Variant report

Variant	rs4634434
Chromosome Location	chr6:64447330-64447331
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1029091	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10943958	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10944026	0.89[ASN][1000 genomes]
rs13197043	0.91[ASN][1000 genomes]
rs13199206	0.89[ASN][1000 genomes]
rs13199805	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13208965	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13216525	0.86[ASN][1000 genomes]
rs1412864	0.85[ASN][1000 genomes]
rs1412865	0.85[ASN][1000 genomes]
rs3800489	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3800490	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4710256	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4710257	0.91[ASN][1000 genomes]
rs4710436	0.81[EUR][1000 genomes]
rs4710439	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs58429651	0.81[EUR][1000 genomes]
rs756274	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7764184	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830674	chr6:64355412-64535801	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv969307	chr6:64445020-64468321	Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4634434	LGSN	cis	Whole Blood	GTEx

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:64424200-64450400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr6:64437400-64459600	Weak transcription	Aorta	Aorta
3	chr6:64442000-64451800	Weak transcription	Fetal Intestine Small	intestine
4	chr6:64442000-64451800	Weak transcription	Small Intestine	intestine
5	chr6:64442400-64450200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr6:64443800-64449200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:64444800-64448600	Weak transcription	HepG2	liver
8	chr6:64445200-64449200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:64445200-64450000	Weak transcription	HMEC	breast
10	chr6:64445200-64450200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:64445600-64449200	Weak transcription	Hela-S3	cervix
12	chr6:64445800-64450000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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