Variant report

Variant	rs6788190
Chromosome Location	chr3:17786057-17786058
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:17784350..17786060-chr3:17852299..17855085,2	K562	blood:
2	chr3:17749964..17751478-chr3:17784690..17787099,2	MCF-7	breast:

Extended variants
information (count: 132 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:131)

rs_ID	r²[population]
rs10510477	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11128837	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11128840	0.82[EUR][1000 genomes]
rs11128841	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11128843	0.83[EUR][1000 genomes]
rs11128844	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11128848	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11128849	0.81[EUR][1000 genomes]
rs11128850	0.81[EUR][1000 genomes]
rs11128852	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11719266	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11719326	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11927637	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11929111	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12487248	0.88[EUR][1000 genomes]
rs12487916	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12488591	0.88[EUR][1000 genomes]
rs12497320	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12631291	0.89[EUR][1000 genomes]
rs12632570	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12634674	0.88[EUR][1000 genomes]
rs13061771	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13065637	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13071728	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13071934	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13076724	0.81[EUR][1000 genomes]
rs13079096	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13083917	0.88[EUR][1000 genomes]
rs13085167	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13096559	0.88[EUR][1000 genomes]
rs13097908	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34297417	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34485427	0.88[EUR][1000 genomes]
rs34487714	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34786175	0.86[EUR][1000 genomes]
rs34990533	0.86[EUR][1000 genomes]
rs35460334	0.81[EUR][1000 genomes]
rs35642812	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35697509	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4128509	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4243835	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4243836	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4243838	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4312680	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4349529	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4431138	0.89[EUR][1000 genomes]
rs4435673	0.81[EUR][1000 genomes]
rs4435674	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4444738	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4470554	0.88[EUR][1000 genomes]
rs4482690	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4484221	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4513482	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4566567	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4566568	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4568172	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4589965	0.88[EUR][1000 genomes]
rs4602424	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4611850	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4643736	0.80[AMR][1000 genomes]
rs4908938	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4908939	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4908940	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4908958	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4908963	0.89[EUR][1000 genomes]
rs4908964	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4908965	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4908966	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4908967	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4908968	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4908969	0.89[EUR][1000 genomes]
rs4908970	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4908971	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4908972	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4908973	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4908987	0.88[EUR][1000 genomes]
rs4908992	0.88[EUR][1000 genomes]
rs4909009	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4909010	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4909012	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs5014632	0.88[EUR][1000 genomes]
rs55701200	0.88[EUR][1000 genomes]
rs57309958	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61081795	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6577616	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6577617	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6577619	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6577622	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6577643	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6577644	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6768637	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6779834	0.87[EUR][1000 genomes]
rs6789467	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6789697	0.87[EUR][1000 genomes]
rs6792422	0.88[EUR][1000 genomes]
rs6795189	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6796448	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6797952	0.88[EUR][1000 genomes]
rs6803312	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6804837	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6809062	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6809775	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6810235	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7427588	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7431897	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7609916	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7613953	0.81[EUR][1000 genomes]
rs7617683	0.88[EUR][1000 genomes]
rs7622878	0.83[EUR][1000 genomes]
rs7627732	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7630695	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7632240	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7633601	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7647914	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7647928	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7650617	0.80[EUR][1000 genomes]
rs7652156	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8179983	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9681232	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9681617	0.87[EUR][1000 genomes]
rs9681644	0.83[EUR][1000 genomes]
rs9681893	0.89[EUR][1000 genomes]
rs9816920	0.87[EUR][1000 genomes]
rs9821955	0.86[EUR][1000 genomes]
rs9847461	0.84[EUR][1000 genomes]
rs9853571	0.86[EUR][1000 genomes]
rs9857910	0.88[EUR][1000 genomes]
rs9867064	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9880456	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9880971	0.85[EUR][1000 genomes]
rs9881089	0.85[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999594	chr3:17690416-17982318	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17784600-17788600	Weak transcription	Spleen	Spleen
2	chr3:17784800-17788400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr3:17784800-17788400	Weak transcription	Small Intestine	intestine
4	chr3:17784800-17788600	Weak transcription	Fetal Muscle Trunk	muscle
5	chr3:17784800-17788800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:17784800-17790600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr3:17784800-17790800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr3:17784800-17790800	Weak transcription	Gastric	stomach
9	chr3:17784800-17794000	Weak transcription	Pancreas	Pancrea
10	chr3:17785000-17786800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr3:17785000-17787000	Enhancers	Liver	Liver
12	chr3:17785000-17787400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr3:17785000-17788400	Weak transcription	HSMM	muscle
14	chr3:17785000-17788600	Weak transcription	HSMMtube	muscle
15	chr3:17785000-17788800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr3:17785000-17789000	Weak transcription	Primary T cells from cord blood	blood
17	chr3:17785000-17790600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr3:17785000-17790600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr3:17785000-17794000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr3:17785200-17787000	Weak transcription	Brain Anterior Caudate	brain
21	chr3:17785200-17787000	Weak transcription	Brain Hippocampus Middle	brain
22	chr3:17785200-17787000	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr3:17785200-17788400	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr3:17785200-17788800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr3:17785200-17788800	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr3:17785200-17788800	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr3:17785200-17788800	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr3:17785200-17789000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
29	chr3:17785200-17789000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr3:17785200-17790600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr3:17785200-17790600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr3:17785200-17790600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
33	chr3:17785200-17790800	Weak transcription	Primary T helper cells fromperipheralblood	blood
34	chr3:17785400-17786800	Weak transcription	Brain Cingulate Gyrus	brain
35	chr3:17785400-17786800	Weak transcription	Brain Substantia Nigra	brain
36	chr3:17785400-17787000	Weak transcription	Duodenum Mucosa	Duodenum
37	chr3:17785400-17788400	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr3:17785400-17788400	Weak transcription	Primary B cells from cord blood	blood
39	chr3:17785400-17788600	Weak transcription	Fetal Intestine Large	intestine
40	chr3:17785400-17788800	Weak transcription	Fetal Thymus	thymus
41	chr3:17785400-17789000	Weak transcription	Primary T helper cells PMA-I stimulated	--
42	chr3:17785400-17790600	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr3:17785400-17790600	Weak transcription	HMEC	breast
44	chr3:17785400-17790800	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr3:17785400-17790800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr3:17785400-17790800	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr3:17785400-17790800	Weak transcription	NHEK	skin
48	chr3:17785400-17791000	Weak transcription	Primary hematopoietic stem cells	blood
49	chr3:17785600-17786800	Weak transcription	Brain Angular Gyrus	brain
50	chr3:17785600-17787000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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