Variant report

Variant	rs59960186
Chromosome Location	chr2:172293467-172293468
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:172288399..172297381-chr2:172370978..172381493,22	K562	blood:
2	chr2:172013756..172019540-chr2:172285624..172293532,16	K562	blood:
3	chr2:172016933..172018793-chr2:172293106..172294820,2	MCF-7	breast:
4	chr2:172288399..172293582-chr2:172376630..172381034,10	K562	blood:
5	chr2:172287467..172293160-chr2:172293206..172300397,21	K562	blood:

Variant related genes	Relation type
ENSG00000198586	Chromatin interaction
ENSG00000233762	Chromatin interaction
ENSG00000123600	Chromatin interaction
ENSG00000115827	Chromatin interaction
ENSG00000071967	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10445722	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10515933	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12151641	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1558936	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs17220419	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs17220440	0.86[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs17220608	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17220657	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17220699	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17220734	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17221367	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs17221402	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs17286415	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs17286660	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1861899	0.81[ASN][1000 genomes]
rs1981788	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2356781	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs36112363	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3731981	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3731982	0.81[ASN][1000 genomes]
rs3731983	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3731985	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3795998	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3821084	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4417688	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4458186	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4496302	0.85[AMR][1000 genomes]
rs4522571	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4668385	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4668386	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4668387	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs56410960	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57099324	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs58536060	0.81[ASN][1000 genomes]
rs60439518	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs62183467	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs62183468	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs62183470	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62183471	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62183472	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs62183492	0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs62183493	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs62183494	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs62183495	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs62183497	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs62183498	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs62183499	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs62183502	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs62183503	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs62183506	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs62183507	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs62183539	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6433290	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6433292	0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6713612	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6720250	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6740733	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6741806	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6743290	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7568037	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7572334	0.83[ASN][1000 genomes]
rs7576894	0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7606658	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9678149	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9678164	0.90[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9679537	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9789572	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9789596	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3382346	chr2:172062677-172363892	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	esv3349868	chr2:172276494-172302401	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	22 gene(s)	inside rSNPs	diseases
3	esv1832950	chr2:172283513-172488111	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 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	chr2:172291000-172319800	Weak transcription	Stomach Mucosa	stomach
2	chr2:172291400-172295200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr2:172291400-172296200	Weak transcription	Lung	lung
4	chr2:172291400-172296200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr2:172291400-172296200	Weak transcription	Spleen	Spleen
6	chr2:172291400-172296400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:172291400-172296400	Weak transcription	Aorta	Aorta
8	chr2:172291400-172296400	Weak transcription	Small Intestine	intestine
9	chr2:172291400-172297800	Weak transcription	Esophagus	oesophagus
10	chr2:172291400-172297800	Weak transcription	Gastric	stomach
11	chr2:172291600-172295200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr2:172291600-172295200	Weak transcription	Fetal Muscle Trunk	muscle
13	chr2:172291600-172295200	Weak transcription	Ovary	ovary
14	chr2:172291600-172296000	Weak transcription	Right Ventricle	heart
15	chr2:172291600-172297800	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr2:172291600-172304000	Weak transcription	Pancreas	Pancrea
17	chr2:172291600-172305200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr2:172291600-172311800	Weak transcription	Fetal Brain Male	brain
19	chr2:172291800-172293800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr2:172291800-172295000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr2:172291800-172295200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr2:172291800-172295200	Weak transcription	Fetal Stomach	stomach
23	chr2:172291800-172296400	Weak transcription	Brain Germinal Matrix	brain
24	chr2:172291800-172296400	Weak transcription	Colonic Mucosa	Colon
25	chr2:172291800-172296600	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr2:172291800-172297800	Weak transcription	HSMMtube	muscle
27	chr2:172291800-172300000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
28	chr2:172291800-172306400	Weak transcription	Psoas Muscle	Psoas
29	chr2:172291800-172338200	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr2:172292000-172293600	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr2:172292000-172293600	Weak transcription	NH-A	brain
32	chr2:172292000-172293800	Weak transcription	Colon Smooth Muscle	Colon
33	chr2:172292000-172295200	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr2:172292000-172296000	Weak transcription	Thymus	Thymus
35	chr2:172292000-172296400	Weak transcription	Stomach Smooth Muscle	stomach
36	chr2:172292000-172297200	Weak transcription	NHLF	lung
37	chr2:172292000-172304400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr2:172292000-172312800	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr2:172292000-172341600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr2:172292200-172294000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr2:172292200-172294200	Strong transcription	Fetal Kidney	kidney
42	chr2:172292200-172294800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr2:172292200-172295200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
44	chr2:172292200-172295400	Weak transcription	Fetal Heart	heart
45	chr2:172292200-172297400	Weak transcription	Hela-S3	cervix
46	chr2:172292400-172293600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr2:172292400-172294000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr2:172292400-172294000	Strong transcription	Fetal Lung	lung
49	chr2:172292400-172294600	Weak transcription	Brain Angular Gyrus	brain
50	chr2:172292400-172295200	Strong transcription	Skeletal Muscle Female	skeletal muscle

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