Variant report

Variant	rs10209860
Chromosome Location	chr2:173562488-173562489
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	chr2:173558154..173560301-chr2:173561566..173564675,4	MCF-7	breast:
2	chr2:173561632..173563652-chr2:173565236..173567735,2	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10166107	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10172894	0.95[ASN][1000 genomes]
rs10188207	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10188540	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10190099	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10198425	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10198426	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10198546	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10205076	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10205126	0.95[ASN][1000 genomes]
rs10210195	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11887904	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11888564	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11891071	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11894913	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11895461	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11897396	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11898565	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11899594	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11902043	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12328591	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12328781	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12329241	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13384609	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13385676	0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13387816	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13389072	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13400719	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13408965	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13411408	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13417913	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13420845	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13422388	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13423248	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13425350	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13427701	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13427921	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13428122	0.82[EUR][1000 genomes]
rs13432176	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1451447	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2167374	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28541707	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28670307	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28690076	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3816536	0.95[ASN][1000 genomes]
rs57104776	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59648896	0.95[ASN][1000 genomes]
rs62168072	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62169318	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62169319	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62169322	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62169323	0.86[ASN][1000 genomes]
rs62169324	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62169325	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62169326	0.95[ASN][1000 genomes]
rs6712686	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6717366	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6717851	1.00[ASN][1000 genomes]
rs6724116	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6741433	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6757567	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533927	chr2:173161637-173796894	Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	esv2760591	chr2:173396905-173719520	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv583665	chr2:173460640-173643087	Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173556800-173564600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr2:173558800-173563000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr2:173559000-173562600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr2:173559000-173562600	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr2:173559000-173563000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr2:173559400-173562600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr2:173559600-173562600	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr2:173560600-173565400	Weak transcription	Esophagus	oesophagus
9	chr2:173561800-173563600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr2:173561800-173563600	Enhancers	NHDF-Ad	bronchial
11	chr2:173561800-173563800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr2:173561800-173564400	Enhancers	NHEK	skin
13	chr2:173561800-173564400	Enhancers	NHLF	lung
14	chr2:173562000-173563400	Enhancers	HSMM	muscle
15	chr2:173562000-173563600	Enhancers	Osteobl	bone
16	chr2:173562000-173564000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr2:173562000-173564200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr2:173562000-173564200	Enhancers	HMEC	breast
19	chr2:173562000-173564400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr2:173562200-173563800	Enhancers	NH-A	brain
21	chr2:173562400-173562800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
22	chr2:173562400-173562800	Enhancers	A549	lung
23	chr2:173562400-173563200	Enhancers	Placenta Amnion	Placenta Amnion
24	chr2:173562400-173563400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr2:173562400-173563600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr2:173562400-173563600	Enhancers	Hela-S3	cervix
27	chr2:173562400-173563600	Enhancers	HUVEC	blood vessel

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