Variant report

Variant	rs13197391
Chromosome Location	chr6:56432380-56432381
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs1014309	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1014310	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10456736	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10484858	0.93[JPT][hapmap]
rs10807515	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10949003	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11751914	0.96[CEU][hapmap];0.93[JPT][hapmap];0.83[EUR][1000 genomes]
rs11969402	0.86[EUR][1000 genomes]
rs12200301	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12201550	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13209548	0.83[EUR][1000 genomes]
rs1474853	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1474854	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1884284	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1884285	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1884286	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2024751	0.81[EUR][1000 genomes]
rs2067543	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2144405	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28759439	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34049027	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34237663	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36017808	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4712136	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4712138	0.93[JPT][hapmap]
rs4715635	0.81[EUR][1000 genomes]
rs6459166	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6920543	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6926648	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6929091	0.86[EUR][1000 genomes]
rs6931836	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7772239	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9349829	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9349830	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9349831	0.81[EUR][1000 genomes]
rs9349832	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9349835	0.83[EUR][1000 genomes]
rs9357923	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs9357924	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9367689	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9367690	0.92[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9370538	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9370542	0.96[CEU][hapmap];0.93[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9370543	0.82[CEU][hapmap];0.93[JPT][hapmap]
rs9382645	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9382653	0.82[CEU][hapmap];0.93[JPT][hapmap]
rs9382658	0.83[EUR][1000 genomes]
rs9396221	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9396224	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9475719	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9475721	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9475722	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9475723	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9475724	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9689355	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv885912	chr6:56327849-56458836	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56408200-56440400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:56408200-56440600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:56408200-56496000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:56413800-56458400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr6:56415800-56435200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:56417000-56516400	Weak transcription	Pancreas	Pancrea
7	chr6:56417200-56462000	Weak transcription	Lung	lung
8	chr6:56417200-56481400	Weak transcription	Esophagus	oesophagus
9	chr6:56417400-56435400	Weak transcription	HepG2	liver
10	chr6:56417800-56454200	Weak transcription	Psoas Muscle	Psoas
11	chr6:56417800-56455400	Weak transcription	Gastric	stomach
12	chr6:56418000-56435400	Weak transcription	Fetal Brain Male	brain
13	chr6:56420400-56434800	Weak transcription	Brain Germinal Matrix	brain
14	chr6:56420400-56457400	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr6:56420600-56433400	Weak transcription	NHEK	skin
16	chr6:56420600-56435200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr6:56420600-56435200	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr6:56420600-56437600	Weak transcription	Primary monocytes fromperipheralblood	blood
19	chr6:56420600-56440400	Weak transcription	Duodenum Mucosa	Duodenum
20	chr6:56420600-56454000	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr6:56420600-56455400	Weak transcription	Aorta	Aorta
22	chr6:56420800-56438000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:56421000-56432400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr6:56421000-56434600	Weak transcription	Fetal Heart	heart
25	chr6:56422000-56434800	Weak transcription	Colon Smooth Muscle	Colon
26	chr6:56423800-56456200	Weak transcription	Brain Substantia Nigra	brain
27	chr6:56426400-56432400	Weak transcription	Brain Anterior Caudate	brain
28	chr6:56426400-56432400	Weak transcription	NHDF-Ad	bronchial
29	chr6:56426400-56433200	Weak transcription	NH-A	brain
30	chr6:56426400-56434600	Weak transcription	HMEC	breast
31	chr6:56426400-56444200	Weak transcription	HUVEC	blood vessel
32	chr6:56426400-56455600	Weak transcription	Placenta	Placenta
33	chr6:56426600-56435400	Weak transcription	Brain Cingulate Gyrus	brain
34	chr6:56427600-56440600	Weak transcription	Colonic Mucosa	Colon
35	chr6:56428200-56437000	Strong transcription	Liver	Liver
36	chr6:56428800-56432400	Strong transcription	HUES64 Cell Line	embryonic stem cell
37	chr6:56428800-56435200	Weak transcription	Fetal Brain Female	brain
38	chr6:56429000-56440000	Weak transcription	Spleen	Spleen
39	chr6:56429000-56443800	Weak transcription	Stomach Mucosa	stomach
40	chr6:56429000-56444800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr6:56429200-56444400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr6:56429200-56447400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr6:56429400-56433400	Strong transcription	Fetal Intestine Large	intestine
44	chr6:56429400-56436200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr6:56429400-56439200	Strong transcription	HSMM	muscle
46	chr6:56429600-56433800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr6:56429600-56433800	Strong transcription	Left Ventricle	heart
48	chr6:56430400-56432400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr6:56430400-56436800	Strong transcription	HSMMtube	muscle
50	chr6:56430800-56435200	Strong transcription	HUES6 Cell Line	embryonic stem cell

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