View genomic variant #0000015401

Chromosome	1
Allele	Unknown
Affects function (as reported)	Affects function
Affects function (by curator)	Affects function
Type	-
DNA change (genomic) (Relative to hg19 / GRCh37)	g.76200512_76200514del
Published as	-
GERP	-
Segregation	-
DB-ID	ACADM_000090
MSCV	MSCV_0015401
dbSNP ID	-
Frequency	-
Sources	; clinvar;
Reference	-
Variant remarks	-
Genetic origin	-
Variant_disease	-
Average frequency (large NGS studies)	Variant not found in online data sets
Owner	LOVD

Variant on transcripts

Legend

Please note that a short description of a certain column can be displayed when you move your mouse cursor over the column's header and hold it still. Below, a more detailed description is shown per column.

Affects function: The variant's effect on the protein's function, in the format 'R/C' where R is the value reported by the source and C is the value concluded by the curator; '+' indicating the variant affects function, '+?' probably affects function, '+*' affects function, not associated with individual's disease phenotype, '#' affects function, not associated with any known disease phenotype, '-' does not affect function, '-?' probably does not affect function, '?' effect unknown, '.' effect not classified.

Location: Location of variant at DNA level; note that the variant location can also be derived from the variant description.
All options:

5' gene flanking
5' UTR
Exon
Intron
3' UTR
3' gene flanking

Exon: Number of exon/intron containing variant; 2 = exon 2, 12i = intron 12, 2i_7i = exons 3 to 7, 8i_9 = border intron 8/exon 9.

DNA change (cDNA): Description of variant at DNA level, based on a coding DNA reference sequence (following HGVS recommendations); e.g. c.123C>T, c.123_145del, c.123_126dup.

Protein: Description of variant at protein level (following HGVS recommendations).

p.(Arg345Pro) = change predicted from DNA (RNA not analysed)
p.Arg345Pro = change derived from RNA analysis
p.? = unknown effect
p.0? = probably no protein produced

PolyPhen: Effect of variant, predicted by PolyPhen.
All options:

benign = Benign
possiblyDamaging = Possibly damaging
probablyDamaging = Probably damaging
noPrediction = No prediction

GVS function: The functional annotation of this position from the Genome Variation Server.
All options:

intergenic
near-gene-5
utr-5
coding
coding-near-splice
coding-synonymous
coding-synonymous-near-splice
codingComplex
codingComplex-near-splice
frameshift
frameshift-near-splice
missense
missense-near-splice
splice-5
intron
splice-3
stop-gained
stop-gained-near-splice
stop-lost
stop-lost-near-splice
utr-3
near-gene-3

Splice distance: The distance to the nearest splice site.

SIFT: SIFT Annotation

2 entries on 1 page. Showing entries 1 - 2.

Legend

Gene	Transcript ID	Transcript	Variant ID	Affects function	Location	Exon	DNA change (cDNA)	Protein	PolyPhen	GVS function	Splice distance	SIFT
ACADM	00000384	NM_000016.4	0000015401	./.	-	-	c.424_426del	p.(Lys144del)	-	-	-	-
ACADM	00000383	NM_001127328.1	0000015401	./.	-	-	c.436_438del	p.(Lys148del)	-	-	-	-

Legend

ClinVar @ MSeqDR
RCVaccession	RCV000211510; RCV000313722;
Chromosome	1:76200512..76200514
ClinVar Allele ID	227876
Disease database name and identifier	MedGen:C3661900\|MONDO:MONDO:0008721, MedGen:C0220710, OMIM:201450, Orphanet:42
ClinVar preferred disease name	not provided\|Medium-chain acyl-coenzyme A dehydrogenase deficiency
HGVS variant names	NC 000001.10:g.76200512AAG[2]
ClinVar review status	criteria provided, conflicting interpretations
Clinical Significance	Conflicting interpretations of pathogenicity
Conflicting clinical significance	Pathogenic(1)\|Likely pathogenic(4)\|Uncertain significance(1)
Variant type	Microsatellite
Sequence Ontology for variant type	SO:0000289
Variant clinical sources reported	ClinGen:CA913102
Gene symbol:Gene id.	ACADM:34
Molecular consequence	SO:0001627\|intron variant, SO:0001822\|inframe deletion
Allele origin	germline
dbSNP ID	875989857
Variant Flags	:

ClinVar @ MSeqDR as full content XML tree

ClinVar @ MSeqDR
RCVaccession RCV000185675; RCV000211535;
Chromosome 1:76200514..76200514
Allele frequencies from ESP 0.00008
Allele frequencies from ExAC 0.00003
ClinVar Allele ID 199974
Disease database name and identifier MedGen:C3661900|MONDO:MONDO:0008721, MedGen:C0220710, OMIM:201450, Orphanet:42
ClinVar preferred disease name not provided|Medium-chain acyl-coenzyme A dehydrogenase deficiency
HGVS variant names NC 000001.10:g.76200514del
ClinVar review status criteria provided, multiple submitters, no conflicts
Clinical Significance Pathogenic
Variant type Deletion
Sequence Ontology for variant type SO:0000159
Variant clinical sources reported ClinGen:CA312202
Gene symbol:Gene id. ACADM:34
Molecular consequence SO:0001589|frameshift variant, SO:0001627|intron variant
Allele origin germline
dbSNP ID 777998984
Variant Flags
:

ClinVar @ MSeqDR as full content XML tree

ClinVar @ MSeqDR
RCVaccession RCV000944534;
Chromosome 1:76200514..76200514
Allele frequencies from ExAC 0.00001
Allele frequencies from TGP 0.00020
ClinVar Allele ID 762076
Disease database name and identifier MONDO:MONDO:0008721, MedGen:C0220710, OMIM:201450, Orphanet:42
ClinVar preferred disease name Medium-chain acyl-coenzyme A dehydrogenase deficiency
HGVS variant names NC 000001.10:g.76200514G>A
ClinVar review status criteria provided, single submitter
Clinical Significance Likely benign
Variant type single nucleotide variant
Sequence Ontology for variant type SO:0001483
Gene symbol:Gene id. ACADM:34
Molecular consequence SO:0001627|intron variant, SO:0001819|synonymous variant
Allele origin germline
dbSNP ID 565131848
Variant Flags
:

ClinVar @ MSeqDR as full content XML tree

MSeqDR View Variant at Gbrowse

Mitomap Mitochondrial Variant Phenotype Information:

None

Ensembl Variant Phenotype Information:

None