View genomic variant #0000000493

Chromosome	12
Allele	Unknown
Affects function (as reported)	Affects function
Affects function (by curator)	Affects function
Type	subst
DNA change (genomic) (Relative to hg19 / GRCh37)	g.121175678C>T
Published as	-
GERP	2.100
Segregation	-
DB-ID	ACADS_000010 See all 2 reported entries
MSCV	MSCV_0000493
dbSNP ID	rs1800556
Frequency	-
Sources	; clinvar;
Reference	9499414;11134486;19800078
Variant remarks	-
Genetic origin	-
Variant_disease	-
Average frequency (large NGS studies)	0.03429 View details
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.

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Gene	Transcript ID	Transcript	Variant ID	Affects function	Location	Exon	DNA change (cDNA)	Protein	PolyPhen	GVS function	Splice distance	SIFT
ACADS	00000386	NM_000017.2	0000000493	+/+	-	5/10	c.511C>T	p.(Arg171Trp)	benign(0.006)	missense_variant	-	deleterious(0.02)
ACADS	00000385	XM_005253878.1	0000000493	+/+	-	-	c.473-174C>T	p.(=)	-	-	-	-

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ClinVar @ MSeqDR
RCVaccession	RCV001066866;
Chromosome	12:121175678..121175679
ClinVar Allele ID	839354
Disease database name and identifier	MONDO:MONDO:0008722, MedGen:C0342783, OMIM:201470, Orphanet:26792
ClinVar preferred disease name	Deficiency of butyryl-CoA dehydrogenase
HGVS variant names	NC 000012.11:g.121175681dup
ClinVar review status	criteria provided, single submitter
Clinical Significance	Pathogenic
Variant type	Duplication
Sequence Ontology for variant type	SO:1000035
Gene symbol:Gene id.	ACADS:35
Molecular consequence	SO:0001589\|frameshift variant, SO:0001627\|intron variant
Allele origin	germline
dbSNP ID	1482609511
Variant Flags	:

ClinVar @ MSeqDR as full content XML tree

ClinVar @ MSeqDR
RCVaccession RCV000004034; RCV000185683;
Chromosome 12:121175678..121175678
Allele frequencies from ExAC 0.03132
Allele frequencies from TGP 0.01558
ClinVar Allele ID 18869
Disease database name and identifier MedGen:C3661900|MONDO:MONDO:0008722, MedGen:C0342783, OMIM:201470, Orphanet:26792
ClinVar preferred disease name not provided|Deficiency of butyryl-CoA dehydrogenase
HGVS variant names NC 000012.11:g.121175678C>T
ClinVar review status criteria provided, multiple submitters, no conflicts
Clinical Significance Benign/Likely benign
Variant type single nucleotide variant
Sequence Ontology for variant type SO:0001483
Variant clinical sources reported ClinGen:CA312214|OMIM:606885.0006|UniProtKB:P16219#VAR 013567
Gene symbol:Gene id. ACADS:35
Molecular consequence SO:0001583|missense variant, SO:0001627|intron variant
Allele origin germline
dbSNP ID 1800556
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