Variant report

Variant	rs60459617
Chromosome Location	chr6:25084287-25084288
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs73388147	1.00[EUR][1000 genomes]
rs73729429	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73729433	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73729435	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73729458	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73729467	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73729471	1.00[EUR][1000 genomes]
rs73729472	1.00[EUR][1000 genomes]
rs73729775	0.95[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv830610	chr6:24951741-25124239	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
5	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
6	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

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25067600-25084600	Weak transcription	HSMMtube	muscle
2	chr6:25071000-25084400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr6:25071200-25084600	Weak transcription	Adipose Nuclei	Adipose
4	chr6:25071200-25085200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr6:25071200-25085400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr6:25071400-25084800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr6:25071400-25085600	Weak transcription	Primary B cells from cord blood	blood
8	chr6:25077000-25086600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr6:25079400-25085200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr6:25079400-25093000	Weak transcription	Ovary	ovary
11	chr6:25079600-25086800	Weak transcription	Aorta	Aorta
12	chr6:25079800-25086800	Weak transcription	Spleen	Spleen
13	chr6:25080200-25085800	Strong transcription	Dnd41	blood
14	chr6:25080400-25085200	Strong transcription	Thymus	Thymus
15	chr6:25080400-25085400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr6:25080400-25098000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr6:25080600-25084600	Strong transcription	Primary hematopoietic stem cells	blood
18	chr6:25080600-25084800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr6:25080800-25085000	Strong transcription	Primary T helper cells PMA-I stimulated	--
20	chr6:25080800-25085400	Strong transcription	Fetal Thymus	thymus
21	chr6:25081000-25086600	Weak transcription	Stomach Smooth Muscle	stomach
22	chr6:25081200-25084800	Weak transcription	Primary T cells from cord blood	blood
23	chr6:25081200-25092000	Weak transcription	Rectal Smooth Muscle	rectum
24	chr6:25081600-25084600	Weak transcription	Fetal Heart	heart
25	chr6:25081600-25088800	Weak transcription	Osteobl	bone
26	chr6:25082000-25085000	Strong transcription	Primary monocytes fromperipheralblood	blood
27	chr6:25082200-25094800	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr6:25082400-25085200	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr6:25082400-25085600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr6:25082600-25084800	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr6:25082600-25085200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr6:25082600-25105200	Weak transcription	Duodenum Mucosa	Duodenum
33	chr6:25082800-25084400	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr6:25082800-25086000	Weak transcription	GM12878-XiMat	blood
35	chr6:25083000-25084400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr6:25083000-25086000	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr6:25083000-25086800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr6:25083200-25085800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr6:25083800-25084800	Flanking Active TSS	HepG2	liver
40	chr6:25083800-25085000	Strong transcription	Primary T cells fromperipheralblood	blood
41	chr6:25083800-25085000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr6:25083800-25089800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr6:25083800-25093200	Weak transcription	Colonic Mucosa	Colon
44	chr6:25084000-25084600	Strong transcription	Primary B cells from peripheral blood	blood
45	chr6:25084000-25084600	Strong transcription	Left Ventricle	heart
46	chr6:25084000-25084800	Enhancers	Fetal Intestine Large	intestine
47	chr6:25084000-25084800	Enhancers	Gastric	stomach
48	chr6:25084000-25084800	Enhancers	Stomach Mucosa	stomach
49	chr6:25084000-25085400	Strong transcription	Rectal Mucosa Donor 31	rectum
50	chr6:25084000-25085600	Strong transcription	Placenta	Placenta

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