Variant report

Variant	rs9392339
Chromosome Location	chr6:1770721-1770722
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:1769402..1771120-chr6:1775658..1777745,2	K562	blood:
2	chr6:1769402..1772177-chr6:1775658..1777982,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf195-34	chr6:1767197-1772399	NONHSAT106546
2	lnc-C6orf195-34	chr6:1767197-1772399	NONHSAT106547

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12110888	1.00[CEU][hapmap]
rs3800076	1.00[CEU][hapmap]
rs6912170	1.00[CEU][hapmap]
rs6916299	1.00[TSI][hapmap]
rs6930427	0.97[AFR][1000 genomes]
rs7740069	1.00[JPT][hapmap]
rs7743218	1.00[GIH][hapmap]
rs7749700	1.00[JPT][hapmap]
rs7753155	1.00[CEU][hapmap]
rs7771636	1.00[CEU][hapmap]
rs9392323	1.00[CEU][hapmap]
rs9392337	1.00[JPT][hapmap]
rs9392338	1.00[JPT][hapmap]
rs9405516	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530548	chr6:1441421-2351608	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv491607	chr6:1580681-1951526	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1020603	chr6:1697548-1921374	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv538093	chr6:1697548-1921374	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv600809	chr6:1732741-1775436	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv869043	chr6:1744238-2006788	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv538094	chr6:1757776-1907505	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv528129	chr6:1767459-1772720	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	nsv518739	chr6:1767459-1773297	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv931941	chr6:1768439-2246781	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1749800-1779000	Weak transcription	Aorta	Aorta
2	chr6:1751200-1780400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr6:1758600-1771400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr6:1762800-1801600	Weak transcription	Colonic Mucosa	Colon
5	chr6:1763000-1792600	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr6:1763800-1771600	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr6:1764000-1771400	Weak transcription	Primary hematopoietic stem cells	blood
8	chr6:1764000-1773600	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:1764200-1771400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr6:1765000-1770800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr6:1766000-1773600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr6:1767200-1771600	Weak transcription	Esophagus	oesophagus
13	chr6:1768000-1778400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:1768000-1778600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:1768200-1771400	Weak transcription	Gastric	stomach
16	chr6:1768200-1773000	Weak transcription	Fetal Lung	lung
17	chr6:1768200-1773200	Weak transcription	Fetal Intestine Large	intestine
18	chr6:1768200-1773600	Weak transcription	Fetal Intestine Small	intestine
19	chr6:1768200-1775200	Weak transcription	Psoas Muscle	Psoas
20	chr6:1768200-1777000	Weak transcription	Left Ventricle	heart
21	chr6:1768200-1778400	Weak transcription	Brain Anterior Caudate	brain
22	chr6:1768200-1803600	Weak transcription	Small Intestine	intestine
23	chr6:1768400-1770800	Weak transcription	NHDF-Ad	bronchial
24	chr6:1768400-1770800	Weak transcription	NHEK	skin
25	chr6:1768400-1771000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr6:1768400-1771400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr6:1768400-1771800	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr6:1768600-1778200	Weak transcription	Fetal Kidney	kidney
29	chr6:1768800-1770800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr6:1768800-1771400	Weak transcription	Stomach Mucosa	stomach
31	chr6:1768800-1779400	Weak transcription	Hela-S3	cervix
32	chr6:1770000-1771800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
33	chr6:1770200-1771000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr6:1770200-1772200	Enhancers	Primary T helper cells fromperipheralblood	blood
35	chr6:1770200-1776000	Enhancers	Primary T helper cells PMA-I stimulated	--
36	chr6:1770400-1770800	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
37	chr6:1770400-1770800	Enhancers	Thymus	Thymus
38	chr6:1770400-1770800	Flanking Active TSS	GM12878-XiMat	blood
39	chr6:1770400-1771000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
40	chr6:1770400-1771000	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
41	chr6:1770400-1771000	Strong transcription	Duodenum Mucosa	Duodenum
42	chr6:1770400-1771200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr6:1770400-1771200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr6:1770400-1771200	Flanking Active TSS	Osteobl	bone
45	chr6:1770400-1772000	Enhancers	Dnd41	blood
46	chr6:1770400-1772400	Enhancers	HMEC	breast
47	chr6:1770400-1772400	Enhancers	HUVEC	blood vessel
48	chr6:1770600-1770800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr6:1770600-1770800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr6:1770600-1770800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

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