro735Arg Single submitter ⚠
- p.Ser269Thr Single submitter ⚠
- p.Ser300Thr Single submitter ⚠
- p.Ser342Phe Single submitter ⚠
- p.Ser492Leu Single submitter ⚠
- p.Ser501Asn Single submitter ⚠
- p.Ser652Leu Single submitter ⚠
- p.Ser807Thr Single submitter ⚠
- p.Thr283Asn Single submitter ⚠
- p.Thr389Ala Single submitter ⚠
- p.Thr707Ile Single submitter ⚠
- p.Thr717Ala Single submitter ⚠
- p.Thr802Ile Single submitter Neurodevelopmental abnormality ⚠
- p.Thr842Ala Single submitter ⚠
- p.Thr842Ile Single submitter ⚠
- p.Thr842Ser Single submitter ⚠
- p.Trp152Ter Single submitter PRMT9-related disorder
- p.Tyr45Cys Single submitter ⚠
- p.Val203Met Single submitter ⚠
- p.Val436Ile Single submitter ⚠
- p.Val439Ile Single submitter ⚠
- p.Val457Leu Single submitter ⚠
- p.Val544Ala Single submitter ⚠
- p.Val575Ile Single submitter ⚠
- p.Val584Met Single submitter ⚠
- p.Val703Leu Single submitter ⚠
- p.Val714Ile Single submitter ⚠
- p.Val754Ala Single submitter ⚠
- p.Val773Ile Single submitter ⚠
- p.Val777Phe Single submitter ⚠
- p.Val822Ala Single submitter ⚠