Variant report

Variant	rs73386241
Chromosome Location	chr6:25104422-25104423
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:25104314..25106415-chr6:25107785..25110653,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168405	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11964969	1.00[EUR][1000 genomes]
rs57749803	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57987236	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58859882	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60047246	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60211361	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60913234	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6917740	1.00[EUR][1000 genomes]
rs6917980	1.00[EUR][1000 genomes]
rs6918166	1.00[EUR][1000 genomes]
rs6918168	1.00[EUR][1000 genomes]
rs6918864	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73384199	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73384200	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73386205	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73386277	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9461107	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 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
7	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
8	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:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25082600-25105200	Weak transcription	Duodenum Mucosa	Duodenum
2	chr6:25084800-25113800	Weak transcription	Gastric	stomach
3	chr6:25085200-25108000	Weak transcription	Colon Smooth Muscle	Colon
4	chr6:25087000-25105400	Weak transcription	GM12878-XiMat	blood
5	chr6:25087400-25113800	Strong transcription	Fetal Thymus	thymus
6	chr6:25087600-25105400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr6:25087600-25124800	Weak transcription	Small Intestine	intestine
8	chr6:25088000-25105800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr6:25088400-25105400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr6:25088400-25113800	Strong transcription	Dnd41	blood
11	chr6:25089200-25106000	Weak transcription	Osteobl	bone
12	chr6:25089200-25108400	Weak transcription	HSMM	muscle
13	chr6:25090400-25105400	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr6:25091600-25116000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
15	chr6:25091800-25127800	Weak transcription	Esophagus	oesophagus
16	chr6:25093400-25106800	Weak transcription	Rectal Smooth Muscle	rectum
17	chr6:25094200-25105800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr6:25095400-25106400	Weak transcription	Spleen	Spleen
19	chr6:25095600-25105600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr6:25095600-25107000	Weak transcription	Colonic Mucosa	Colon
21	chr6:25095800-25106400	Weak transcription	Primary B cells from cord blood	blood
22	chr6:25096000-25116000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr6:25096400-25105600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr6:25096400-25106000	Weak transcription	Ovary	ovary
25	chr6:25096400-25118200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr6:25096600-25105600	Weak transcription	Adipose Nuclei	Adipose
27	chr6:25096800-25106200	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr6:25097000-25105800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr6:25097000-25106600	Weak transcription	Lung	lung
30	chr6:25099000-25116200	Strong transcription	Primary T helper cells PMA-I stimulated	--
31	chr6:25099000-25117400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr6:25099400-25105200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr6:25099600-25105600	Weak transcription	Placenta	Placenta
34	chr6:25100600-25105400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr6:25100600-25107200	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr6:25100800-25105400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr6:25100800-25112200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr6:25101200-25106000	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr6:25101400-25115800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr6:25102000-25116200	Strong transcription	Primary T cells fromperipheralblood	blood
41	chr6:25102200-25108200	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr6:25102600-25105200	Enhancers	Hela-S3	cervix
43	chr6:25102800-25110600	Strong transcription	Monocytes-CD14+_RO01746	blood
44	chr6:25102800-25117600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
45	chr6:25103000-25110800	Strong transcription	Primary monocytes fromperipheralblood	blood
46	chr6:25103000-25110800	Strong transcription	Liver	Liver
47	chr6:25103200-25105200	Weak transcription	Thymus	Thymus
48	chr6:25103200-25116000	Strong transcription	Primary hematopoietic stem cells	blood
49	chr6:25103200-25116000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr6:25103400-25105200	Weak transcription	Fetal Kidney	kidney

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