Variant report

Variant	rs6906404
Chromosome Location	chr6:25408938-25408939
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs12665780	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs6906654	1.00[JPT][hapmap]
rs6929831	1.00[CEU][hapmap]
rs9356968	1.00[JPT][hapmap]

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	nsv883485	chr6:25259137-25437986	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv883486	chr6:25260434-25422369	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv883487	chr6:25280119-25508868	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv830612	chr6:25342408-25509758	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv1850810	chr6:25405576-25462543	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25377400-25410600	Weak transcription	Gastric	stomach
2	chr6:25402200-25409600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:25403800-25410600	Weak transcription	Pancreas	Pancrea
4	chr6:25404400-25410800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:25405200-25413200	Weak transcription	Fetal Lung	lung
6	chr6:25405800-25409000	Enhancers	Primary B cells from peripheral blood	blood
7	chr6:25405800-25410400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr6:25405800-25410600	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr6:25405800-25411600	Enhancers	Fetal Thymus	thymus
10	chr6:25405800-25412600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr6:25406000-25409400	Weak transcription	Stomach Mucosa	stomach
12	chr6:25406000-25410600	Weak transcription	Fetal Intestine Small	intestine
13	chr6:25406000-25413200	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr6:25406200-25409800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr6:25406200-25410000	Enhancers	H1 Cell Line	embryonic stem cell
16	chr6:25406200-25410400	Enhancers	Primary T helper cells PMA-I stimulated	--
17	chr6:25406200-25410600	Enhancers	Primary T killer memory cells from peripheral blood	blood
18	chr6:25406200-25410600	Weak transcription	Fetal Intestine Large	intestine
19	chr6:25406200-25411600	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr6:25406400-25410400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr6:25406400-25410400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
22	chr6:25406400-25420200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:25406600-25409800	Weak transcription	Small Intestine	intestine
24	chr6:25406600-25410400	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr6:25406600-25410600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr6:25406600-25410600	Weak transcription	Adipose Nuclei	Adipose
27	chr6:25406600-25410600	Weak transcription	NHEK	skin
28	chr6:25406600-25410800	Weak transcription	Lung	lung
29	chr6:25406600-25411600	Weak transcription	Colonic Mucosa	Colon
30	chr6:25406800-25410400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr6:25406800-25410600	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr6:25407000-25410200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr6:25407000-25410400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr6:25407200-25409400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr6:25407200-25409800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr6:25407200-25410000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
37	chr6:25407200-25410200	Weak transcription	Primary hematopoietic stem cells	blood
38	chr6:25407200-25410600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr6:25407200-25413200	Weak transcription	Spleen	Spleen
40	chr6:25407200-25420200	Weak transcription	Monocytes-CD14+_RO01746	blood
41	chr6:25407400-25409000	Strong transcription	Primary monocytes fromperipheralblood	blood
42	chr6:25407400-25409400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr6:25407600-25409000	Enhancers	iPS-15b Cell Line	embryonic stem cell
44	chr6:25407600-25409200	Enhancers	ES-I3 Cell Line	embryonic stem cell
45	chr6:25407800-25410600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
46	chr6:25407800-25412600	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr6:25408000-25409600	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr6:25408000-25409800	Weak transcription	Left Ventricle	heart
49	chr6:25408000-25410400	Weak transcription	Duodenum Mucosa	Duodenum
50	chr6:25408000-25410400	Weak transcription	GM12878-XiMat	blood

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