MSeqDR Central Portal

About
MSeqDR-LSDB
Tools
- Quick-Mitome for WES
- Quick-Mitome
- Quick-Mitome Report
- mtDNA Tool:
- mvTool
- Phy-Mer
- MToolBox
- mvTool for Haplogroup
- mvTool with HmtDB
- MitoMaster
- MitoTIP tRNA Scoring
- MSeq-OpenCGA
- Variant Tool:
- VariantOneStop
- HBCR Exome (Retired)
- POLG Patho. Server
- Data - Awsomics GeEx
- Expert Panel
- Panel Tool:
- Gene Panel Examiner
- Transgenomic_NuclearMitome
- Pedigree Maker
- json2table
Phenome-Disease
Collaboration
- Genesis (GEM.App)
- LeighMap
- Expert Panel
- Collaboration Zone
Submission
- Submit_Interpret_Variant
- Instructions

Hello! Guest! Please Login or Register! Clinician Mode

Examples Gene: MT-ND1, POLG, Region: M:1-1000 Variant: m.8993T>G, 1:g.10042757T>C rs3888511 MSCV_0000006, ClinVar: RCV000000015, Disease: Leigh syndrome, Phenotype: Retinopathy

MSeqDR Central Portal

MSeqDR Data Summary for the Term APOA2:

Ensembl Gene ID	Associated Gene Name	LSDB Genes	LSDB Variants	clinVar hits	Ensembl Gene ID	Ensembl Transcript ID	Ensembl Protein ID	Description	Chr	Gene Start	Gene End	Strand	Band	Transcript Start bp	Transcript End bp	Associated Gene Name	Associated Transcript Name	Associated Gene DB	Associated Transcript DB	Transcript count	pct GC content	Gene Biotype	Transcript Biotype	Source Gene	Source Transcript	Status gene	Status transcript	EntrezGene ID	HGNC ID	HGNC Symbol	RefSeq mRNA	Seq region id
ENSG00000158874	APOA2	0	0	0	ENSG00000158874	ENST00000481413		apolipoprotein A-II [Source:HGNC Symbol;Acc:601]	1	161192082	161193421	-1	q23.3	161192082	161193403	APOA2	APOA2-003	HGNC Symbol	HGNC transcript name	10	53.51	protein_coding	retained_intron	ensembl_hava	havana	KNOWN	KNOWN	336	601	APOA2		27511

MSeqDR Master Exome Data Set M1: 164 entries from same gene

No.	Chr	Position	Reference	Variant	EnsemblTranscriptID	EnsemblGeneID	Gene_Start	Gene_End	EnsemblProteinID	Gene	strand	Uniprot	cChange	pChange	Nature	dbSNP	Freq	EVS	phastCons	SIFT	Polyphen	HGMD	type	samples
1	1	161192183	G	T	ENST00000367990	ENSG00000158874	161192082	161193421	ENSP00000356969	APOA2	-1	APOA2_HUMAN	-	-	3'_UTR	NA	-	-	-	-	-	-	het	1
2	1	161192183	G	T	ENST00000463812	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.300C>A	p.T100T	syn	NA	-	-	-	-	-	-	het	1
3	1	161192183	G	T	ENST00000464492	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.453C>A	p.T151T	syn	NA	-	-	-	-	-	-	het	1
4	1	161192183	G	T	ENST00000468465	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.320C>A	p.P107Q	non-syn	NA	-	-	-	-	-	-	het	1
5	1	161192183	G	T	ENST00000469730	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.326C>A	p.P109Q	non-syn	NA	-	-	-	-	-	-	het	1
6	1	161192183	G	T	ENST00000470459	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.319C>A	p.H107N	non-syn	NA	-	-	-	-	-	-	het	1
7	1	161192183	G	T	ENST00000481413	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.826C>A	p.H276N	non-syn	NA	-	-	-	-	-	-	het	1
8	1	161192183	G	T	ENST00000481511	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.555C>A	p.T185T	syn	NA	-	-	-	-	-	-	het	1
9	1	161192183	G	T	ENST00000491350	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.189C>A	p.T63T	syn	NA	-	-	-	-	-	-	het	1
10	1	161192210	C	T	ENST00000367990	ENSG00000158874	161192082	161193421	ENSP00000356969	APOA2	-1	APOA2_HUMAN	c.288G>A	p.Q96Q	syn	rs6413454	-	T=0/C=8600;T=30/C=4376;T=30/C=12976	-	TOLERATED	-	-	het	1
11	1	161192210	C	T	ENST00000463812	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.273G>A	p.Q91Q	syn	rs6413454	-	T=0/C=8600;T=30/C=4376;T=30/C=12976	-	TOLERATED	-	-	het	1
12	1	161192210	C	T	ENST00000464492	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.426G>A	p.Q142Q	syn	rs6413454	-	T=0/C=8600;T=30/C=4376;T=30/C=12976	-	TOLERATED	-	-	het	1
13	1	161192210	C	T	ENST00000468465	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.293G>A	p.S98N	non-syn	rs6413454	-	T=0/C=8600;T=30/C=4376;T=30/C=12976	-	TOLERATED	-	-	het	1
14	1	161192210	C	T	ENST00000469730	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.299G>A	p.S100N	non-syn	rs6413454	-	T=0/C=8600;T=30/C=4376;T=30/C=12976	-	TOLERATED	-	-	het	1
15	1	161192210	C	T	ENST00000470459	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.292G>A	p.A98T	non-syn	rs6413454	-	T=0/C=8600;T=30/C=4376;T=30/C=12976	-	TOLERATED	-	-	het	1
16	1	161192210	C	T	ENST00000481413	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.799G>A	p.A267T	non-syn	rs6413454	-	T=0/C=8600;T=30/C=4376;T=30/C=12976	-	TOLERATED	-	-	het	1
17	1	161192210	C	T	ENST00000481511	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.528G>A	p.Q176Q	syn	rs6413454	-	T=0/C=8600;T=30/C=4376;T=30/C=12976	-	TOLERATED	-	-	het	1
18	1	161192210	C	T	ENST00000491350	ENSG00000158874	161192082	161193421	-	APOA2	-1	-	c.162G>A	p.Q54Q	syn	rs6413454	-	T=0/C=8600;T=30/C=4376;T=30/C=12976	-	TOLERATED	-	-	het	1
19	1	161192316	G	A	ENST00000367990	ENSG00000158874	161192082	161193421	ENSP00000356969	APOA2	-1	APOA2_HUMAN	-	-	-4bp 3'_splice_site	rs6413453	0.1368	A=933/G=7667;A=136/G=4270;A=1069/G=11937	-	-	-	-	het	178
20	1	161192316	G	A	ENST00000367990	ENSG00000158874	161192082	161193421	ENSP00000356969	APOA2	-1	APOA2_HUMAN	-	-	-4bp 3'_splice_site	rs6413453	0.1368	A=933/G=7667;A=136/G=4270;A=1069/G=11937	-	-	-	-	hom	16

** A friendly reminder: guest user can access up to first 20 entries per gene from MSeqDR Master Exome Data Set M1. To gain access to the full power of MSeqDR, please login, or register, then request access to data.

As MSeqDR registered user , your accessible protected data set after login:

Select a dataset from the above drop-down list,
**click here to view variant details for this gene in selected data set**,
and click "Export" button to save as csv.

Transcripts and variants in the surrounding APOA2 1:161192082..161193421 region Gbrowse