Variant report

Variant	rs921946
Chromosome Location	chr5:41410579-41410580
allele	C/T
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: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10044440	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10053633	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10055126	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10068649	0.87[ASN][1000 genomes]
rs10071445	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10078334	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1037690	0.95[CHB][hapmap];0.91[JPT][hapmap];0.97[ASN][1000 genomes]
rs10805659	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13166710	0.90[ASN][1000 genomes]
rs1350299	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1380996	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1460955	1.00[CEU][hapmap];0.95[CHB][hapmap];0.96[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs160966	0.90[ASN][1000 genomes]
rs161086	0.85[CHB][hapmap]
rs161087	0.86[ASN][1000 genomes]
rs1645060	0.95[CHB][hapmap];0.87[ASN][1000 genomes]
rs167627	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs167628	0.95[CHB][hapmap];0.87[ASN][1000 genomes]
rs223080	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs2925729	0.82[CHB][hapmap]
rs2925731	0.95[CHB][hapmap];0.87[ASN][1000 genomes]
rs318836	0.95[CHB][hapmap];0.87[JPT][hapmap];0.90[ASN][1000 genomes]
rs318837	0.95[CHB][hapmap];0.86[ASN][1000 genomes]
rs318838	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs318839	0.86[ASN][1000 genomes]
rs318840	0.90[ASN][1000 genomes]
rs318841	0.95[CHB][hapmap];0.88[ASN][1000 genomes]
rs318842	0.95[CHB][hapmap];0.86[ASN][1000 genomes]
rs318843	0.95[CHB][hapmap];0.90[ASN][1000 genomes]
rs318844	0.95[CHB][hapmap];0.85[ASN][1000 genomes]
rs318845	0.95[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs318846	0.95[CHB][hapmap];0.83[JPT][hapmap];0.92[ASN][1000 genomes]
rs318847	0.94[CHB][hapmap];0.87[ASN][1000 genomes]
rs318849	0.86[ASN][1000 genomes]
rs319013	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs319014	1.00[CEU][hapmap];0.95[CHB][hapmap];0.96[JPT][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs319015	0.94[ASN][1000 genomes]
rs320622	0.83[ASN][1000 genomes]
rs320623	0.90[CHB][hapmap]
rs4051076	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4380706	0.87[ASN][1000 genomes]
rs4380707	0.95[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs4383755	0.87[ASN][1000 genomes]
rs4403222	0.95[CHB][hapmap];0.90[ASN][1000 genomes]
rs4438921	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4557464	0.95[CHB][hapmap];0.89[ASN][1000 genomes]
rs4559042	0.87[ASN][1000 genomes]
rs545358	0.87[ASN][1000 genomes]
rs6859578	0.95[CHB][hapmap];0.87[ASN][1000 genomes]
rs730354	0.96[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7700406	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7713441	0.89[ASN][1000 genomes]
rs7718012	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7722338	0.87[ASN][1000 genomes]
rs9292806	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9654393	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[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:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:41404000-41412000	Enhancers	Fetal Heart	heart
2	chr5:41405400-41410600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr5:41407400-41410600	Weak transcription	Pancreas	Pancrea
4	chr5:41409400-41412600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr5:41409600-41410800	Weak transcription	HepG2	liver
6	chr5:41409600-41412600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr5:41409600-41412600	Weak transcription	Ovary	ovary
8	chr5:41409600-41412800	Weak transcription	Hela-S3	cervix
9	chr5:41409600-41413800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr5:41409600-41414400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr5:41409600-41414400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr5:41409600-41414400	Weak transcription	HMEC	breast
13	chr5:41409600-41414400	Weak transcription	NH-A	brain
14	chr5:41409600-41414600	Weak transcription	HSMM	muscle
15	chr5:41409800-41412600	Weak transcription	Fetal Intestine Large	intestine
16	chr5:41409800-41412600	Weak transcription	NHDF-Ad	bronchial
17	chr5:41409800-41412800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr5:41409800-41414400	Weak transcription	Osteobl	bone
19	chr5:41409800-41418400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr5:41410000-41410600	Enhancers	A549	lung
21	chr5:41410000-41412600	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr5:41410000-41412800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr5:41410000-41413000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr5:41410000-41417800	Weak transcription	NHLF	lung
25	chr5:41410200-41411200	Enhancers	Left Ventricle	heart
26	chr5:41410200-41411200	Enhancers	Right Atrium	heart
27	chr5:41410400-41411000	Enhancers	Muscle Satellite Cultured Cells	--
28	chr5:41410400-41411000	Enhancers	Duodenum Mucosa	Duodenum

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