Variant report

Variant	rs11964476
Chromosome Location	chr6:25087124-25087125
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr6:25087121-25087180	ProgFib	skin:	n/a	chr6:25087145-25087158

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:25085087..25087243-chr6:25089273..25091853,2	K562	blood:

Variant related genes	Relation type
CMAHP	TF binding region

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11961009	1.00[AMR][1000 genomes]
rs11962694	1.00[AMR][1000 genomes]
rs11964369	1.00[AMR][1000 genomes]
rs11967443	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11968257	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11969615	1.00[AMR][1000 genomes]
rs61734336	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs687071	1.00[AMR][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:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25079400-25093000	Weak transcription	Ovary	ovary
2	chr6:25080400-25098000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr6:25081200-25092000	Weak transcription	Rectal Smooth Muscle	rectum
4	chr6:25081600-25088800	Weak transcription	Osteobl	bone
5	chr6:25082200-25094800	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr6:25082600-25105200	Weak transcription	Duodenum Mucosa	Duodenum
7	chr6:25083800-25089800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr6:25083800-25093200	Weak transcription	Colonic Mucosa	Colon
9	chr6:25084000-25087600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:25084200-25089800	Weak transcription	Hela-S3	cervix
11	chr6:25084800-25088400	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr6:25084800-25099000	Weak transcription	Fetal Intestine Large	intestine
13	chr6:25084800-25113800	Weak transcription	Gastric	stomach
14	chr6:25085000-25088600	Weak transcription	Lung	lung
15	chr6:25085000-25088600	Enhancers	HUVEC	blood vessel
16	chr6:25085200-25087600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr6:25085200-25087600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr6:25085200-25088000	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr6:25085200-25089400	Enhancers	Primary T helper cells PMA-I stimulated	--
20	chr6:25085200-25108000	Weak transcription	Colon Smooth Muscle	Colon
21	chr6:25085400-25087200	Enhancers	Primary hematopoietic stem cells	blood
22	chr6:25085400-25088200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
23	chr6:25085400-25091600	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr6:25085600-25087400	Enhancers	Primary B cells from cord blood	blood
25	chr6:25085600-25087800	Enhancers	Primary B cells from peripheral blood	blood
26	chr6:25085600-25088000	Enhancers	Primary T killer memory cells from peripheral blood	blood
27	chr6:25085800-25087400	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr6:25085800-25088400	Genic enhancers	Dnd41	blood
29	chr6:25086000-25087200	Enhancers	ES-I3 Cell Line	embryonic stem cell
30	chr6:25086000-25087200	Enhancers	H9 Cell Line	embryonic stem cell
31	chr6:25086200-25087200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
32	chr6:25086200-25087200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
33	chr6:25086200-25087800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr6:25086200-25088600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr6:25086200-25096400	Strong transcription	Thymus	Thymus
36	chr6:25086400-25087400	Enhancers	H1 Cell Line	embryonic stem cell
37	chr6:25086400-25089800	Weak transcription	Primary neutrophils fromperipheralblood	blood
38	chr6:25086400-25099600	Strong transcription	Placenta	Placenta
39	chr6:25086600-25087400	Genic enhancers	Fetal Thymus	thymus
40	chr6:25086600-25087400	Strong transcription	Placenta Amnion	Placenta Amnion
41	chr6:25086600-25087400	Genic enhancers	Monocytes-CD14+_RO01746	blood
42	chr6:25086600-25090000	Strong transcription	Stomach Smooth Muscle	stomach
43	chr6:25086600-25090400	Strong transcription	Sigmoid Colon	Sigmoid Colon
44	chr6:25086600-25096600	Strong transcription	Rectal Mucosa Donor 29	rectum
45	chr6:25086800-25087200	Enhancers	Spleen	Spleen
46	chr6:25086800-25087400	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr6:25086800-25087400	Strong transcription	Aorta	Aorta
48	chr6:25086800-25087400	Enhancers	Left Ventricle	heart
49	chr6:25086800-25087600	Genic enhancers	Primary T cells fromperipheralblood	blood
50	chr6:25086800-25087600	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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