Variant report

Variant	rs28594692
Chromosome Location	chr15:52642592-52642593
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52640299..52642947-chr15:52856133..52857726,2	MCF-7	breast:
2	chr15:52642497..52646908-chr15:52859838..52862165,5	MCF-7	breast:
3	chr15:52623392..52624151-chr15:52642370..52643014,2	MCF-7	breast:
4	chr15:52547210..52549304-chr15:52640088..52643022,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128833	Chromatin interaction
ENSG00000128989	Chromatin interaction

Extended variants
information (count: 127 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:125)

rs_ID	r²[population]
rs10518688	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1108808	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12101973	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13329278	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13329402	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13329417	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13329500	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964891	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964903	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964910	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964915	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964919	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964921	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964924	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964927	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964928	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964935	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16964944	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16964952	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1724577	0.93[ASN][1000 genomes]
rs2414137	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2414138	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2600903	0.93[ASN][1000 genomes]
rs2600904	0.93[ASN][1000 genomes]
rs28366864	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28367336	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28367508	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28374631	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28409636	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28409760	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28415069	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28415349	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28415472	0.80[ASN][1000 genomes]
rs28421476	0.80[ASN][1000 genomes]
rs28426997	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28444393	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28462026	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28475475	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28479614	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28480975	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28485251	0.80[ASN][1000 genomes]
rs28488423	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28496242	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28499517	0.80[ASN][1000 genomes]
rs28503750	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28508266	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28514341	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28515624	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28532168	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28534436	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28538563	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28552981	1.00[EUR][1000 genomes]
rs28556657	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28564655	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28590330	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28605633	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28613360	0.80[ASN][1000 genomes]
rs28618215	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs28633243	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28638475	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28649737	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28650960	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28653534	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28655190	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28657676	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28660682	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28661501	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28663524	0.80[ASN][1000 genomes]
rs28669685	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs28682547	0.80[ASN][1000 genomes]
rs28693941	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28697879	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28729511	0.80[ASN][1000 genomes]
rs28735959	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28756182	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3764230	1.00[AMR][1000 genomes]
rs4499185	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4624108	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4776042	0.93[ASN][1000 genomes]
rs4987194	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57864537	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58029714	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58812575	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7163242	1.00[AMR][1000 genomes]
rs7163569	0.93[ASN][1000 genomes]
rs7164164	1.00[AMR][1000 genomes]
rs7164722	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7164872	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7166034	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7167181	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7167680	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7167890	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7167916	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7168076	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7168251	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7169104	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7169346	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7170622	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7178069	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7179156	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7182148	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73408408	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408415	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73408465	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73408469	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73408478	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73410713	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73410715	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73410759	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs744501	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8023623	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8024412	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8024624	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8027637	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8027777	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8035199	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8040369	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8041819	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8042235	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8042245	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs876549	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9744852	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9920195	0.80[ASN][1000 genomes]
rs9920739	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9920749	1.00[EUR][1000 genomes];0.93[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	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

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52597800-52643400	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr15:52600800-52646600	Strong transcription	Primary neutrophils fromperipheralblood	blood
3	chr15:52601000-52643400	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr15:52607800-52657800	Weak transcription	Small Intestine	intestine
5	chr15:52609800-52677600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr15:52610000-52643400	Weak transcription	Placenta	Placenta
7	chr15:52611600-52650200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr15:52611800-52675800	Weak transcription	Gastric	stomach
9	chr15:52613000-52642600	Weak transcription	Colon Smooth Muscle	Colon
10	chr15:52613600-52666600	Weak transcription	Right Ventricle	heart
11	chr15:52614800-52642600	Weak transcription	Esophagus	oesophagus
12	chr15:52614800-52653200	Weak transcription	Colonic Mucosa	Colon
13	chr15:52620000-52652200	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr15:52620600-52659200	Weak transcription	Fetal Lung	lung
15	chr15:52621200-52666600	Weak transcription	Fetal Brain Male	brain
16	chr15:52621800-52662200	Weak transcription	Psoas Muscle	Psoas
17	chr15:52623800-52644200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr15:52627000-52646600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr15:52630600-52684800	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr15:52631600-52679200	Weak transcription	Fetal Intestine Small	intestine
21	chr15:52632600-52643200	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr15:52632600-52643400	Weak transcription	Lung	lung
23	chr15:52632600-52644200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr15:52632600-52670400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr15:52632800-52642600	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr15:52632800-52642600	Weak transcription	NHEK	skin
27	chr15:52632800-52657400	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr15:52632800-52662200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr15:52633000-52643800	Weak transcription	Fetal Muscle Trunk	muscle
30	chr15:52633600-52645400	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr15:52633600-52662200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr15:52633800-52642800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr15:52633800-52643200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr15:52635200-52648200	Strong transcription	Primary B cells from peripheral blood	blood
35	chr15:52636000-52643400	Weak transcription	Right Atrium	heart
36	chr15:52636400-52642600	Weak transcription	Rectal Smooth Muscle	rectum
37	chr15:52636800-52642600	Weak transcription	NH-A	brain
38	chr15:52637000-52642600	Weak transcription	A549	lung
39	chr15:52638000-52671600	Weak transcription	Pancreatic Islets	Pancreatic Islet
40	chr15:52638200-52645800	Strong transcription	Brain Inferior Temporal Lobe	brain
41	chr15:52638800-52642600	Weak transcription	Brain Substantia Nigra	brain
42	chr15:52639400-52644600	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr15:52640200-52642600	Enhancers	HSMMtube	muscle
44	chr15:52640200-52644600	Strong transcription	GM12878-XiMat	blood
45	chr15:52640200-52646200	Strong transcription	Brain Cingulate Gyrus	brain
46	chr15:52640200-52646200	Strong transcription	Fetal Brain Female	brain
47	chr15:52640200-52646400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr15:52640200-52646600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr15:52640200-52647000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr15:52640200-52647600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood

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