Variant report

Variant	rs7758407
Chromosome Location	chr6:79620707-79620708
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11967173	0.94[EUR][1000 genomes]
rs12529043	1.00[CEU][hapmap]
rs1413967	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1415861	1.00[CEU][hapmap];0.85[AMR][1000 genomes]
rs1415862	0.85[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1415863	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1538234	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1890230	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28811946	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4706748	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4706749	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56118785	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs58047896	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6454094	0.85[CEU][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6454095	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6918296	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923327	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6929315	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6940635	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6941107	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73764080	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73764089	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7739298	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7747479	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7754715	0.87[EUR][1000 genomes]
rs7775074	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7776322	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9343862	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9361485	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015352	chr6:79521820-79757024	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79619200-79620800	Bivalent Enhancer	Primary B cells from peripheral blood	blood
2	chr6:79619200-79621600	Enhancers	Fetal Heart	heart
3	chr6:79619200-79625800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:79619800-79620800	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
5	chr6:79619800-79621000	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
6	chr6:79619800-79621200	Enhancers	Spleen	Spleen
7	chr6:79619800-79621400	Flanking Active TSS	NHEK	skin
8	chr6:79620000-79620800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
9	chr6:79620000-79620800	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
10	chr6:79620000-79620800	Bivalent/Poised TSS	Primary T cells from cord blood	blood
11	chr6:79620000-79620800	Active TSS	Brain Anterior Caudate	brain
12	chr6:79620000-79620800	Active TSS	Brain Cingulate Gyrus	brain
13	chr6:79620000-79620800	Active TSS	Brain Inferior Temporal Lobe	brain
14	chr6:79620000-79620800	Active TSS	Fetal Intestine Large	intestine
15	chr6:79620000-79620800	Active TSS	Pancreatic Islets	Pancreatic Islet
16	chr6:79620000-79621000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr6:79620000-79621000	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr6:79620000-79621000	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr6:79620000-79621000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
20	chr6:79620000-79621000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr6:79620000-79621000	Active TSS	Brain Angular Gyrus	brain
22	chr6:79620000-79621000	Bivalent/Poised TSS	Fetal Brain Female	brain
23	chr6:79620000-79621000	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
24	chr6:79620000-79621000	Flanking Active TSS	HUVEC	blood vessel
25	chr6:79620000-79621200	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
26	chr6:79620000-79621200	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
27	chr6:79620000-79621200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr6:79620200-79620800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
29	chr6:79620200-79620800	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr6:79620200-79620800	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr6:79620200-79620800	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr6:79620200-79620800	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
33	chr6:79620200-79620800	Flanking Bivalent TSS/Enh	Primary monocytes fromperipheralblood	blood
34	chr6:79620200-79620800	Bivalent/Poised TSS	Primary B cells from cord blood	blood
35	chr6:79620200-79620800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
36	chr6:79620200-79620800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
37	chr6:79620200-79620800	Enhancers	Primary T helper naive cells from peripheral blood	blood
38	chr6:79620200-79620800	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
39	chr6:79620200-79620800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr6:79620200-79620800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr6:79620200-79620800	Flanking Active TSS	Esophagus	oesophagus
42	chr6:79620200-79620800	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
43	chr6:79620200-79620800	Active TSS	Fetal Intestine Small	intestine
44	chr6:79620200-79620800	Flanking Active TSS	Ovary	ovary
45	chr6:79620200-79620800	Active TSS	Placenta Amnion	Placenta Amnion
46	chr6:79620200-79620800	Bivalent/Poised TSS	Psoas Muscle	Psoas
47	chr6:79620200-79620800	Active TSS	Rectal Smooth Muscle	rectum
48	chr6:79620200-79620800	Active TSS	HSMM	muscle
49	chr6:79620200-79621000	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr6:79620200-79621000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell

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