Variant report

Variant	rs10509707
Chromosome Location	chr10:98049204-98049205
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:97889408..97891756-chr10:98048251..98051356,3	MCF-7	breast:
2	chr10:97993410..97995538-chr10:98048766..98051029,2	MCF-7	breast:
3	chr10:97996830..97998741-chr10:98049014..98051338,2	MCF-7	breast:
4	chr10:97988988..97989760-chr10:98048810..98049411,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000177853	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10882767	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10882768	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11188699	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11188710	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap]
rs11188731	1.00[CEU][hapmap]
rs12242936	1.00[CEU][hapmap];0.84[GIH][hapmap]
rs12250473	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12257639	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12411820	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12414495	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12414529	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12569756	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap]
rs12570008	1.00[CEU][hapmap];0.84[GIH][hapmap]
rs12572610	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs12573362	0.87[CHB][hapmap];0.90[JPT][hapmap]
rs17111536	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17111540	1.00[CEU][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17111736	1.00[CEU][hapmap];0.84[GIH][hapmap]
rs1902704	0.87[GIH][hapmap];0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs2069238	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2146385	1.00[CEU][hapmap];0.91[CHB][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.80[ASN][1000 genomes]
rs2146391	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2273892	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap]
rs2861306	0.85[JPT][hapmap]
rs3762093	0.83[AMR][1000 genomes]
rs3789933	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs3789939	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes]
rs3789940	0.87[CHB][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap]
rs41291614	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4917730	0.87[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs4919000	0.86[JPT][hapmap]
rs57519557	0.94[AMR][1000 genomes]
rs6584061	0.86[JPT][hapmap]
rs6584064	0.87[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs67425977	0.87[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7069190	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7072251	0.87[CHB][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.91[ASN][1000 genomes]
rs7074775	0.82[AMR][1000 genomes]
rs7078316	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7083595	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7091809	0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72637514	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72637515	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72637516	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72640001	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs734225	1.00[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap]
rs734226	1.00[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap]
rs7896766	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7905402	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7919557	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7919588	0.91[ASN][1000 genomes]
rs7919799	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7922788	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs941998	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs941999	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[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	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	esv2761620	chr10:98047045-98089749	Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98045600-98049800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:98045600-98052800	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr10:98045600-98053000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr10:98046600-98050800	Enhancers	Fetal Thymus	thymus
5	chr10:98046800-98049400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr10:98047000-98050400	Enhancers	Placenta	Placenta
7	chr10:98048200-98050200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr10:98048200-98050200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr10:98048200-98050400	Enhancers	Thymus	Thymus
10	chr10:98048200-98052800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr10:98048200-98053000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr10:98048400-98049800	Weak transcription	Fetal Kidney	kidney
13	chr10:98048400-98050800	Enhancers	Fetal Intestine Small	intestine
14	chr10:98048400-98052800	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr10:98048400-98053200	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr10:98048400-98053600	Enhancers	Primary B cells from peripheral blood	blood
17	chr10:98048600-98049400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr10:98048600-98049800	Enhancers	Primary B cells from cord blood	blood
19	chr10:98048600-98050400	Weak transcription	Dnd41	blood
20	chr10:98048600-98053400	Weak transcription	Liver	Liver
21	chr10:98048600-98058800	Weak transcription	Primary hematopoietic stem cells	blood
22	chr10:98048800-98050200	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr10:98048800-98053400	Weak transcription	Duodenum Mucosa	Duodenum
24	chr10:98049000-98050000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr10:98049200-98049400	Flanking Active TSS	GM12878-XiMat	blood

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