Variant report

Variant	rs10888948
Chromosome Location	chr1:56382722-56382723
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:56381262..56382928-chr1:56386333..56388137,2	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10493183	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10493185	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10493187	1.00[ASN][1000 genomes]
rs10493189	1.00[ASN][1000 genomes]
rs10493190	1.00[ASN][1000 genomes]
rs10493191	1.00[ASN][1000 genomes]
rs10789010	0.87[EUR][1000 genomes]
rs10888940	1.00[ASN][1000 genomes]
rs10888942	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10888947	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11206673	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11206677	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11206680	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11206681	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11206689	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11206690	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11582662	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12058087	1.00[ASN][1000 genomes]
rs12070494	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12092701	1.00[ASN][1000 genomes]
rs12118218	1.00[ASN][1000 genomes]
rs12119904	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12120132	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12123418	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12123610	1.00[ASN][1000 genomes]
rs12124871	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12138137	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12141873	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12145137	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17112888	1.00[ASN][1000 genomes]
rs17113073	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2067637	1.00[ASN][1000 genomes]
rs41285922	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4130692	0.83[EUR][1000 genomes]
rs55693755	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58538058	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59959484	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61774839	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61774842	0.95[EUR][1000 genomes]
rs61774843	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61777585	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61777621	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6659096	1.00[ASN][1000 genomes]
rs6684334	0.91[EUR][1000 genomes]
rs6684428	0.91[EUR][1000 genomes]
rs6691673	1.00[ASN][1000 genomes]
rs6693526	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7516605	0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7517205	1.00[ASN][1000 genomes]
rs7517995	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7530878	1.00[ASN][1000 genomes]
rs7540772	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1818340	chr1:56359741-56408597	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56378000-56383200	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr1:56381600-56383400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr1:56381600-56386400	Weak transcription	Placenta	Placenta
4	chr1:56381800-56382800	Enhancers	Fetal Lung	lung
5	chr1:56382000-56383000	Enhancers	Rectal Smooth Muscle	rectum
6	chr1:56382000-56383000	Enhancers	NHEK	skin
7	chr1:56382200-56383200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr1:56382400-56382800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr1:56382400-56382800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr1:56382600-56386400	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr1:56382600-56393400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links