Variant report

Variant	rs7952759
Chromosome Location	chr12:103828325-103828326
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	chr12:103826728..103828711-chr12:103887263..103890127,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000179088	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10161272	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10507166	1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[YRI][hapmap]
rs10745964	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10745965	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10778241	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10778244	0.85[CHB][hapmap];0.90[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10778246	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10778253	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs10778257	1.00[CHB][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap]
rs10860997	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10861000	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10861005	1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10861008	0.82[ASN][1000 genomes]
rs10861013	1.00[CHB][hapmap];0.85[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10861014	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10861015	1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10861016	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10861022	0.85[CHB][hapmap]
rs11111551	0.82[AMR][1000 genomes]
rs11111555	0.85[CHB][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11111556	1.00[CHB][hapmap];0.90[JPT][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11111572	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11111579	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11111582	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1320345	1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2374045	0.85[CHB][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2374056	1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2374057	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2374065	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2374078	1.00[CHB][hapmap];0.85[JPT][hapmap];0.89[YRI][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2888733	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6539073	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7295887	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7298211	1.00[CHB][hapmap];0.85[JPT][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7300757	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7301460	1.00[CHB][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7302890	1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7303147	1.00[CHB][hapmap];0.90[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7304308	1.00[CHB][hapmap];0.90[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7305704	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs7312095	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7313836	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7313920	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7961410	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs7967288	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7970043	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7970506	0.92[AMR][1000 genomes];0.96[EUR][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	nsv899478	chr12:103747515-103834275	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	esv3338592	chr12:103817534-103849094	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:103812800-103828800	Weak transcription	Primary B cells from cord blood	blood
2	chr12:103824200-103834400	Weak transcription	Primary T cells from cord blood	blood
3	chr12:103827200-103828600	Enhancers	Primary T helper naive cells from peripheral blood	blood
4	chr12:103827400-103828400	Flanking Active TSS	Dnd41	blood
5	chr12:103827400-103828800	Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr12:103827600-103828400	Active TSS	A549	lung
7	chr12:103827600-103828800	Active TSS	HUES6 Cell Line	embryonic stem cell
8	chr12:103827800-103828600	Active TSS	iPS-20b Cell Line	embryonic stem cell
9	chr12:103827800-103828800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
10	chr12:103827800-103834200	Weak transcription	Primary B cells from peripheral blood	blood
11	chr12:103828000-103828400	Enhancers	Primary T cells fromperipheralblood	blood
12	chr12:103828000-103828400	Enhancers	Primary T helper cells fromperipheralblood	blood
13	chr12:103828000-103828800	Active TSS	H9 Cell Line	embryonic stem cell
14	chr12:103828200-103828400	Flanking Active TSS	H1 Cell Line	embryonic stem cell
15	chr12:103828200-103828400	Active TSS	iPS-18 Cell Line	embryonic stem cell
16	chr12:103828200-103828600	Active TSS	iPS-15b Cell Line	embryonic stem cell
17	chr12:103828200-103828600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr12:103828200-103828600	Active TSS	Placenta	Placenta
19	chr12:103828200-103828600	Active TSS	Rectal Mucosa Donor 31	rectum
20	chr12:103828200-103828600	Active TSS	HepG2	liver
21	chr12:103828200-103828800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
22	chr12:103828200-103828800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr12:103828200-103828800	Active TSS	HUES64 Cell Line	embryonic stem cell

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