Variant report

Variant	rs28590330
Chromosome Location	chr15:52625181-52625182
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:52584781..52587931-chr15:52624134..52627138,3	MCF-7	breast:
2	chr15:52604847..52607101-chr15:52623641..52625767,2	K562	blood:
3	chr15:52580244..52584410-chr15:52619433..52625902,7	MCF-7	breast:
4	chr15:52618630..52620915-chr15:52624635..52627078,2	MCF-7	breast:
5	chr15:52586276..52589797-chr15:52624124..52627133,4	MCF-7	breast:
6	chr15:52622486..52625746-chr15:52626312..52630161,4	MCF-7	breast:
7	chr15:52622541..52625275-chr15:52625707..52627338,3	MCF-7	breast:
8	chr15:52624434..52626031-chr15:52969312..52971322,2	MCF-7	breast:
9	chr15:52623951..52626940-chr15:52635253..52637194,2	MCF-7	breast:
10	chr15:52623711..52629622-chr15:52857897..52863465,6	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000128833	Chromatin interaction
ENSG00000047346	Chromatin interaction
ENSG00000128989	Chromatin interaction

Extended variants
information (count: 128 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:126)

rs_ID	r²[population]
rs10518683	0.80[AFR][1000 genomes]
rs10518688	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1108808	0.85[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	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13329402	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13329417	1.00[EUR][1000 genomes];0.87[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];0.93[ASN][1000 genomes]
rs16964903	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16964910	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964915	0.81[AFR][1000 genomes];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	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16964927	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16964928	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964935	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964944	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964952	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1724577	1.00[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	1.00[ASN][1000 genomes]
rs2600904	1.00[ASN][1000 genomes]
rs28366864	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28367336	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28367508	1.00[EUR][1000 genomes];0.93[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	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28415069	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28415349	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28415472	0.87[ASN][1000 genomes]
rs28421476	0.87[ASN][1000 genomes]
rs28426997	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28444393	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28462026	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28475475	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28479614	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28480975	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28485251	0.87[ASN][1000 genomes]
rs28488423	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28496242	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28499517	0.87[ASN][1000 genomes]
rs28503750	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28508266	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28514341	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28515624	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28532168	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28534436	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28538563	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28552981	1.00[EUR][1000 genomes]
rs28556657	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28564655	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28594692	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];0.93[ASN][1000 genomes]
rs28613360	0.87[ASN][1000 genomes]
rs28618215	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28633243	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28638475	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28649737	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28650960	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28653534	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28655190	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28657676	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28660682	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28661501	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28663524	0.87[ASN][1000 genomes]
rs28669685	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28682547	0.87[ASN][1000 genomes]
rs28693941	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28697879	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28729511	0.87[ASN][1000 genomes]
rs28735959	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28756182	0.80[AFR][1000 genomes];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];0.93[ASN][1000 genomes]
rs4624108	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4776042	1.00[ASN][1000 genomes]
rs4987194	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57864537	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58029714	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58812575	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7163242	1.00[AMR][1000 genomes]
rs7163569	1.00[ASN][1000 genomes]
rs7164164	1.00[AMR][1000 genomes]
rs7164722	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7164872	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7166034	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7167181	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7167680	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7167890	0.91[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7167916	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7168076	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7168251	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7169104	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7169346	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7170622	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7178069	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7179156	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7182148	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73408408	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73408415	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73408465	0.83[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	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73410713	0.81[AFR][1000 genomes];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];1.00[ASN][1000 genomes]
rs73410759	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs744501	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8023623	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8024412	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8024624	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8027637	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[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	0.83[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	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8042245	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs876549	0.86[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	0.87[ASN][1000 genomes]
rs9920739	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9920749	1.00[EUR][1000 genomes];1.00[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:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52595800-52628800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr15:52597800-52629600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr15:52597800-52643400	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr15:52600800-52646600	Strong transcription	Primary neutrophils fromperipheralblood	blood
5	chr15:52601000-52643400	Strong transcription	Primary monocytes fromperipheralblood	blood
6	chr15:52607800-52657800	Weak transcription	Small Intestine	intestine
7	chr15:52608600-52629200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr15:52609800-52677600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr15:52610000-52643400	Weak transcription	Placenta	Placenta
10	chr15:52611400-52629400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr15:52611600-52629800	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr15:52611600-52650200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:52611800-52675800	Weak transcription	Gastric	stomach
14	chr15:52613000-52642600	Weak transcription	Colon Smooth Muscle	Colon
15	chr15:52613600-52666600	Weak transcription	Right Ventricle	heart
16	chr15:52614800-52642600	Weak transcription	Esophagus	oesophagus
17	chr15:52614800-52653200	Weak transcription	Colonic Mucosa	Colon
18	chr15:52616800-52631800	Weak transcription	Fetal Stomach	stomach
19	chr15:52619200-52632000	Weak transcription	Fetal Muscle Trunk	muscle
20	chr15:52619600-52632000	Weak transcription	Brain Germinal Matrix	brain
21	chr15:52619800-52628600	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr15:52619800-52640600	Weak transcription	Left Ventricle	heart
23	chr15:52619800-52641200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr15:52620000-52629000	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr15:52620000-52632000	Weak transcription	Lung	lung
26	chr15:52620000-52652200	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr15:52620200-52626400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr15:52620200-52626600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr15:52620200-52629600	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr15:52620600-52659200	Weak transcription	Fetal Lung	lung
31	chr15:52620800-52627000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr15:52621200-52626800	Weak transcription	NHLF	lung
33	chr15:52621200-52666600	Weak transcription	Fetal Brain Male	brain
34	chr15:52621600-52627000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr15:52621800-52640200	Weak transcription	Fetal Brain Female	brain
36	chr15:52621800-52662200	Weak transcription	Psoas Muscle	Psoas
37	chr15:52622000-52626800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr15:52622000-52627000	Weak transcription	HSMM	muscle
39	chr15:52622000-52628000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr15:52622000-52629600	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr15:52622200-52629600	Weak transcription	Primary hematopoietic stem cells	blood
42	chr15:52622200-52631800	Weak transcription	Fetal Muscle Leg	muscle
43	chr15:52622400-52627000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr15:52622400-52629400	Weak transcription	Brain Cingulate Gyrus	brain
45	chr15:52622400-52631800	Weak transcription	Spleen	Spleen
46	chr15:52622400-52632000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr15:52622400-52632000	Weak transcription	Pancreas	Pancrea
48	chr15:52622400-52636000	Weak transcription	Rectal Smooth Muscle	rectum
49	chr15:52622600-52625200	Weak transcription	Duodenum Smooth Muscle	Duodenum
50	chr15:52622600-52625800	Weak transcription	Primary B cells from cord blood	blood

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