Variant report

Variant	rs11961009
Chromosome Location	chr6:25081899-25081900
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	chr6:25079917..25082161-chr6:25083077..25085459,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM65B-3	chr6:25081640-25082107	NONHSAT108136

Variant related genes	Relation type
ENSG00000168405	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11962694	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11963128	0.82[AFR][1000 genomes]
rs11964369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964476	1.00[AMR][1000 genomes]
rs11965266	0.97[AFR][1000 genomes]
rs11967443	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11968257	1.00[AMR][1000 genomes]
rs11969615	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61734336	1.00[AMR][1000 genomes]
rs687071	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25067600-25084600	Weak transcription	HSMMtube	muscle
2	chr6:25069800-25084000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr6:25071000-25084400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr6:25071200-25082000	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr6:25071200-25082400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr6:25071200-25082600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr6:25071200-25083800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr6:25071200-25083800	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr6:25071200-25084000	Weak transcription	Primary B cells from peripheral blood	blood
10	chr6:25071200-25084000	Weak transcription	Placenta	Placenta
11	chr6:25071200-25084000	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr6:25071200-25084600	Weak transcription	Adipose Nuclei	Adipose
13	chr6:25071200-25085200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr6:25071200-25085400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr6:25071400-25084800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr6:25071400-25085600	Weak transcription	Primary B cells from cord blood	blood
17	chr6:25076200-25084200	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr6:25077000-25086600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr6:25079200-25083800	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr6:25079400-25082000	Weak transcription	Right Ventricle	heart
21	chr6:25079400-25085200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr6:25079400-25093000	Weak transcription	Ovary	ovary
23	chr6:25079600-25086800	Weak transcription	Aorta	Aorta
24	chr6:25079800-25086800	Weak transcription	Spleen	Spleen
25	chr6:25080000-25082800	Strong transcription	Monocytes-CD14+_RO01746	blood
26	chr6:25080200-25085800	Strong transcription	Dnd41	blood
27	chr6:25080400-25082200	Weak transcription	Liver	Liver
28	chr6:25080400-25084000	Weak transcription	Gastric	stomach
29	chr6:25080400-25085200	Strong transcription	Thymus	Thymus
30	chr6:25080400-25085400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr6:25080400-25098000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr6:25080600-25084600	Strong transcription	Primary hematopoietic stem cells	blood
33	chr6:25080600-25084800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
34	chr6:25080800-25084200	Weak transcription	Lung	lung
35	chr6:25080800-25085000	Strong transcription	Primary T helper cells PMA-I stimulated	--
36	chr6:25080800-25085400	Strong transcription	Fetal Thymus	thymus
37	chr6:25081000-25086600	Weak transcription	Stomach Smooth Muscle	stomach
38	chr6:25081200-25082600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr6:25081200-25083800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr6:25081200-25084000	Weak transcription	Left Ventricle	heart
41	chr6:25081200-25084800	Weak transcription	Primary T cells from cord blood	blood
42	chr6:25081200-25092000	Weak transcription	Rectal Smooth Muscle	rectum
43	chr6:25081600-25084600	Weak transcription	Fetal Heart	heart
44	chr6:25081600-25088800	Weak transcription	Osteobl	bone

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