Variant report

Variant	rs58812575
Chromosome Location	chr15:52653087-52653088
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

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

rs_ID	r²[population]
rs10518683	0.82[AFR][1000 genomes]
rs10518688	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1108808	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12101973	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13329278	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13329402	0.83[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	0.82[AFR][1000 genomes];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	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964915	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964919	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964921	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964924	0.98[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	0.82[AFR][1000 genomes];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	0.80[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	1.00[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	0.84[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	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28499517	0.87[ASN][1000 genomes]
rs28503750	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28508266	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28514341	0.94[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	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28564655	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28590330	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28594692	0.97[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	0.82[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	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28653534	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28655190	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28657676	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	0.97[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	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3764230	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4499185	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4624108	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4776042	1.00[ASN][1000 genomes]
rs4987194	0.84[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	0.81[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	1.00[ASN][1000 genomes]
rs7164164	1.00[AMR][1000 genomes]
rs7164722	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7164872	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7166034	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7167181	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7167680	0.84[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	0.97[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	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7169104	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7169346	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7170622	0.96[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	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73408408	0.84[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	0.81[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	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73410713	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73410715	1.00[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	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8023623	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8024412	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8024624	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8027637	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8027777	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8035199	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8040369	0.81[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	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8042245	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs876549	0.84[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:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52607800-52657800	Weak transcription	Small Intestine	intestine
2	chr15:52609800-52677600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:52611800-52675800	Weak transcription	Gastric	stomach
4	chr15:52613600-52666600	Weak transcription	Right Ventricle	heart
5	chr15:52614800-52653200	Weak transcription	Colonic Mucosa	Colon
6	chr15:52620600-52659200	Weak transcription	Fetal Lung	lung
7	chr15:52621200-52666600	Weak transcription	Fetal Brain Male	brain
8	chr15:52621800-52662200	Weak transcription	Psoas Muscle	Psoas
9	chr15:52630600-52684800	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr15:52631600-52679200	Weak transcription	Fetal Intestine Small	intestine
11	chr15:52632600-52670400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr15:52632800-52657400	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr15:52632800-52662200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr15:52633600-52662200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr15:52638000-52671600	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr15:52640200-52655000	Weak transcription	Liver	Liver
17	chr15:52640600-52666600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr15:52641800-52666800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr15:52643600-52655600	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr15:52643800-52654000	Weak transcription	Osteobl	bone
21	chr15:52643800-52655400	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr15:52644000-52664200	Weak transcription	NHLF	lung
23	chr15:52644000-52666600	Weak transcription	Fetal Muscle Trunk	muscle
24	chr15:52644200-52661000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr15:52644200-52680800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr15:52644600-52653400	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr15:52644600-52654200	Weak transcription	Right Atrium	heart
28	chr15:52644600-52660200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
29	chr15:52644600-52661200	Weak transcription	Thymus	Thymus
30	chr15:52644600-52661600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr15:52644600-52662000	Weak transcription	Rectal Smooth Muscle	rectum
32	chr15:52644600-52662200	Weak transcription	Fetal Muscle Leg	muscle
33	chr15:52644600-52662400	Weak transcription	Duodenum Mucosa	Duodenum
34	chr15:52644600-52662400	Weak transcription	Fetal Stomach	stomach
35	chr15:52644600-52663800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr15:52644600-52663800	Weak transcription	Spleen	Spleen
37	chr15:52644600-52665400	Weak transcription	A549	lung
38	chr15:52644600-52730200	Weak transcription	Esophagus	oesophagus
39	chr15:52644800-52653200	Strong transcription	Primary monocytes fromperipheralblood	blood
40	chr15:52644800-52655600	Weak transcription	Dnd41	blood
41	chr15:52645600-52661200	Weak transcription	NH-A	brain
42	chr15:52645800-52657400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr15:52645800-52661000	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr15:52645800-52661000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr15:52646000-52660400	Weak transcription	Placenta	Placenta
46	chr15:52646000-52661600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr15:52646200-52654200	Weak transcription	Brain Germinal Matrix	brain
48	chr15:52646200-52655000	Weak transcription	Fetal Thymus	thymus
49	chr15:52646200-52657200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr15:52646200-52660600	Weak transcription	Skeletal Muscle Male	skeletal muscle

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