Variant report

Variant	rs61741114
Chromosome Location	chr6:106991361-106991362
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs12523666	0.86[AFR][1000 genomes]
rs12525004	0.86[AFR][1000 genomes]
rs12526024	0.86[AFR][1000 genomes]
rs12528136	0.86[AFR][1000 genomes]
rs12528406	0.86[AFR][1000 genomes]
rs12529961	0.86[AFR][1000 genomes]
rs12530093	0.86[AFR][1000 genomes]
rs1676030	0.93[EUR][1000 genomes]
rs17067395	0.86[AFR][1000 genomes]
rs17067428	0.86[AFR][1000 genomes]
rs17495248	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs17495512	0.83[EUR][1000 genomes]
rs17495623	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs17495678	0.93[EUR][1000 genomes]
rs17495742	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs41292422	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs41312800	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs55904932	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs59962977	0.86[AFR][1000 genomes]
rs72939427	0.86[AFR][1000 genomes]
rs72939433	0.86[AFR][1000 genomes]
rs72939434	0.86[AFR][1000 genomes]
rs72939440	0.86[AFR][1000 genomes]
rs72941307	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72941326	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72941373	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72943025	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72943042	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72943087	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72943092	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72943097	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72945007	0.86[AFR][1000 genomes]
rs72945008	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72945013	0.86[AFR][1000 genomes]
rs72945015	0.86[AFR][1000 genomes]
rs72945018	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72945026	0.86[AFR][1000 genomes]
rs72945029	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72945030	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72945035	0.86[AFR][1000 genomes]
rs72945036	0.86[AFR][1000 genomes]
rs72945040	0.86[AFR][1000 genomes]
rs72945045	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72945046	0.86[AFR][1000 genomes]
rs72945047	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72945056	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72945059	0.86[AFR][1000 genomes]
rs72945067	0.93[AMR][1000 genomes]
rs72945068	0.93[AMR][1000 genomes]
rs72945071	0.93[AMR][1000 genomes]
rs72945072	0.93[AMR][1000 genomes]
rs72945075	0.93[AMR][1000 genomes]
rs72945079	0.93[AMR][1000 genomes]
rs72945081	0.93[AMR][1000 genomes]
rs72945093	0.87[AMR][1000 genomes]
rs72945095	0.93[AMR][1000 genomes]
rs72945097	0.93[AMR][1000 genomes]
rs72945098	0.93[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv870375	chr6:106696090-107047892	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
4	nsv1017419	chr6:106984669-106997000	Enhancers Strong transcription Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106961000-107001400	Weak transcription	Gastric	stomach
2	chr6:106964800-107029800	Weak transcription	Small Intestine	intestine
3	chr6:106970600-107022400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:106973600-106992800	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr6:106976600-106991400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr6:106978800-106993800	Weak transcription	NHLF	lung
7	chr6:106979000-107001400	Weak transcription	Pancreas	Pancrea
8	chr6:106981600-106995600	Weak transcription	Colonic Mucosa	Colon
9	chr6:106982400-107000800	Weak transcription	Rectal Smooth Muscle	rectum
10	chr6:106982800-106993200	Weak transcription	HUVEC	blood vessel
11	chr6:106985000-106993800	Weak transcription	NH-A	brain
12	chr6:106985800-107019200	Weak transcription	Aorta	Aorta
13	chr6:106986200-106992000	Strong transcription	Fetal Intestine Small	intestine
14	chr6:106986200-106993400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:106986200-106994000	Weak transcription	Stomach Mucosa	stomach
16	chr6:106986400-106993000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:106986400-106994600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr6:106986400-106995000	Weak transcription	Thymus	Thymus
19	chr6:106986800-106992000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr6:106986800-106994400	Strong transcription	Rectal Mucosa Donor 29	rectum
21	chr6:106987000-106992200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr6:106987000-106993600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr6:106987400-106992000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr6:106987400-106993800	Strong transcription	Primary T cells fromperipheralblood	blood
25	chr6:106987600-106993400	Strong transcription	Primary T helper cells PMA-I stimulated	--
26	chr6:106987800-106993800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr6:106988200-106993200	Strong transcription	Primary B cells from peripheral blood	blood
28	chr6:106988200-106993400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr6:106988200-106993800	Weak transcription	Esophagus	oesophagus
30	chr6:106988200-107001400	Weak transcription	Lung	lung
31	chr6:106988400-106994000	Strong transcription	GM12878-XiMat	blood
32	chr6:106988400-106995600	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr6:106988600-106991800	Weak transcription	Primary hematopoietic stem cells	blood
34	chr6:106988600-106992600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr6:106988600-106993200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr6:106988800-106994600	Strong transcription	Duodenum Mucosa	Duodenum
37	chr6:106989000-106993200	Strong transcription	HMEC	breast
38	chr6:106989000-106994000	Strong transcription	Fetal Intestine Large	intestine
39	chr6:106989200-106993200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr6:106989200-106994000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr6:106989200-106994600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr6:106989400-106991400	Weak transcription	Liver	Liver
43	chr6:106989400-106992400	Strong transcription	Monocytes-CD14+_RO01746	blood
44	chr6:106989400-106992800	Strong transcription	Primary B cells from cord blood	blood
45	chr6:106989400-106993000	Strong transcription	Primary monocytes fromperipheralblood	blood
46	chr6:106989400-106993800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr6:106989800-106991400	Weak transcription	HepG2	liver
48	chr6:106989800-106991800	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr6:106989800-106993800	Strong transcription	Primary neutrophils fromperipheralblood	blood
50	chr6:106989800-106994000	Weak transcription	Hela-S3	cervix

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