Variant report

Variant	rs2415125
Chromosome Location	chr15:72148110-72148111
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	chr15:72132772..72134478-chr15:72147156..72150104,2	MCF-7	breast:

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs11072341	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1120002	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11856068	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12437582	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12441470	0.82[ASN][1000 genomes]
rs12441567	0.82[ASN][1000 genomes]
rs12441622	0.82[ASN][1000 genomes]
rs12443127	0.82[ASN][1000 genomes]
rs12592806	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12593857	0.82[ASN][1000 genomes]
rs12593946	0.82[ASN][1000 genomes]
rs1471688	0.87[AFR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1545825	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16953747	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16956539	0.82[ASN][1000 genomes]
rs1805020	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1805021	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1871834	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1905337	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1979459	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2277544	1.00[CEU][hapmap];0.93[ASN][1000 genomes]
rs2291279	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2306575	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2415124	0.94[AFR][1000 genomes]
rs2415129	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2625526	0.89[ASN][1000 genomes]
rs2723357	0.93[AFR][1000 genomes]
rs2742321	0.90[AFR][1000 genomes]
rs28639924	0.82[ASN][1000 genomes]
rs28653163	0.82[ASN][1000 genomes]
rs28658271	0.93[ASN][1000 genomes]
rs28701834	0.82[ASN][1000 genomes]
rs2899774	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2929514	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2929515	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2929521	0.86[ASN][1000 genomes]
rs2929522	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2929524	0.80[ASN][1000 genomes]
rs2929530	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2929531	1.00[JPT][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2929533	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2957369	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2957726	0.84[ASN][1000 genomes]
rs2957729	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2957730	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2957733	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2957741	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2957747	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2957748	0.82[ASN][1000 genomes]
rs2957749	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35696756	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35773391	0.82[ASN][1000 genomes]
rs3825869	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4511484	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4776583	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4777472	0.80[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs6494976	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7162134	0.90[ASN][1000 genomes]
rs7164646	0.82[ASN][1000 genomes]
rs8032957	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs8033997	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8034436	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8034722	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8182066	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs981695	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9920148	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904334	chr15:71737376-72177659	Strong transcription Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1036938	chr15:71948106-72272855	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	esv3331306	chr15:72049818-72427559	Strong transcription ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers 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	34 gene(s)	inside rSNPs	diseases
4	esv3433206	chr15:72049838-72427529	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv569906	chr15:72126034-72218036	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv516871	chr15:72126034-72325595	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
7	nsv1042740	chr15:72128799-72482239	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
8	nsv542426	chr15:72128799-72482239	Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
9	nsv904336	chr15:72145937-72329906	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72114600-72190600	Weak transcription	Pancreas	Pancrea
2	chr15:72119200-72171800	Weak transcription	Psoas Muscle	Psoas
3	chr15:72122200-72189400	Weak transcription	Right Ventricle	heart
4	chr15:72122400-72195000	Weak transcription	NHEK	skin
5	chr15:72122600-72171800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr15:72122600-72185200	Weak transcription	Esophagus	oesophagus
7	chr15:72122600-72195800	Weak transcription	Gastric	stomach
8	chr15:72131200-72148200	Strong transcription	Placenta	Placenta
9	chr15:72131800-72192800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr15:72134000-72149000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
11	chr15:72136200-72148400	Strong transcription	Primary B cells from peripheral blood	blood
12	chr15:72136200-72148400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr15:72136200-72149000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr15:72136400-72148400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr15:72137000-72156400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr15:72138200-72172400	Weak transcription	HUVEC	blood vessel
17	chr15:72140200-72171800	Weak transcription	HMEC	breast
18	chr15:72141400-72174200	Weak transcription	Fetal Brain Male	brain
19	chr15:72142600-72150800	Weak transcription	HSMM	muscle
20	chr15:72142600-72151200	Weak transcription	HSMMtube	muscle
21	chr15:72142600-72151400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr15:72142600-72154000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr15:72142600-72154600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr15:72142600-72166400	Weak transcription	GM12878-XiMat	blood
25	chr15:72142600-72170200	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr15:72142600-72171800	Weak transcription	NH-A	brain
27	chr15:72142600-72183400	Weak transcription	Brain Angular Gyrus	brain
28	chr15:72142600-72189600	Weak transcription	NHLF	lung
29	chr15:72142600-72199200	Weak transcription	Hela-S3	cervix
30	chr15:72142800-72151200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr15:72142800-72151200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr15:72142800-72170000	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr15:72142800-72171800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr15:72142800-72172000	Weak transcription	Dnd41	blood
35	chr15:72142800-72176000	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr15:72142800-72184800	Weak transcription	A549	lung
37	chr15:72142800-72190200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr15:72143000-72149000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr15:72143000-72163400	Weak transcription	Fetal Intestine Small	intestine
40	chr15:72143000-72172200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr15:72143000-72190600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr15:72143000-72190600	Weak transcription	Colonic Mucosa	Colon
43	chr15:72143200-72152000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
44	chr15:72143200-72152200	Weak transcription	Brain Substantia Nigra	brain
45	chr15:72143400-72151400	Weak transcription	Fetal Kidney	kidney
46	chr15:72143800-72152000	Weak transcription	Rectal Smooth Muscle	rectum
47	chr15:72143800-72160200	Weak transcription	Aorta	Aorta
48	chr15:72143800-72172000	Weak transcription	Brain Germinal Matrix	brain
49	chr15:72144000-72166400	Weak transcription	Ovary	ovary
50	chr15:72144200-72170400	Weak transcription	NHDF-Ad	bronchial

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