Variant report

Variant	rs4403222
Chromosome Location	chr5:41409545-41409546
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	chr5:41404307..41406613-chr5:41408825..41411220,2	MCF-7	breast:

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10044440	0.89[ASN][1000 genomes]
rs10053633	0.87[ASN][1000 genomes]
rs10055126	0.87[ASN][1000 genomes]
rs10068649	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10071445	0.88[ASN][1000 genomes]
rs10078334	1.00[CHB][hapmap];0.82[JPT][hapmap];0.88[ASN][1000 genomes]
rs1037690	1.00[CHB][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs10462017	0.82[CEU][hapmap]
rs10512774	0.82[CEU][hapmap];1.00[YRI][hapmap]
rs10512775	0.82[CEU][hapmap]
rs10805659	1.00[CHB][hapmap];0.82[JPT][hapmap];0.88[ASN][1000 genomes]
rs11737958	0.82[CEU][hapmap]
rs11740787	0.82[CEU][hapmap]
rs11744499	0.82[CEU][hapmap]
rs11747859	0.82[CEU][hapmap]
rs13166710	0.86[ASN][1000 genomes]
rs1350299	1.00[CHB][hapmap];0.82[JPT][hapmap];0.89[ASN][1000 genomes]
rs1373639	0.82[CEU][hapmap]
rs1380996	1.00[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs1460953	0.82[CEU][hapmap]
rs1460955	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs160966	0.86[ASN][1000 genomes]
rs161086	1.00[CEU][hapmap];0.89[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs161087	0.90[ASN][1000 genomes]
rs1645060	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs167627	0.87[ASN][1000 genomes]
rs167628	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16871219	0.82[CEU][hapmap]
rs16871220	0.82[CEU][hapmap]
rs16871222	0.82[CEU][hapmap]
rs16871258	0.82[CEU][hapmap];1.00[YRI][hapmap]
rs16871269	0.82[CEU][hapmap]
rs1904178	0.82[CEU][hapmap]
rs2054445	0.82[CEU][hapmap]
rs2161542	0.82[CEU][hapmap]
rs223080	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2329602	0.82[CEU][hapmap];1.00[YRI][hapmap]
rs2329604	0.82[CEU][hapmap]
rs2329671	0.82[CEU][hapmap]
rs2860000	0.82[CEU][hapmap]
rs2925729	1.00[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2925731	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs318836	1.00[CHB][hapmap];0.87[JPT][hapmap];0.86[ASN][1000 genomes]
rs318837	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs318838	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs318839	0.90[ASN][1000 genomes]
rs318840	0.86[ASN][1000 genomes]
rs318841	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs318842	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs318843	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs318844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs318845	1.00[CHB][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs318846	1.00[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs318847	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs318849	0.90[ASN][1000 genomes]
rs319013	1.00[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs319014	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs319015	0.89[ASN][1000 genomes]
rs320622	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs320623	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4051076	0.87[ASN][1000 genomes]
rs4380706	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4380707	1.00[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs4383755	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4438921	0.87[ASN][1000 genomes]
rs4557464	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4559042	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4957153	0.82[CEU][hapmap]
rs545358	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6859578	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs730354	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs765176	0.82[CEU][hapmap]
rs765177	0.82[CEU][hapmap]
rs7700406	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs7701760	0.82[CEU][hapmap]
rs7703589	0.82[CEU][hapmap]
rs7704046	0.82[CEU][hapmap]
rs7713441	0.94[ASN][1000 genomes]
rs7718012	0.87[ASN][1000 genomes]
rs7722338	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7723649	0.82[CEU][hapmap]
rs7727658	0.82[CEU][hapmap];1.00[YRI][hapmap]
rs7729454	0.82[CEU][hapmap]
rs7735604	0.82[CEU][hapmap]
rs921946	0.95[CHB][hapmap];0.90[ASN][1000 genomes]
rs9292806	1.00[CHB][hapmap];0.82[JPT][hapmap];0.89[ASN][1000 genomes]
rs9654393	1.00[CHB][hapmap];0.82[JPT][hapmap];0.89[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	esv1851387	chr5:41336050-41423631	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv1024631	chr5:41341979-41427953	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:41404000-41412000	Enhancers	Fetal Heart	heart
2	chr5:41404800-41409800	Enhancers	Fetal Intestine Large	intestine
3	chr5:41405400-41410600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr5:41405800-41410000	Enhancers	Fetal Intestine Small	intestine
5	chr5:41407400-41410600	Weak transcription	Pancreas	Pancrea
6	chr5:41408200-41409600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr5:41408200-41409600	Enhancers	HMEC	breast
8	chr5:41408200-41410000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr5:41408200-41410000	Enhancers	Muscle Satellite Cultured Cells	--
10	chr5:41408400-41409600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr5:41408400-41409800	Enhancers	NHDF-Ad	bronchial
12	chr5:41408400-41409800	Enhancers	Osteobl	bone
13	chr5:41408400-41410000	Enhancers	NHLF	lung
14	chr5:41408600-41409600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr5:41408800-41409600	Enhancers	Small Intestine	intestine
16	chr5:41408800-41409600	Enhancers	NH-A	brain
17	chr5:41408800-41409800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr5:41408800-41409800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr5:41408800-41410000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr5:41408800-41410000	Flanking Active TSS	A549	lung
21	chr5:41409000-41409600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr5:41409000-41409600	Enhancers	Ovary	ovary
23	chr5:41409000-41409600	Enhancers	Hela-S3	cervix
24	chr5:41409000-41409600	Enhancers	HepG2	liver
25	chr5:41409000-41409600	Enhancers	HSMM	muscle
26	chr5:41409200-41409800	Enhancers	Left Ventricle	heart
27	chr5:41409400-41409600	Enhancers	Right Atrium	heart
28	chr5:41409400-41409600	Enhancers	Right Ventricle	heart
29	chr5:41409400-41410000	Enhancers	Duodenum Mucosa	Duodenum
30	chr5:41409400-41412600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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