Variant report

Variant	rs35593940
Chromosome Location	chr6:88263087-88263088
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	chr6:88257019..88262069-chr6:88262854..88269707,6	K562	blood:
2	chr6:88262057..88264563-chr6:88298281..88300642,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135336	Chromatin interaction
ENSG00000146282	Chromatin interaction

Extended variants
information (count: 193 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:188)

rs_ID	r²[population]
rs11962998	0.84[EUR][1000 genomes]
rs13192889	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13193193	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13193303	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13193470	0.81[EUR][1000 genomes]
rs13193703	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13193911	0.93[EUR][1000 genomes]
rs13193927	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13196538	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13196755	0.87[EUR][1000 genomes]
rs13197090	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13198094	0.87[EUR][1000 genomes]
rs13200106	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13202825	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13203056	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13203649	0.87[EUR][1000 genomes]
rs13203790	0.93[EUR][1000 genomes]
rs13203957	0.81[EUR][1000 genomes]
rs13204592	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13204861	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13205357	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13206485	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13206536	0.87[EUR][1000 genomes]
rs13206957	0.87[EUR][1000 genomes]
rs13208201	0.93[EUR][1000 genomes]
rs13208550	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13208933	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13210643	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13211439	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13211833	0.81[EUR][1000 genomes]
rs13212076	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13212089	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13213285	0.87[EUR][1000 genomes]
rs13213812	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13215013	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13215887	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13216482	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13216724	1.00[EUR][1000 genomes]
rs13216727	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13219631	0.81[EUR][1000 genomes]
rs16879475	1.00[EUR][1000 genomes]
rs16879490	1.00[EUR][1000 genomes]
rs16879507	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16879510	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16879517	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16879528	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16879532	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17454834	0.84[AMR][1000 genomes]
rs17455002	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17504209	1.00[EUR][1000 genomes]
rs17504475	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17504517	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2273130	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2273131	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2307383	0.81[EUR][1000 genomes]
rs2307389	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2307393	0.81[EUR][1000 genomes]
rs28360511	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28381452	0.93[EUR][1000 genomes]
rs28381487	0.87[EUR][1000 genomes]
rs28381518	0.81[EUR][1000 genomes]
rs28381552	0.81[EUR][1000 genomes]
rs28385570	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28385591	0.87[EUR][1000 genomes]
rs28385632	0.93[EUR][1000 genomes]
rs34006571	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34007246	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34008333	0.93[EUR][1000 genomes]
rs34054042	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34054261	1.00[EUR][1000 genomes]
rs34107692	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34154420	0.87[EUR][1000 genomes]
rs34220026	0.87[EUR][1000 genomes]
rs34369446	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34385811	0.93[EUR][1000 genomes]
rs34395299	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34423353	0.81[EUR][1000 genomes]
rs34455158	0.87[EUR][1000 genomes]
rs34540725	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34547532	1.00[EUR][1000 genomes]
rs34650015	0.93[EUR][1000 genomes]
rs34727395	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34926624	0.82[EUR][1000 genomes]
rs34941612	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35031351	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35056836	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35058527	0.84[EUR][1000 genomes]
rs35116392	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35145047	0.81[EUR][1000 genomes]
rs35234062	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35237504	1.00[EUR][1000 genomes]
rs35289945	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35303040	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35317752	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35324020	0.81[EUR][1000 genomes]
rs35326820	0.81[EUR][1000 genomes]
rs35350424	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35363104	0.93[EUR][1000 genomes]
rs35396056	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35440627	0.81[EUR][1000 genomes]
rs35465301	0.93[EUR][1000 genomes]
rs35494431	0.81[EUR][1000 genomes]
rs35504787	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35607770	0.81[EUR][1000 genomes]
rs35610797	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35679038	1.00[EUR][1000 genomes]
rs35688969	0.83[EUR][1000 genomes]
rs35866706	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35903880	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35917348	0.81[EUR][1000 genomes]
rs35925514	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35946241	0.81[EUR][1000 genomes]
rs35965137	0.81[EUR][1000 genomes]
rs35972482	0.93[EUR][1000 genomes]
rs36020402	0.87[EUR][1000 genomes]
rs36041712	0.93[EUR][1000 genomes]
rs36090981	0.81[EUR][1000 genomes]
rs3734908	1.00[EUR][1000 genomes]
rs3757369	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3757371	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3763176	0.81[EUR][1000 genomes]
rs3800551	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3823469	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4409162	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4587137	1.00[EUR][1000 genomes]
rs55751639	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55759644	0.87[EUR][1000 genomes]
rs55765303	1.00[EUR][1000 genomes]
rs55766457	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs55880748	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs55960393	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56004408	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs56031077	0.87[EUR][1000 genomes]
rs57526195	0.81[EUR][1000 genomes]
rs59361639	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs60313720	0.81[EUR][1000 genomes]
rs62417663	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62417666	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62417673	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62417674	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62417675	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62417676	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62417680	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62417686	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62417689	0.97[EUR][1000 genomes]
rs62417692	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62417693	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62417698	0.83[EUR][1000 genomes]
rs62417699	0.93[EUR][1000 genomes]
rs62417701	0.93[EUR][1000 genomes]
rs62417715	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62417720	0.87[EUR][1000 genomes]
rs62417727	0.81[EUR][1000 genomes]
rs62417757	0.81[EUR][1000 genomes]
rs62419373	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs62419377	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62419378	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62419386	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6900057	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6902069	0.93[EUR][1000 genomes]
rs6905345	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6905480	1.00[EUR][1000 genomes]
rs6911442	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6911548	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6917424	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6926321	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6927654	0.93[EUR][1000 genomes]
rs6927826	0.93[EUR][1000 genomes]
rs6929542	0.93[EUR][1000 genomes]
rs6940675	0.93[EUR][1000 genomes]
rs71548716	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7738268	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7739772	1.00[EUR][1000 genomes]
rs7740476	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7741170	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7742607	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7744190	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7749032	0.87[EUR][1000 genomes]
rs7750528	0.87[EUR][1000 genomes]
rs7750775	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7750877	0.97[EUR][1000 genomes]
rs7754550	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7757446	1.00[EUR][1000 genomes]
rs7759422	0.87[EUR][1000 genomes]
rs7759648	0.93[EUR][1000 genomes]
rs7760919	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7770458	1.00[EUR][1000 genomes]
rs7771832	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1018155	chr6:88049729-88272862	Strong transcription Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1031961	chr6:88110401-88367006	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv1031460	chr6:88153079-88410050	Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv1026482	chr6:88164934-88409728	Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv1027706	chr6:88168987-88409728	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 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	chr6:88217800-88295800	Weak transcription	Fetal Brain Male	brain
2	chr6:88227800-88298800	Weak transcription	Esophagus	oesophagus
3	chr6:88228400-88298400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:88228600-88271400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr6:88228600-88285200	Weak transcription	Spleen	Spleen
6	chr6:88228800-88269600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr6:88229400-88271200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr6:88229600-88289000	Weak transcription	Lung	lung
9	chr6:88230000-88267000	Weak transcription	Brain Substantia Nigra	brain
10	chr6:88230400-88271200	Weak transcription	Colon Smooth Muscle	Colon
11	chr6:88231200-88264200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr6:88240600-88268200	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr6:88249000-88265600	Strong transcription	HepG2	liver
14	chr6:88249400-88263600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr6:88250000-88275200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr6:88250600-88270800	Weak transcription	Fetal Heart	heart
17	chr6:88250600-88276800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr6:88250600-88281600	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr6:88250800-88270400	Weak transcription	Pancreas	Pancrea
20	chr6:88251000-88281800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr6:88251000-88291400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr6:88251200-88263400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr6:88251200-88270800	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr6:88251200-88271200	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr6:88251200-88275200	Strong transcription	Primary monocytes fromperipheralblood	blood
26	chr6:88251200-88280000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr6:88251200-88280600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr6:88251200-88284800	Weak transcription	Stomach Mucosa	stomach
29	chr6:88253600-88274800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr6:88254200-88283600	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr6:88254600-88265000	Weak transcription	NHDF-Ad	bronchial
32	chr6:88254800-88272000	Weak transcription	Fetal Brain Female	brain
33	chr6:88255000-88263200	Weak transcription	Thymus	Thymus
34	chr6:88255000-88270400	Weak transcription	Ovary	ovary
35	chr6:88255000-88271200	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr6:88255000-88272000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
37	chr6:88255000-88272000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr6:88255200-88263200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr6:88255200-88264000	Weak transcription	NHLF	lung
40	chr6:88255200-88270200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr6:88255200-88272000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr6:88256000-88284000	Weak transcription	Psoas Muscle	Psoas
43	chr6:88256200-88297600	Weak transcription	Right Ventricle	heart
44	chr6:88256400-88264200	Weak transcription	Aorta	Aorta
45	chr6:88256400-88271000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
46	chr6:88256400-88295800	Weak transcription	Gastric	stomach
47	chr6:88256800-88263200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr6:88257400-88268600	Strong transcription	Primary T helper cells PMA-I stimulated	--
49	chr6:88257600-88274800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr6:88258200-88274400	Strong transcription	Liver	Liver

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