Variant report

Variant	rs2899640
Chromosome Location	chr15:59352480-59352481
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:59352012..59354912-chr15:59357876..59359782,2	K562	blood:
2	chr15:59352406..59354912-chr15:59358282..59360921,2	K562	blood:

Extended variants
information (count: 135 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:127)

rs_ID	r²[population]
rs10431762	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10431791	0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs10431792	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10518996	0.86[JPT][hapmap]
rs1074702	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10851642	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10851643	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs11071405	0.90[ASN][1000 genomes]
rs11539756	0.86[AMR][1000 genomes]
rs11635820	0.82[JPT][hapmap]
rs11852461	0.83[JPT][hapmap]
rs11855536	0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs12050865	0.89[ASN][1000 genomes]
rs12101733	0.82[ASN][1000 genomes]
rs12437587	0.82[ASN][1000 genomes]
rs12438111	0.94[CEU][hapmap];0.82[CHB][hapmap];0.82[JPT][hapmap];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12438128	0.87[ASN][1000 genomes]
rs12438208	0.94[CEU][hapmap];0.91[CHB][hapmap];0.96[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12438962	0.94[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12440692	0.88[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12441973	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12442086	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12442134	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12442301	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12900369	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12902628	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12906212	0.94[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12907187	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12907277	0.88[AMR][1000 genomes]
rs12907957	0.89[ASN][1000 genomes]
rs12910987	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12912429	0.95[ASN][1000 genomes]
rs12913177	0.88[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12915899	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12917373	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1374155	0.86[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs1374156	0.81[ASN][1000 genomes]
rs1446237	0.86[CHB][hapmap];0.96[JPT][hapmap];0.96[ASN][1000 genomes]
rs1446238	0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs1446239	0.84[ASN][1000 genomes]
rs1665050	0.82[JPT][hapmap]
rs1665051	0.82[JPT][hapmap]
rs16940998	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs16941014	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17236369	0.82[JPT][hapmap]
rs17236383	0.86[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs17236453	0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17302142	0.96[ASN][1000 genomes]
rs17302163	0.82[ASN][1000 genomes]
rs17302191	0.91[JPT][hapmap]
rs1867757	0.81[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs1968606	0.89[ASN][1000 genomes]
rs1968607	0.89[ASN][1000 genomes]
rs1971181	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1975534	0.91[ASN][1000 genomes]
rs2084161	0.86[CHB][hapmap]
rs2121236	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs2121237	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2289895	0.94[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2414618	0.89[ASN][1000 genomes]
rs28383505	0.83[ASN][1000 genomes]
rs28391430	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28514475	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28610479	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34338282	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34407560	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34859729	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34977427	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs35066133	0.84[ASN][1000 genomes]
rs35168204	0.83[AMR][1000 genomes]
rs35204615	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs35210199	0.88[ASN][1000 genomes]
rs35460138	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35555888	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs35658945	0.88[ASN][1000 genomes]
rs35769647	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs36125140	0.96[ASN][1000 genomes]
rs3794501	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4531679	0.82[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap]
rs4774320	0.86[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs4774321	0.83[JPT][hapmap]
rs4775110	0.81[JPT][hapmap]
rs4775111	0.82[JPT][hapmap]
rs4775114	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4775115	0.95[ASN][1000 genomes]
rs57361749	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57557135	0.96[ASN][1000 genomes]
rs58087223	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58335303	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs58417366	0.84[ASN][1000 genomes]
rs59282449	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59514650	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59540276	0.89[ASN][1000 genomes]
rs60262196	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60741546	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61022867	0.89[ASN][1000 genomes]
rs62002543	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62002544	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62004080	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6494054	0.82[JPT][hapmap]
rs6494064	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs6494065	0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs6494069	0.82[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap]
rs71480503	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7169181	0.83[JPT][hapmap]
rs7173135	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs7175490	0.86[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs7178935	0.82[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs73418863	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73418864	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs8026611	0.80[ASN][1000 genomes]
rs8028752	0.86[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs8028764	0.82[JPT][hapmap]
rs8030246	0.86[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs8030323	0.94[ASN][1000 genomes]
rs8031390	0.95[ASN][1000 genomes]
rs8036907	0.82[AMR][1000 genomes]
rs8037569	0.82[JPT][hapmap]
rs8039514	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs8040456	0.94[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8041221	0.82[JPT][hapmap]
rs8041704	0.81[ASN][1000 genomes]
rs8042516	0.88[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8042896	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs877269	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9302206	0.82[JPT][hapmap]
rs9788719	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34110	chr15:58949991-59381634	Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers 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	87 gene(s)	inside rSNPs	diseases
2	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
3	esv1850946	chr15:59174539-59429160	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats 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	70 gene(s)	inside rSNPs	diseases
4	nsv904271	chr15:59249584-59393011	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv520679	chr15:59268410-59376531	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv520872	chr15:59268410-59395184	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
7	nsv510663	chr15:59310676-59370041	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
8	nsv833025	chr15:59336148-59522176	Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59281200-59352600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr15:59281800-59353400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr15:59283800-59359000	Weak transcription	Fetal Brain Male	brain
4	chr15:59305400-59354400	Weak transcription	Gastric	stomach
5	chr15:59306000-59353400	Weak transcription	Fetal Heart	heart
6	chr15:59308400-59358000	Weak transcription	Spleen	Spleen
7	chr15:59309200-59359000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr15:59323600-59359000	Weak transcription	Esophagus	oesophagus
9	chr15:59325000-59354800	Weak transcription	Rectal Smooth Muscle	rectum
10	chr15:59326400-59365200	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr15:59329200-59352600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr15:59329400-59352600	Weak transcription	Pancreas	Pancrea
13	chr15:59332400-59358200	Weak transcription	Brain Cingulate Gyrus	brain
14	chr15:59335800-59354400	Weak transcription	Psoas Muscle	Psoas
15	chr15:59339800-59352600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr15:59340000-59352600	Weak transcription	Ovary	ovary
17	chr15:59341000-59353600	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr15:59342400-59364400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr15:59342400-59365400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr15:59344200-59356200	Strong transcription	K562	blood
21	chr15:59344200-59364400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr15:59344200-59364400	Strong transcription	HUES64 Cell Line	embryonic stem cell
23	chr15:59344400-59354600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr15:59344400-59356200	Strong transcription	A549	lung
25	chr15:59344400-59358000	Weak transcription	Right Ventricle	heart
26	chr15:59344400-59363200	Strong transcription	Duodenum Mucosa	Duodenum
27	chr15:59344400-59364200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr15:59344400-59392800	Strong transcription	Monocytes-CD14+_RO01746	blood
29	chr15:59344600-59363200	Strong transcription	Primary T helper cells PMA-I stimulated	--
30	chr15:59344600-59363800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr15:59344600-59363800	Strong transcription	Fetal Thymus	thymus
32	chr15:59344800-59353400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr15:59344800-59353600	Strong transcription	Primary B cells from peripheral blood	blood
34	chr15:59344800-59354600	Strong transcription	Primary monocytes fromperipheralblood	blood
35	chr15:59344800-59354800	Strong transcription	Osteobl	bone
36	chr15:59344800-59355000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr15:59344800-59355000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr15:59344800-59363000	Strong transcription	Hela-S3	cervix
39	chr15:59344800-59363200	Strong transcription	Primary B cells from cord blood	blood
40	chr15:59344800-59363800	Strong transcription	Primary T cells fromperipheralblood	blood
41	chr15:59344800-59363800	Strong transcription	Dnd41	blood
42	chr15:59344800-59364600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr15:59344800-59364600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr15:59344800-59366400	Strong transcription	Placenta	Placenta
45	chr15:59344800-59370400	Strong transcription	Primary T cells from cord blood	blood
46	chr15:59345000-59353000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr15:59345000-59355000	Strong transcription	Primary neutrophils fromperipheralblood	blood
48	chr15:59345000-59356000	Strong transcription	Rectal Mucosa Donor 29	rectum
49	chr15:59345000-59363000	Strong transcription	Duodenum Smooth Muscle	Duodenum
50	chr15:59345200-59354800	Strong transcription	Liver	Liver

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