Variant report

Variant	rs1022172
Chromosome Location	chr15:77793359-77793360
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	chr15:77793037..77794591-chr15:77835207..77836439,4	MCF-7	breast:

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1005752	0.95[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.87[YRI][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10152181	0.91[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs11072653	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11632966	0.84[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs11633054	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11636554	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs11852471	0.91[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11854328	0.85[JPT][hapmap]
rs11857450	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11857860	0.91[JPT][hapmap]
rs1191196	1.00[CHB][hapmap];0.91[JPT][hapmap];0.93[ASN][1000 genomes]
rs12324627	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12900004	0.86[JPT][hapmap]
rs12901130	1.00[JPT][hapmap]
rs12901503	0.95[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.87[YRI][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12904938	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12905951	0.88[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs12906708	0.90[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs12907746	0.87[JPT][hapmap]
rs12910361	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12910480	0.85[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs12911371	0.93[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs12912050	0.93[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs12914345	0.91[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1389436	0.91[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1473922	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1493700	0.84[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1565756	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1565757	0.86[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1602925	0.93[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs2055901	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34591043	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4886515	0.93[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4886858	0.90[ASN][1000 genomes]
rs4886862	0.93[ASN][1000 genomes]
rs4886866	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4886869	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs4886875	0.91[JPT][hapmap]
rs4886876	0.91[JPT][hapmap]
rs4886877	0.91[JPT][hapmap]
rs59153558	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62007299	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62009066	0.83[ASN][1000 genomes]
rs6495240	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7119	0.96[YRI][hapmap];0.88[AFR][1000 genomes]
rs7166927	0.91[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7167794	0.86[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs7170877	0.86[EUR][1000 genomes]
rs7171448	0.85[EUR][1000 genomes]
rs7172144	0.83[EUR][1000 genomes]
rs7175674	0.91[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7176302	0.91[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7177055	0.85[EUR][1000 genomes]
rs7178572	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8024485	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8030074	0.87[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs8034133	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8037561	0.91[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs869301	0.85[EUR][1000 genomes]
rs907388	0.86[EUR][1000 genomes]
rs952471	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs952472	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs965480	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv1045376	chr15:77354671-77801487	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv542443	chr15:77354671-77801487	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv1043284	chr15:77740632-77884026	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
6	nsv570139	chr15:77762493-77865459	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
7	nsv570140	chr15:77787469-77851535	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77777600-77798600	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr15:77786200-77793400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr15:77786200-77794000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr15:77786200-77800000	Weak transcription	Thymus	Thymus
5	chr15:77786400-77799600	Weak transcription	Primary B cells from cord blood	blood
6	chr15:77786400-77803800	Weak transcription	Primary T cells from cord blood	blood
7	chr15:77789800-77796400	Weak transcription	Duodenum Mucosa	Duodenum
8	chr15:77789800-77798600	Weak transcription	Gastric	stomach
9	chr15:77789800-77799600	Weak transcription	Primary hematopoietic stem cells	blood
10	chr15:77789800-77801000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr15:77790200-77799200	Weak transcription	Primary B cells from peripheral blood	blood
12	chr15:77790600-77799200	Weak transcription	GM12878-XiMat	blood
13	chr15:77790800-77793600	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr15:77791000-77794200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr15:77791000-77794800	Weak transcription	HepG2	liver
16	chr15:77791000-77796000	Weak transcription	Liver	Liver
17	chr15:77791000-77797000	Weak transcription	Lung	lung
18	chr15:77791000-77797400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr15:77791000-77797400	Weak transcription	Pancreas	Pancrea
20	chr15:77791000-77797800	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr15:77791000-77798600	Weak transcription	HSMM	muscle
22	chr15:77791000-77798800	Weak transcription	Fetal Intestine Large	intestine
23	chr15:77791200-77795600	Weak transcription	Placenta	Placenta
24	chr15:77791200-77796200	Weak transcription	Esophagus	oesophagus
25	chr15:77791200-77796800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr15:77791200-77797000	Weak transcription	Fetal Intestine Small	intestine
27	chr15:77791400-77793400	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr15:77791600-77793400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr15:77791600-77793400	Weak transcription	Right Ventricle	heart
30	chr15:77791600-77794600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr15:77791600-77795400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
32	chr15:77791600-77795600	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr15:77791600-77796000	Weak transcription	Spleen	Spleen
34	chr15:77791600-77797000	Weak transcription	Fetal Brain Female	brain
35	chr15:77791600-77798600	Weak transcription	Fetal Kidney	kidney
36	chr15:77791600-77798800	Weak transcription	Rectal Smooth Muscle	rectum
37	chr15:77791600-77798800	Weak transcription	Osteobl	bone
38	chr15:77791600-77799000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr15:77791800-77793600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr15:77791800-77795400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr15:77791800-77796000	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr15:77791800-77797000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr15:77791800-77798200	Weak transcription	Fetal Thymus	thymus
44	chr15:77792000-77793400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr15:77792000-77793400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr15:77792000-77793400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr15:77792000-77793400	Weak transcription	Brain Cingulate Gyrus	brain
48	chr15:77792000-77793400	Weak transcription	Brain Inferior Temporal Lobe	brain
49	chr15:77792000-77793400	Weak transcription	Right Atrium	heart
50	chr15:77792000-77793400	Weak transcription	NHLF	lung

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