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 CDH3:

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
ENSG00000062038	CDH3	0	0	12	ENSG00000062038	ENST00000565453		cadherin 3, type 1, P-cadherin (placental) [Source:HGNC Symbol;Acc:1762]	16	68670092	68756519	1	q22.1	68670092	68679221	CDH3	CDH3-004	HGNC Symbol	HGNC transcript name	11	49.26	protein_coding	processed_transcript	ensembl_hava	havana	KNOWN	PUTATIVE	1001	1762	CDH3		27514

MSeqDR Master Exome Data Set M1: 265 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	16	68678746	A	G	ENST00000264012	ENSG00000062038	68670092	68756519	ENSP00000264012	CDH3	1	CADH3_HUMAN	-	-	5'_UTR	rs11644435	0.2244	-	-	-	-	-	het	208
2	16	68678746	A	G	ENST00000264012	ENSG00000062038	68670092	68756519	ENSP00000264012	CDH3	1	CADH3_HUMAN	-	-	5'_UTR	rs11644435	0.2244	-	-	-	-	-	hom	25
3	16	68678756	G	C	ENST00000264012	ENSG00000062038	68670092	68756519	ENSP00000264012	CDH3	1	CADH3_HUMAN	-	-	5'_UTR	NA	-	-	-	-	-	-	het	1
4	16	68678857	C	A	ENST00000264012	ENSG00000062038	68670092	68756519	ENSP00000264012	CDH3	1	CADH3_HUMAN	-	-	5'_UTR	NA	-	-	-	-	-	-	het	2
5	16	68678880	T	C	ENST00000264012	ENSG00000062038	68670092	68756519	ENSP00000264012	CDH3	1	CADH3_HUMAN	-	-	5'_UTR	rs146833318	0.0032	-	-	-	-	-	het	2
6	16	68678884	G	C	ENST00000264012	ENSG00000062038	68670092	68756519	ENSP00000264012	CDH3	1	CADH3_HUMAN	-	-	5'_UTR	rs74674351	0.0172	-	-	-	-	-	het	10
7	16	68679086	T	C	ENST00000264012	ENSG00000062038	68670092	68756519	ENSP00000264012	CDH3	1	CADH3_HUMAN	-	-	5'_UTR	NA	-	-	-	-	-	-	het	4
8	16	68679086	T	C	ENST00000429102	ENSG00000062038	68670092	68756519	ENSP00000398485	CDH3	1	CADH3_HUMAN	-	-	5'_UTR	NA	-	-	-	-	-	-	het	4
9	16	68679086	T	C	ENST00000565453	ENSG00000062038	68670092	68756519	-	CDH3	1	-	c.397T>C	p.W133R	non-syn	NA	-	-	-	-	-	-	het	4
10	16	68679142	C	T	ENST00000264012	ENSG00000062038	68670092	68756519	ENSP00000264012	CDH3	1	CADH3_HUMAN	-	-	5'_UTR	NA	-	-	-	-	-	-	het	1
11	16	68679142	C	T	ENST00000429102	ENSG00000062038	68670092	68756519	ENSP00000398485	CDH3	1	CADH3_HUMAN	-	-	5'_UTR	NA	-	-	-	-	-	-	het	1
12	16	68679142	C	T	ENST00000565453	ENSG00000062038	68670092	68756519	-	CDH3	1	-	c.453C>T	p.G151G	syn	NA	-	-	-	-	-	-	het	1
13	16	68679198	G	A	ENST00000264012	ENSG00000062038	68670092	68756519	ENSP00000264012	CDH3	1	CADH3_HUMAN	-	-	5'_UTR	rs149144109	0.011	-	-	-	-	-	het	1
14	16	68679198	G	A	ENST00000429102	ENSG00000062038	68670092	68756519	ENSP00000398485	CDH3	1	CADH3_HUMAN	-	-	5'_UTR	rs149144109	0.011	-	-	-	-	-	het	1
15	16	68679198	G	A	ENST00000565453	ENSG00000062038	68670092	68756519	-	CDH3	1	-	c.509G>A	p.G170E	non-syn	rs149144109	0.011	-	-	-	-	-	het	1
16	16	68710279	T	+C	ENST00000264012	ENSG00000062038	68670092	68756519	ENSP00000264012	CDH3	1	CADH3_HUMAN	-	-	-9bp 3'_splice_site	NA	-	-	-	-	-	-	het	2
17	16	68710279	T	+C	ENST00000429102	ENSG00000062038	68670092	68756519	ENSP00000398485	CDH3	1	CADH3_HUMAN	-	-	-9bp 3'_splice_site	NA	-	-	-	-	-	-	het	2
18	16	68710279	T	+C	ENST00000542274	ENSG00000062038	68670092	68756519	ENSP00000464021	CDH3	1	-	-	-	-9bp 3'_splice_site	NA	-	-	-	-	-	-	het	2
19	16	68710279	T	+C	ENST00000581171	ENSG00000062038	68670092	68756519	ENSP00000462948	CDH3	1	-	-	-	-9bp 3'_splice_site	NA	-	-	-	-	-	-	het	2
20	16	68712089	G	A	ENST00000264012	ENSG00000062038	68670092	68756519	ENSP00000264012	CDH3	1	CADH3_HUMAN	c.299G>A	p.R100H	non-syn	NA	-	-	-	TOLERATED	B	-	het	2

** 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 CDH3 16:68670092..68756519 region Gbrowse