Variant report

Variant	rs2815573
Chromosome Location	chr10:27988891-27988892
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:27988497..27989198-chr10:28009366..28009969,2	MCF-7	breast:
2	chr10:27987243..27989014-chr10:28013430..28015177,2	MCF-7	breast:

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10829311	0.94[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.81[MEX][hapmap];0.82[ASN][1000 genomes]
rs11006695	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs11015956	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11015964	0.94[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs11015965	0.94[CHB][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs11015966	1.00[CHB][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs12217587	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12217663	0.93[ASN][1000 genomes]
rs12257885	0.94[ASN][1000 genomes]
rs12258832	0.82[ASN][1000 genomes]
rs1907374	0.89[CHB][hapmap];0.82[JPT][hapmap]
rs1907386	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs1907390	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1907391	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1907392	1.00[CEU][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs2246842	0.88[CEU][hapmap];0.80[GIH][hapmap];0.87[TSI][hapmap]
rs2246903	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2252651	0.83[EUR][1000 genomes]
rs2451915	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2451916	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2451917	0.94[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2451919	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2451920	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2492911	0.94[CEU][hapmap];0.95[TSI][hapmap];0.89[EUR][1000 genomes]
rs2492912	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2492913	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2492914	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2492915	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2492916	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2492917	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2637290	0.88[CEU][hapmap];0.83[TSI][hapmap]
rs2637291	0.87[CEU][hapmap]
rs2637293	0.88[CEU][hapmap];0.91[TSI][hapmap];0.83[EUR][1000 genomes]
rs2637297	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs2637303	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.91[TSI][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2637304	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2637314	0.89[EUR][1000 genomes]
rs2637320	0.88[CEU][hapmap]
rs2637321	0.88[CEU][hapmap]
rs2637323	0.88[CEU][hapmap];0.91[TSI][hapmap]
rs2637324	0.88[CEU][hapmap];0.91[TSI][hapmap]
rs2637327	0.88[EUR][1000 genomes]
rs2637328	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2782339	0.88[CEU][hapmap]
rs2782341	0.86[CEU][hapmap]
rs2782343	0.88[CEU][hapmap];0.81[GIH][hapmap];0.87[TSI][hapmap]
rs2815477	0.88[CEU][hapmap];0.91[TSI][hapmap];0.85[EUR][1000 genomes]
rs2815478	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs2815479	0.88[CEU][hapmap];0.91[TSI][hapmap];0.83[EUR][1000 genomes]
rs2815482	0.88[CEU][hapmap]
rs2815483	0.87[CEU][hapmap]
rs2815484	0.88[CEU][hapmap]
rs2815485	0.88[CEU][hapmap]
rs2815488	0.88[CEU][hapmap]
rs2815493	0.88[CEU][hapmap]
rs2815559	0.94[CEU][hapmap];0.88[EUR][1000 genomes]
rs2815560	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.91[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815561	0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.91[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815562	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815563	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2815564	0.94[CEU][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes]
rs2815565	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815566	0.84[EUR][1000 genomes]
rs2815567	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2815569	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815570	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815571	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2815574	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2815575	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2815576	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2815577	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2999980	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4417171	0.94[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs5024546	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];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	nsv550241	chr10:27569521-28025771	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	esv3368825	chr10:27864181-28043820	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27984400-27990800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr10:27984400-27990800	Weak transcription	Rectal Smooth Muscle	rectum
3	chr10:27984600-27989200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr10:27985400-27990800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr10:27985800-27990800	Weak transcription	Osteobl	bone
6	chr10:27985800-28001400	Weak transcription	Aorta	Aorta
7	chr10:27986800-27989400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr10:27987200-27989600	Enhancers	Fetal Stomach	stomach
9	chr10:27987400-27990800	Weak transcription	Fetal Muscle Leg	muscle
10	chr10:27988200-27990400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr10:27988400-27989000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr10:27988400-27989600	Enhancers	Adipose Nuclei	Adipose
13	chr10:27988400-27989800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr10:27988600-27989000	Active TSS	Ovary	ovary
15	chr10:27988600-27989200	Enhancers	Colon Smooth Muscle	Colon
16	chr10:27988600-27989200	Enhancers	HepG2	liver
17	chr10:27988600-27989600	Enhancers	Liver	Liver
18	chr10:27988600-27989600	Enhancers	Stomach Smooth Muscle	stomach
19	chr10:27988800-27989600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr10:27988800-27989600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr10:27988800-27989600	Enhancers	NHDF-Ad	bronchial
22	chr10:27988800-27991000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr10:27988800-27991400	Enhancers	HUES48 Cell Line	embryonic stem cell
24	chr10:27988800-27992000	Enhancers	Cortex derived primary cultured neurospheres	brain

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