Variant report

Variant	rs9461106
Chromosome Location	chr6:25132710-25132711
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs1046141	0.88[AFR][1000 genomes]
rs1046142	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs1128826	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs1128827	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs11963128	0.85[EUR][1000 genomes]
rs11965266	0.85[EUR][1000 genomes]
rs12332924	0.82[AFR][1000 genomes]
rs12333217	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12333219	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12333222	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12333327	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs16890032	0.85[EUR][1000 genomes]
rs16890067	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs16890087	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs16890100	0.95[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs2516576	0.97[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2516578	0.89[AFR][1000 genomes]
rs4538700	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6456647	0.88[AFR][1000 genomes]
rs6456648	0.85[EUR][1000 genomes]
rs6905460	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6905554	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6905624	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6906421	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6913324	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6913346	0.88[AFR][1000 genomes]
rs6915329	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6925889	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6926671	0.83[AFR][1000 genomes]
rs7740848	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs7745550	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs7745609	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs7755584	0.89[AFR][1000 genomes]
rs7756507	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs7762804	0.95[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7773107	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs7774557	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs916537	0.97[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs916538	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs916539	0.97[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9461096	0.85[EUR][1000 genomes]
rs9461101	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9461104	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9467388	0.86[AFR][1000 genomes]
rs9467394	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9467395	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9467396	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9467397	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9467398	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9467399	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9467400	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9467401	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9467403	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9467404	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9467405	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9467406	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9467407	0.83[AFR][1000 genomes]
rs9467408	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9467409	0.91[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9467410	0.91[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9467411	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv1023989	chr6:24930362-25285679	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
4	nsv830611	chr6:25039374-25199112	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	nsv470806	chr6:25082262-25156197	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv462662	chr6:25084718-25165486	Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv601166	chr6:25084718-25165486	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25103800-25134800	Weak transcription	Psoas Muscle	Psoas
2	chr6:25104800-25136800	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr6:25110800-25133400	Weak transcription	Aorta	Aorta
4	chr6:25113000-25136800	Weak transcription	Osteobl	bone
5	chr6:25113600-25132800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:25116000-25137000	Weak transcription	Lung	lung
7	chr6:25122600-25133800	Weak transcription	NHDF-Ad	bronchial
8	chr6:25122600-25137000	Weak transcription	Colonic Mucosa	Colon
9	chr6:25122600-25137000	Weak transcription	HSMM	muscle
10	chr6:25122800-25137000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr6:25123600-25136600	Weak transcription	HSMMtube	muscle
12	chr6:25123800-25136800	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr6:25123800-25138400	Weak transcription	Pancreas	Pancrea
14	chr6:25124400-25138200	Weak transcription	Spleen	Spleen
15	chr6:25126200-25133000	Weak transcription	Primary B cells from cord blood	blood
16	chr6:25126200-25133200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr6:25126200-25136400	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr6:25126400-25133200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr6:25126400-25133400	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr6:25126400-25135400	Weak transcription	Thymus	Thymus
21	chr6:25126400-25136800	Weak transcription	Liver	Liver
22	chr6:25128200-25132800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr6:25128200-25135000	Weak transcription	Placenta	Placenta
24	chr6:25128400-25135200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr6:25128600-25134400	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr6:25129000-25133200	Weak transcription	Primary B cells from peripheral blood	blood
27	chr6:25129000-25133800	Weak transcription	Left Ventricle	heart
28	chr6:25129000-25133800	Weak transcription	Stomach Smooth Muscle	stomach
29	chr6:25129400-25133000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr6:25129400-25133800	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr6:25129400-25136400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
32	chr6:25129600-25133400	Weak transcription	Right Atrium	heart
33	chr6:25129600-25136800	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr6:25129800-25135400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
35	chr6:25130400-25133000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr6:25130600-25132800	Genic enhancers	Primary T helper cells PMA-I stimulated	--
37	chr6:25130600-25136800	Weak transcription	Ovary	ovary
38	chr6:25130800-25132800	Enhancers	Primary T helper naive cells from peripheral blood	blood
39	chr6:25131000-25133400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr6:25131000-25134800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr6:25131400-25132800	Weak transcription	Primary neutrophils fromperipheralblood	blood
42	chr6:25131400-25133800	Weak transcription	Rectal Smooth Muscle	rectum
43	chr6:25131600-25132800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr6:25131600-25132800	Weak transcription	Fetal Thymus	thymus
45	chr6:25131600-25132800	Weak transcription	Hela-S3	cervix
46	chr6:25131800-25132800	Weak transcription	Primary T cells fromperipheralblood	blood
47	chr6:25131800-25132800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr6:25131800-25133200	Weak transcription	Monocytes-CD14+_RO01746	blood
49	chr6:25131800-25136600	Weak transcription	Primary monocytes fromperipheralblood	blood
50	chr6:25132000-25133000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell

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