View genomic variant #0000019282

Chromosome	2
Allele	Unknown
Affects function (as reported)	Does not affect function
Affects function (by curator)	Does not affect function
Type	-
DNA change (genomic) (Relative to hg19 / GRCh37)	g.84676887_84676889del
Published as	-
GERP	-
Segregation	-
DB-ID	SUCLG1_000010
MSCV	MSCV_0019282
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

1 entry on 1 page. Showing entry 1.

Legend

Gene	Transcript ID	Transcript	Variant ID	Affects function	Location	Exon	DNA change (cDNA)	Protein	PolyPhen	GVS function	Splice distance	SIFT
SUCLG1	00000316	NM_003849.3	0000019282	./.	-	-	c.98-13_98-11del	p.(=)	-	-	-	-

Legend

ClinVar @ MSeqDR
RCVaccession	RCV001648474;
Chromosome	2:84676887..84676887
ClinVar Allele ID	1232460
Disease database name and identifier	MedGen:C3661900
ClinVar preferred disease name	not provided
HGVS variant names	NC 000002.11:g.84676911del
ClinVar review status	criteria provided, single submitter
Clinical Significance	Benign
Variant type	Deletion
Sequence Ontology for variant type	SO:0000159
Gene symbol:Gene id.	SUCLG1:8802
Molecular consequence	SO:0001627\|intron variant
Allele origin	germline
dbSNP ID	56733272
Variant Flags	:

ClinVar @ MSeqDR as full content XML tree

ClinVar @ MSeqDR
RCVaccession RCV001719678;
Chromosome 2:84676887..84676888
ClinVar Allele ID 1286253
Disease database name and identifier MedGen:C3661900
ClinVar preferred disease name not provided
HGVS variant names NC 000002.11:g.84676910 84676911del
ClinVar review status criteria provided, single submitter
Clinical Significance Benign
Variant type Deletion
Sequence Ontology for variant type SO:0000159
Gene symbol:Gene id. SUCLG1:8802
Molecular consequence SO:0001627|intron variant
Allele origin germline
dbSNP ID 56733272
Variant Flags
:

ClinVar @ MSeqDR as full content XML tree

ClinVar @ MSeqDR
RCVaccession RCV000344267; RCV000395869; RCV000677032;
Chromosome 2:84676887..84676889
ClinVar Allele ID 290735
Disease database name and identifier MONDO:MONDO:0018158, MedGen:C0342782, OMIM:PS603041, Orphanet:35698|MONDO:MONDO:0009504, MedGen:C3151476, OMIM:245400, Orphanet:17|MedGen:C3661900
ClinVar preferred disease name Mitochondrial DNA depletion syndrome|Mitochondrial DNA depletion syndrome 9|not provided
HGVS variant names NC 000002.11:g.84676909 84676911del
ClinVar review status criteria provided, multiple submitters, no conflicts
Clinical Significance Benign
Variant type Deletion
Sequence Ontology for variant type SO:0000159
Variant clinical sources reported ClinGen:CA1736431
Gene symbol:Gene id. SUCLG1:8802
Molecular consequence SO:0001627|intron variant
Allele origin germline
dbSNP ID 56733272
Variant Flags
:

ClinVar @ MSeqDR as full content XML tree

ClinVar @ MSeqDR
RCVaccession RCV000505994; RCV000677033;
Chromosome 2:84676887..84676890
ClinVar Allele ID 433946
Disease database name and identifier MONDO:MONDO:0009504, MedGen:C3151476, OMIM:245400, Orphanet:17|MedGen:C3661900
ClinVar preferred disease name Mitochondrial DNA depletion syndrome 9|not provided
HGVS variant names NC 000002.11:g.84676908 84676911del
ClinVar review status criteria provided, multiple submitters, no conflicts
Clinical Significance Benign
Variant type Deletion
Sequence Ontology for variant type SO:0000159
Variant clinical sources reported ClinGen:CA1736429
Gene symbol:Gene id. SUCLG1:8802
Molecular consequence SO:0001627|intron variant
Allele origin germline
dbSNP ID 56733272
Variant Flags
:

ClinVar @ MSeqDR as full content XML tree

ClinVar @ MSeqDR
RCVaccession RCV000455752; RCV001637030;
Chromosome 2:84676887..84676891
ClinVar Allele ID 389520
Disease database name and identifier MedGen:CN169374|MedGen:CN517202
ClinVar preferred disease name not specified|not provided
HGVS variant names NC 000002.11:g.84676907 84676911del
ClinVar review status criteria provided, multiple submitters, no conflicts
Clinical Significance Benign
Variant type Deletion
Sequence Ontology for variant type SO:0000159
Variant clinical sources reported ClinGen:CA1736428
Gene symbol:Gene id. SUCLG1:8802
Molecular consequence SO:0001627|intron variant
Allele origin germline
dbSNP ID 56733272
Variant Flags
:

ClinVar @ MSeqDR as full content XML tree

ClinVar @ MSeqDR
RCVaccession RCV000677034; RCV002531383;
Chromosome 2:84676887..84676893
ClinVar Allele ID 549901
Disease database name and identifier MONDO:MONDO:0009504, MedGen:C3151476, OMIM:245400, Orphanet:17|MedGen:CN517202
ClinVar preferred disease name Mitochondrial DNA depletion syndrome 9|not provided
HGVS variant names NC 000002.11:g.84676905 84676911del
ClinVar review status criteria provided, single submitter
Clinical Significance Likely benign
Variant type Deletion
Sequence Ontology for variant type SO:0000159
Gene symbol:Gene id. SUCLG1:8802
Molecular consequence SO:0001627|intron variant
Allele origin germline
dbSNP ID 56733272
Variant Flags
:

ClinVar @ MSeqDR as full content XML tree

ClinVar @ MSeqDR
RCVaccession RCV002098599;
Chromosome 2:84676887..84676900
ClinVar Allele ID 1553857
Disease database name and identifier MONDO:MONDO:0009504, MedGen:C3151476, OMIM:245400, Orphanet:17
ClinVar preferred disease name Mitochondrial DNA depletion syndrome 9
HGVS variant names NC 000002.11:g.84676898 84676911del
ClinVar review status criteria provided, single submitter
Clinical Significance Likely benign
Variant type Deletion
Sequence Ontology for variant type SO:0000159
Gene symbol:Gene id. SUCLG1:8802
Molecular consequence SO:0001627|intron variant
Allele origin germline
dbSNP ID 56733272
Variant Flags
:

ClinVar @ MSeqDR as full content XML tree

ClinVar @ MSeqDR
RCVaccession RCV002614546;
Chromosome 2:84676887..84676901
ClinVar Allele ID 1991239
Disease database name and identifier MONDO:MONDO:0009504, MedGen:C3151476, OMIM:245400, Orphanet:17
ClinVar preferred disease name Mitochondrial DNA depletion syndrome 9
HGVS variant names NC 000002.11:g.84676897 84676911del
ClinVar review status criteria provided, single submitter
Clinical Significance Likely benign
Variant type Deletion
Sequence Ontology for variant type SO:0000159
Gene symbol:Gene id. SUCLG1:8802
Molecular consequence SO:0001627|intron variant
Allele origin germline
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