Variants with conflicting interpretations studied for Cholestanol storage disease

Minimum review status of the submission for Cholestanol storage disease:		Collection method of the submission for Cholestanol storage disease:
Minimum review status of the other submission:		Collection method of the other submission:
Minimum conflict level: Report conflict between different conditions
Show significances as they were submitted (without aggregation into standard terms)
		ClinVar version:

If a variant has more than two submissions, it may have multiple conflicts and therefore be counted in more than one conflict column. If this is the case, the "Variants with any kind of conflict" cell will be less than the sum of the conflicted variants cells to its left.

Variants with only 1 submission per condition	Variants with at least 2 submissions on the same condition and no conflicts	Variants with a synonymous conflict (e.g. benign vs non-pathogenic)	Variants with a confidence conflict (e.g. benign vs likely benign)	Variants with a benign or likely benign vs uncertain conflict	Variants with a category conflict (e.g. benign vs affects)	Variants with a clinically significant conflict (e.g. benign vs pathogenic)	Variants with any conflict
844	72	37	68	28	0	15	121

Significance breakdown #

In the table below, cells that correspond to a term paired with itself represent synonymous conflicts, i.e. variants that have been annotated with different terms that map to the same standard term. To compare the terms that were actually submitted, check the box in the filters section at the top of this page.

	All conditions
Cholestanol storage disease		pathogenic	likely pathogenic	uncertain significance	likely benign	benign
	pathogenic	36	56	8	1	1
	likely pathogenic	56	0	14	0	0
	uncertain significance	8	14	0	25	6
	likely benign	1	0	25	0	12
	benign	1	0	6	12	1

Condition to condition summary #

Total conditions: 1

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Condition	Variants with only 1 submission per condition	Variants with at least 2 submissions on the same condition and no conflicts	Variants with a synonymous conflict (e.g. benign vs non-pathogenic)	Variants with a confidence conflict (e.g. benign vs likely benign)	Variants with a benign or likely benign vs uncertain conflict	Variants with a category conflict (e.g. benign vs affects)	Variants with a clinically significant conflict (e.g. benign vs pathogenic)	Variants with any conflict
Cholestanol storage disease	844	72	37	68	28	0	15	121

All variants with conflicting interpretations #

Total variants: 121

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HGVS	dbSNP	gnomAD frequency
NM_000784.4(CYP27A1):c.438G>A (p.Pro146=)	rs692003	0.06494
NM_000784.4(CYP27A1):c.888A>G (p.Gln296=)	rs61733619	0.01643
NM_000784.4(CYP27A1):c.1151C>T (p.Pro384Leu)	rs41272687	0.01478
NM_000784.4(CYP27A1):c.-6C>T	rs199891090	0.00673
NM_000784.4(CYP27A1):c.921G>A (p.Val307=)	rs147975335	0.00559
NM_000784.4(CYP27A1):c.524C>T (p.Thr175Met)	rs2229381	0.00498
NM_000784.4(CYP27A1):c.243G>A (p.Leu81=)	rs75897848	0.00225
NM_000784.4(CYP27A1):c.646+4C>T	rs191313794	0.00105
NM_000784.4(CYP27A1):c.703G>A (p.Glu235Lys)	rs149897566	0.00083
NM_000784.4(CYP27A1):c.276C>T (p.Tyr92=)	rs141519183	0.00053
NM_000784.4(CYP27A1):c.1419C>T (p.Val473=)	rs138596741	0.00037
NM_000784.4(CYP27A1):c.1183C>T (p.Arg395Cys)	rs121908096	0.00031
NM_000784.4(CYP27A1):c.789C>T (p.Pro263=)	rs143600636	0.00019
NM_000784.4(CYP27A1):c.1184+9G>T	rs200457116	0.00016
NM_000784.4(CYP27A1):c.504A>T (p.Pro168=)	rs142623022	0.00016
NM_000784.4(CYP27A1):c.1016C>T (p.Thr339Met)	rs121908102	0.00013
NM_000784.4(CYP27A1):c.578G>A (p.Arg193Gln)	rs181649030	0.00012
NM_000784.4(CYP27A1):c.1184G>A (p.Arg395His)	rs587778778	0.00011
NM_000784.4(CYP27A1):c.1017G>A (p.Thr339=)	rs200553205	0.00010
NM_000784.4(CYP27A1):c.256G>A (p.Val86Met)	rs200604732	0.00010
NM_000784.4(CYP27A1):c.379C>T (p.Arg127Trp)	rs201114717	0.00010
NM_000784.4(CYP27A1):c.792G>A (p.Val264=)	rs144018609	0.00010
NM_000784.4(CYP27A1):c.1184+1G>A	rs587778777	0.00009
NM_000784.4(CYP27A1):c.1114G>A (p.Gly372Arg)	rs369969903	0.00007
NM_000784.4(CYP27A1):c.702C>T (p.Pro234=)	rs371636461	0.00007
NM_000784.4(CYP27A1):c.536A>G (p.Asn179Ser)	rs145080072	0.00006
NM_000784.4(CYP27A1):c.712G>A (p.Val238Met)	rs199691576	0.00006
NM_000784.4(CYP27A1):c.490C>T (p.Arg164Trp)	rs61733615	0.00005
NM_000784.4(CYP27A1):c.1025A>G (p.Asn342Ser)	rs778458082	0.00004
NM_000784.4(CYP27A1):c.410G>A (p.Arg137Gln)	rs587778818	0.00004
NM_000784.4(CYP27A1):c.545T>C (p.Ile182Thr)	rs556745324	0.00004
NM_000784.4(CYP27A1):c.845-1G>A	rs397515353	0.00004
NM_000784.4(CYP27A1):c.1263+1G>A	rs397515355	0.00003
NM_000784.4(CYP27A1):c.1421G>A (p.Arg474Gln)	rs121908097	0.00003
NM_000784.4(CYP27A1):c.380G>A (p.Arg127Gln)	rs376230356	0.00003
NM_000784.4(CYP27A1):c.1072C>T (p.Gln358Ter)	rs533885672	0.00002
NM_000784.4(CYP27A1):c.315C>T (p.His105=)	rs753981913	0.00002
NM_000784.4(CYP27A1):c.322C>T (p.Leu108=)	rs192344487	0.00002
NM_000784.4(CYP27A1):c.507G>A (p.Ala169=)	rs776260288	0.00002
NM_000784.4(CYP27A1):c.525G>A (p.Thr175=)	rs200506778	0.00002
NM_000784.4(CYP27A1):c.666C>T (p.Phe222=)	rs751692931	0.00002
NM_000784.4(CYP27A1):c.747G>A (p.Gln249=)	rs764766872	0.00002
NM_000784.4(CYP27A1):c.1181T>C (p.Leu394Pro)	rs1406298698	0.00001
NM_000784.4(CYP27A1):c.1213C>T (p.Arg405Trp)	rs573951598	0.00001
NM_000784.4(CYP27A1):c.1214G>A (p.Arg405Gln)	rs121908099	0.00001
NM_000784.4(CYP27A1):c.1263+2T>C	rs777935791	0.00001
NM_000784.4(CYP27A1):c.1263+5G>T	rs587778784	0.00001
NM_000784.4(CYP27A1):c.1415G>C (p.Gly472Ala)	rs200883871	0.00001
NM_000784.4(CYP27A1):c.1420C>T (p.Arg474Trp)	rs121908098	0.00001
NM_000784.4(CYP27A1):c.1515G>A (p.Thr505=)	rs886656814	0.00001
NM_000784.4(CYP27A1):c.1537C>T (p.Arg513Cys)	rs560108684	0.00001
NM_000784.4(CYP27A1):c.2T>C (p.Met1Thr)	rs759003992	0.00001
NM_000784.4(CYP27A1):c.32G>A (p.Trp11Ter)	rs1398584213	0.00001
NM_000784.4(CYP27A1):c.33G>A (p.Trp11Ter)	rs1319938730	0.00001
NM_000784.4(CYP27A1):c.409C>T (p.Arg137Trp)	rs72551312	0.00001
NM_000784.4(CYP27A1):c.435G>T (p.Gly145=)	rs587778796	0.00001
NM_000784.4(CYP27A1):c.446+1G>A	rs587778797	0.00001
NM_000784.4(CYP27A1):c.475C>T (p.Gln159Ter)	rs72551314	0.00001
NM_000784.4(CYP27A1):c.527A>G (p.Asp176Gly)	rs748325824	0.00001
NM_000784.4(CYP27A1):c.646G>C (p.Ala216Pro)	rs201346271	0.00001
NM_000784.4(CYP27A1):c.691C>T (p.Arg231Ter)	rs72551315	0.00001
NM_000784.4(CYP27A1):c.745C>T (p.Gln249Ter)	rs72551316	0.00001
NM_000784.4(CYP27A1):c.776A>G (p.Lys259Arg)	rs72551317	0.00001
NM_000784.4(CYP27A1):c.1005del (p.Gly336fs)	rs1575206357
NM_000784.4(CYP27A1):c.1017+1del	rs1559392904
NM_000784.4(CYP27A1):c.1052T>G (p.Leu351Arg)	rs1470602732
NM_000784.4(CYP27A1):c.1064del (p.Pro355fs)	rs1575206688
NM_000784.4(CYP27A1):c.1126del (p.Gln376fs)
NM_000784.4(CYP27A1):c.1170del (p.Lys391fs)
NM_000784.4(CYP27A1):c.1180_1181del (p.Leu394fs)	rs1178393503
NM_000784.4(CYP27A1):c.1183C>A (p.Arg395Ser)	rs121908096
NM_000784.4(CYP27A1):c.1185-1G>T	rs587778779
NM_000784.4(CYP27A1):c.1185-2A>T	rs1553616457
NM_000784.4(CYP27A1):c.1193del (p.Pro398fs)
NM_000784.4(CYP27A1):c.11_20dup (p.Arg8fs)	rs886041342
NM_000784.4(CYP27A1):c.1209C>G (p.Asn403Lys)	rs587778781
NM_000784.4(CYP27A1):c.1239dup (p.Asp414Ter)	rs2105981099
NM_000784.4(CYP27A1):c.1263+10del	rs765426068
NM_000784.4(CYP27A1):c.1264-1G>A	rs587778785
NM_000784.4(CYP27A1):c.1374del (p.Arg459fs)	rs751969035
NM_000784.4(CYP27A1):c.1435C>G (p.Arg479Gly)	rs72551322
NM_000784.4(CYP27A1):c.1435C>T (p.Arg479Cys)	rs72551322
NM_000784.4(CYP27A1):c.1436G>A (p.Arg479His)	rs199638075
NM_000784.4(CYP27A1):c.1468del (p.Leu490fs)
NM_000784.4(CYP27A1):c.1471G>T (p.Ala491Ser)	rs72551323
NM_000784.4(CYP27A1):c.1476+2T>C	rs1165952837
NM_000784.4(CYP27A1):c.1477-2A>C	rs111570247
NM_000784.4(CYP27A1):c.1538G>A (p.Arg513His)	rs144701596
NM_000784.4(CYP27A1):c.1573C>T (p.Gln525Ter)	rs374507635
NM_000784.4(CYP27A1):c.255G>A (p.Gln85=)
NM_000784.4(CYP27A1):c.256-1G>T	rs886556800
NM_000784.4(CYP27A1):c.287G>A (p.Trp96Ter)	rs1943689766
NM_000784.4(CYP27A1):c.309G>A (p.Gln103=)	rs1306558952
NM_000784.4(CYP27A1):c.358C>T (p.Gln120Ter)	rs1943690848
NM_000784.4(CYP27A1):c.373_379del (p.Pro125fs)	rs587778794
NM_000784.4(CYP27A1):c.398G>A (p.Trp133Ter)	rs1559391480
NM_000784.4(CYP27A1):c.433G>A (p.Gly145Arg)	rs587778795
NM_000784.4(CYP27A1):c.434G>A (p.Gly145Glu)	rs72551313
NM_000784.4(CYP27A1):c.461G>A (p.Trp154Ter)
NM_000784.4(CYP27A1):c.491G>A (p.Arg164Gln)	rs148417330
NM_000784.4(CYP27A1):c.491G>C (p.Arg164Pro)	rs148417330
NM_000784.4(CYP27A1):c.506C>T (p.Ala169Val)	rs59443548
NM_000784.4(CYP27A1):c.526del (p.Asp176fs)	rs765512351
NM_000784.4(CYP27A1):c.547del (p.Asp183fs)
NM_000784.4(CYP27A1):c.586_587del (p.Ser196fs)	rs758739930
NM_000784.4(CYP27A1):c.5dup (p.Ala3fs)	rs587778802
NM_000784.4(CYP27A1):c.646+1G>A
NM_000784.4(CYP27A1):c.666_678del (p.Phe222fs)	rs755532803
NM_000784.4(CYP27A1):c.752C>A (p.Ser251Ter)	rs587778808
NM_000784.4(CYP27A1):c.753_754del (p.Tyr253fs)	rs1559392634
NM_000784.4(CYP27A1):c.779G>A (p.Trp260Ter)	rs587778810
NM_000784.4(CYP27A1):c.803G>A (p.Trp268Ter)	rs1943736070
NM_000784.4(CYP27A1):c.808C>T (p.Arg270Ter)	rs72551318
NM_000784.4(CYP27A1):c.819del (p.Asp273fs)	rs587778812
NM_000784.4(CYP27A1):c.825G>A (p.Trp275Ter)
NM_000784.4(CYP27A1):c.844+1G>A	rs397515354
NM_000784.4(CYP27A1):c.845-1G>C
NM_000784.4(CYP27A1):c.845-2A>G	rs1553616312
NM_000784.4(CYP27A1):c.847A>T (p.Lys283Ter)	rs1057519469
NM_000784.4(CYP27A1):c.944_948del (p.Leu315fs)	rs397515356
NM_000784.4(CYP27A1):c.955C>T (p.Gln319Ter)	rs1943741125

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