Variant report

Variant	rs11929008
Chromosome Location	chr3:111261173-111261174
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11919658	1.00[EUR][1000 genomes]
rs11925588	1.00[AMR][1000 genomes]
rs11928127	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34059586	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58085859	1.00[AMR][1000 genomes]
rs58195592	1.00[AMR][1000 genomes]
rs60275470	1.00[EUR][1000 genomes]
rs6766880	1.00[EUR][1000 genomes]
rs6795720	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6802504	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72939542	1.00[AMR][1000 genomes]
rs72939590	1.00[EUR][1000 genomes]
rs72939593	1.00[EUR][1000 genomes]
rs72939597	1.00[EUR][1000 genomes]
rs73855128	1.00[AMR][1000 genomes]
rs7641242	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9871681	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv997756	chr3:111226058-111376585	Active TSS Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv3946	chr3:111236035-111283038	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111255800-111264400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:111258000-111261200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr3:111258600-111265200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:111258600-111266800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr3:111258800-111264200	Weak transcription	Stomach Mucosa	stomach
6	chr3:111258800-111266600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr3:111259000-111264000	Weak transcription	Fetal Intestine Small	intestine
8	chr3:111260000-111261200	Enhancers	NH-A	brain
9	chr3:111260200-111261400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr3:111260200-111263000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr3:111260200-111269800	Enhancers	Primary hematopoietic stem cells	blood
12	chr3:111260400-111261200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr3:111260400-111261400	Enhancers	GM12878-XiMat	blood
14	chr3:111260600-111261200	Enhancers	Primary B cells from cord blood	blood
15	chr3:111260600-111261200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr3:111260600-111261400	Flanking Active TSS	Fetal Thymus	thymus
17	chr3:111260600-111261800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
18	chr3:111260600-111263400	Active TSS	Thymus	Thymus
19	chr3:111260800-111261200	Enhancers	Primary neutrophils fromperipheralblood	blood
20	chr3:111260800-111262200	Active TSS	Primary T cells from cord blood	blood
21	chr3:111260800-111262200	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
22	chr3:111260800-111262400	Active TSS	Primary T cells fromperipheralblood	blood
23	chr3:111260800-111262400	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
24	chr3:111260800-111262600	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
25	chr3:111260800-111262600	Active TSS	Primary T helper naive cells from peripheral blood	blood
26	chr3:111260800-111262800	Active TSS	Primary T helper naive cells fromperipheralblood	blood
27	chr3:111260800-111263200	Active TSS	Primary T killer naive cells fromperipheralblood	blood
28	chr3:111260800-111263200	Active TSS	Primary T killer memory cells from peripheral blood	blood
29	chr3:111260800-111263400	Active TSS	Duodenum Mucosa	Duodenum
30	chr3:111261000-111261200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr3:111261000-111261200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
32	chr3:111261000-111261200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr3:111261000-111261400	Flanking Active TSS	Primary B cells from peripheral blood	blood
34	chr3:111261000-111261600	Active TSS	Primary T regulatory cells fromperipheralblood	blood
35	chr3:111261000-111261800	Active TSS	Small Intestine	intestine
36	chr3:111261000-111262000	Active TSS	Dnd41	blood
37	chr3:111261000-111262200	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
38	chr3:111261000-111262600	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
39	chr3:111261000-111263200	Active TSS	Primary T helper cells PMA-I stimulated	--
40	chr3:111261000-111263200	Active TSS	Rectal Mucosa Donor 29	rectum

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