Variant report

Variant	rs10062204
Chromosome Location	chr5:108202030-108202031
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10038669	1.00[CHB][hapmap];0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs10044305	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs10045220	0.82[ASN][1000 genomes]
rs10060694	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10063167	0.81[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.88[YRI][hapmap];0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10073668	1.00[CHB][hapmap];0.92[JPT][hapmap];0.91[YRI][hapmap];0.83[ASN][1000 genomes]
rs10079165	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1022045	0.84[JPT][hapmap]
rs10477431	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1109617	0.85[JPT][hapmap]
rs11240982	0.83[JPT][hapmap]
rs11739006	0.85[JPT][hapmap]
rs12153703	0.85[JPT][hapmap]
rs13171006	0.88[CEU][hapmap]
rs13173714	0.85[JPT][hapmap]
rs13180513	0.96[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.87[YRI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1423457	0.85[JPT][hapmap]
rs17161476	0.85[JPT][hapmap]
rs2081126	0.92[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2081129	0.92[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2081130	0.88[EUR][1000 genomes]
rs28637651	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2900035	0.91[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.84[EUR][1000 genomes]
rs34125469	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4604227	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4957789	0.85[JPT][hapmap]
rs62360774	0.80[EUR][1000 genomes]
rs6594333	0.85[JPT][hapmap]
rs6594334	0.85[JPT][hapmap]
rs6594336	0.85[JPT][hapmap]
rs6594338	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6594340	0.85[CEU][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6871143	0.85[JPT][hapmap]
rs6871239	0.85[JPT][hapmap]
rs6874229	0.96[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.87[YRI][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6875320	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs6880284	0.96[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.87[YRI][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6889550	0.84[EUR][1000 genomes]
rs6889967	0.85[JPT][hapmap]
rs6891194	0.92[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.87[EUR][1000 genomes]
rs6895027	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7709267	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7710482	0.83[EUR][1000 genomes]
rs7712834	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.88[YRI][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7712956	0.91[CEU][hapmap];0.85[EUR][1000 genomes]
rs7716320	0.85[JPT][hapmap]
rs7716498	0.85[JPT][hapmap]
rs7725391	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7726708	0.85[EUR][1000 genomes]
rs7731891	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7735235	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.80[YRI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9285863	0.85[JPT][hapmap]
rs9326747	0.92[CEU][hapmap];0.85[EUR][1000 genomes]
rs9326748	0.96[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.87[YRI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9885082	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9885168	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][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	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh 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	61 gene(s)	inside rSNPs	diseases
2	nsv471039	chr5:108133967-108245089	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv1801555	chr5:108166720-108203055	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:108147000-108208800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr5:108166400-108203200	Weak transcription	HSMM	muscle
3	chr5:108166600-108217000	Weak transcription	Left Ventricle	heart
4	chr5:108167200-108220400	Weak transcription	Fetal Lung	lung
5	chr5:108168200-108203800	Weak transcription	Adipose Nuclei	Adipose
6	chr5:108169400-108229200	Weak transcription	Fetal Stomach	stomach
7	chr5:108173400-108239800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr5:108182000-108217000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr5:108183800-108260400	Weak transcription	Ovary	ovary
10	chr5:108187200-108202600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr5:108187200-108204600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr5:108187200-108211800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr5:108194000-108217000	Weak transcription	Esophagus	oesophagus
14	chr5:108194200-108203000	Weak transcription	NHLF	lung
15	chr5:108194600-108260000	Weak transcription	Fetal Intestine Large	intestine
16	chr5:108194800-108204200	Weak transcription	NHEK	skin
17	chr5:108194800-108204600	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr5:108194800-108207000	Weak transcription	HUVEC	blood vessel
19	chr5:108194800-108208600	Weak transcription	Osteobl	bone
20	chr5:108194800-108236200	Weak transcription	Hela-S3	cervix
21	chr5:108195000-108204800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr5:108195000-108211800	Weak transcription	NHDF-Ad	bronchial
23	chr5:108195200-108203400	Weak transcription	Primary B cells from cord blood	blood
24	chr5:108195200-108204800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr5:108195200-108206600	Weak transcription	Primary B cells from peripheral blood	blood
26	chr5:108195200-108209000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr5:108195200-108211000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr5:108195200-108231600	Weak transcription	Primary hematopoietic stem cells	blood
29	chr5:108195200-108231600	Weak transcription	Psoas Muscle	Psoas
30	chr5:108195200-108234400	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr5:108195400-108202600	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr5:108196800-108230000	Weak transcription	Lung	lung
33	chr5:108197000-108268200	Weak transcription	Fetal Muscle Trunk	muscle
34	chr5:108197200-108203600	Weak transcription	Pancreas	Pancrea
35	chr5:108197400-108219800	Weak transcription	Placenta	Placenta
36	chr5:108197800-108209600	Weak transcription	Dnd41	blood
37	chr5:108198600-108229800	Weak transcription	Fetal Muscle Leg	muscle
38	chr5:108198600-108235000	Weak transcription	Fetal Kidney	kidney
39	chr5:108198800-108217000	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr5:108199200-108271400	Weak transcription	Aorta	Aorta
41	chr5:108199800-108204200	Weak transcription	NH-A	brain
42	chr5:108200200-108202800	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr5:108200200-108202800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr5:108200200-108203200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr5:108200200-108209000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
46	chr5:108200200-108232600	Weak transcription	Brain Angular Gyrus	brain
47	chr5:108200200-108246400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr5:108200400-108211400	Weak transcription	Right Ventricle	heart
49	chr5:108200600-108209200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr5:108201800-108203600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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