Variant report

Variant	rs13329417
Chromosome Location	chr15:52701336-52701337
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:52700906..52703355-chr15:52710486..52712910,2	MCF-7	breast:
2	chr15:52701268..52703457-chr15:52706501..52708965,2	MCF-7	breast:

Extended variants
information (count: 147 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:143)

rs_ID	r²[population]
rs10518688	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1108808	1.00[EUR][1000 genomes]
rs12101973	1.00[EUR][1000 genomes]
rs13329087	0.88[YRI][hapmap];0.89[AFR][1000 genomes]
rs13329278	1.00[EUR][1000 genomes]
rs13329402	1.00[EUR][1000 genomes]
rs13329500	1.00[EUR][1000 genomes]
rs13329510	0.87[ASN][1000 genomes]
rs16964891	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs16964903	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs16964910	1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs16964915	1.00[EUR][1000 genomes]
rs16964919	1.00[EUR][1000 genomes]
rs16964921	1.00[EUR][1000 genomes]
rs16964924	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs16964927	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs16964928	1.00[EUR][1000 genomes]
rs16964935	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16964944	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16964952	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1724577	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2222656	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2414137	1.00[EUR][1000 genomes]
rs2414138	1.00[EUR][1000 genomes]
rs2600903	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2600904	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs28366864	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28367336	1.00[EUR][1000 genomes]
rs28367508	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28374631	1.00[EUR][1000 genomes]
rs28401713	1.00[AMR][1000 genomes]
rs28409636	1.00[EUR][1000 genomes]
rs28409760	1.00[EUR][1000 genomes]
rs28415069	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28415349	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28415472	1.00[ASN][1000 genomes]
rs28421476	1.00[ASN][1000 genomes]
rs28426997	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28444393	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28462026	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28475475	1.00[EUR][1000 genomes]
rs28479614	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28480975	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28483042	0.87[ASN][1000 genomes]
rs28485251	1.00[ASN][1000 genomes]
rs28485735	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28488423	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28496242	1.00[EUR][1000 genomes]
rs28499517	1.00[ASN][1000 genomes]
rs28503750	1.00[EUR][1000 genomes]
rs28508266	1.00[EUR][1000 genomes]
rs28510975	1.00[AMR][1000 genomes]
rs28514341	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28515624	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28532168	1.00[EUR][1000 genomes]
rs28534436	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28538563	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28545705	1.00[AMR][1000 genomes]
rs28552981	1.00[EUR][1000 genomes]
rs28556657	1.00[EUR][1000 genomes]
rs28564655	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28570350	0.87[ASN][1000 genomes]
rs28578651	1.00[AMR][1000 genomes]
rs28589619	1.00[AMR][1000 genomes]
rs28590330	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28594692	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28605633	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28613360	1.00[ASN][1000 genomes]
rs28618215	0.87[ASN][1000 genomes]
rs28633243	1.00[EUR][1000 genomes]
rs28638475	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28642806	1.00[AMR][1000 genomes]
rs28648824	0.82[AFR][1000 genomes]
rs28649737	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28650960	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28653534	1.00[EUR][1000 genomes]
rs28655190	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28660682	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28661501	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28663524	1.00[ASN][1000 genomes]
rs28669685	0.87[ASN][1000 genomes]
rs28682547	1.00[ASN][1000 genomes]
rs28687913	0.87[ASN][1000 genomes]
rs28693941	1.00[EUR][1000 genomes]
rs28697879	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28701803	1.00[AMR][1000 genomes]
rs28729511	1.00[ASN][1000 genomes]
rs28735959	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28756182	1.00[EUR][1000 genomes]
rs28761013	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28786736	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28795685	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28814321	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28840839	0.87[ASN][1000 genomes]
rs28876722	0.87[ASN][1000 genomes]
rs3764226	1.00[AMR][1000 genomes]
rs4499185	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4624108	1.00[EUR][1000 genomes]
rs4776042	0.87[ASN][1000 genomes]
rs4987194	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57864537	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs58029714	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs58812575	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7163569	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7164722	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7164872	1.00[EUR][1000 genomes]
rs7166034	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7167181	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7167680	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7167916	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7168076	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7168251	1.00[EUR][1000 genomes]
rs7169104	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7169346	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7170622	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7178069	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7179156	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7182148	1.00[EUR][1000 genomes]
rs73408408	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs73408415	1.00[EUR][1000 genomes]
rs73408465	1.00[EUR][1000 genomes]
rs73408469	1.00[EUR][1000 genomes]
rs73408478	1.00[EUR][1000 genomes]
rs73410713	1.00[EUR][1000 genomes]
rs73410715	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73410759	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7342673	1.00[JPT][hapmap]
rs744501	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8023623	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8024412	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs8024624	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs8027637	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs8027777	1.00[EUR][1000 genomes]
rs8035199	1.00[EUR][1000 genomes]
rs8040369	1.00[EUR][1000 genomes]
rs8041819	1.00[EUR][1000 genomes]
rs8042235	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs8042245	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs876549	1.00[EUR][1000 genomes]
rs9744852	1.00[EUR][1000 genomes]
rs9920195	1.00[ASN][1000 genomes]
rs9920739	1.00[EUR][1000 genomes]
rs9920749	1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv1054899	chr15:52662365-52803756	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52644600-52730200	Weak transcription	Esophagus	oesophagus
2	chr15:52663200-52711400	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr15:52663400-52708600	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr15:52665200-52720600	Weak transcription	Pancreas	Pancrea
5	chr15:52668800-52730400	Weak transcription	Aorta	Aorta
6	chr15:52673800-52730200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr15:52674000-52703800	Weak transcription	Fetal Brain Male	brain
8	chr15:52676000-52705600	Weak transcription	Fetal Stomach	stomach
9	chr15:52676200-52701800	Weak transcription	Colon Smooth Muscle	Colon
10	chr15:52676400-52709800	Weak transcription	NHLF	lung
11	chr15:52676400-52721400	Weak transcription	Gastric	stomach
12	chr15:52676600-52701800	Weak transcription	Right Ventricle	heart
13	chr15:52676600-52706400	Weak transcription	Lung	lung
14	chr15:52676600-52718600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr15:52677000-52730000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr15:52679800-52729600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr15:52679800-52740000	Weak transcription	Spleen	Spleen
18	chr15:52680600-52719800	Weak transcription	NH-A	brain
19	chr15:52680800-52716400	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr15:52680800-52730000	Weak transcription	Brain Angular Gyrus	brain
21	chr15:52680800-52740200	Weak transcription	Thymus	Thymus
22	chr15:52681000-52706800	Weak transcription	Brain Substantia Nigra	brain
23	chr15:52684000-52719800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr15:52684800-52719800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr15:52684800-52730000	Weak transcription	Brain Hippocampus Middle	brain
26	chr15:52685000-52717000	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr15:52685400-52706200	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr15:52685400-52711000	Weak transcription	NHDF-Ad	bronchial
29	chr15:52685400-52730000	Weak transcription	Brain Cingulate Gyrus	brain
30	chr15:52685600-52708000	Weak transcription	NHEK	skin
31	chr15:52687000-52714800	Weak transcription	Psoas Muscle	Psoas
32	chr15:52687000-52715000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr15:52687200-52706200	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr15:52689600-52707400	Weak transcription	Fetal Heart	heart
35	chr15:52689600-52730200	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr15:52689600-52730200	Weak transcription	Left Ventricle	heart
37	chr15:52689600-52730400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr15:52689800-52703000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr15:52689800-52706800	Weak transcription	HSMMtube	muscle
40	chr15:52694000-52702800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr15:52694400-52702600	Strong transcription	Primary neutrophils fromperipheralblood	blood
42	chr15:52695200-52703400	Strong transcription	Primary B cells from peripheral blood	blood
43	chr15:52696000-52730200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
44	chr15:52696200-52719800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr15:52697000-52709800	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr15:52697200-52701400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr15:52697200-52701600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chr15:52697200-52703800	Weak transcription	Rectal Smooth Muscle	rectum
49	chr15:52697200-52715000	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr15:52697200-52718400	Weak transcription	Dnd41	blood

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