Variant report

Variant	rs6677506
Chromosome Location	chr1:180800114-180800115
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs1043069	1.00[CEU][hapmap];0.92[CHB][hapmap];0.94[JPT][hapmap];0.89[YRI][hapmap]
rs10494532	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs1061015	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs1061016	0.96[CEU][hapmap]
rs10737351	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10798788	1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs10914074	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10914076	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10914077	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10914080	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10914083	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs10914084	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs10914095	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs10914107	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs10914111	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10914112	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs10914117	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10914123	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs10914124	1.00[CEU][hapmap];0.92[CHB][hapmap];0.94[JPT][hapmap]
rs11585146	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12064913	0.92[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap]
rs12120511	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs12121436	0.96[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap]
rs12137673	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12142163	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs12143915	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs12564487	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs12725006	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1533422	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1554183	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1554185	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs17373584	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs1980157	0.96[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs2271669	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2877438	0.96[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap]
rs2944261	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs3002118	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs3002119	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs3761903	0.92[CHB][hapmap];0.89[JPT][hapmap]
rs3761904	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs3789367	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs3789373	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs3856059	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs3856060	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs3908048	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4550006	0.85[CEU][hapmap];0.93[CHB][hapmap];0.95[JPT][hapmap]
rs4652525	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs4652526	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4652527	0.96[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap]
rs4652528	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs4652529	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs6425655	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs6661417	0.96[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs6676219	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs6677681	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6703189	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs7349119	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs7516646	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs7536258	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7544774	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs7546227	1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs7546516	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs7548261	1.00[CEU][hapmap];0.93[CHB][hapmap];0.84[JPT][hapmap]
rs7548671	0.85[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs7555356	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs7556592	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs9919167	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv872578	chr1:180510771-180842344	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv1014404	chr1:180770155-181090200	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	97 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:180713000-180814200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr1:180755400-180803800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr1:180755400-180820400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr1:180756800-180810200	Weak transcription	Fetal Brain Male	brain
5	chr1:180758000-180804000	Weak transcription	Duodenum Mucosa	Duodenum
6	chr1:180761400-180804600	Weak transcription	Aorta	Aorta
7	chr1:180763600-180806800	Weak transcription	Psoas Muscle	Psoas
8	chr1:180767400-180820400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr1:180768000-180812000	Weak transcription	Pancreas	Pancrea
10	chr1:180769000-180802000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr1:180771000-180813600	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr1:180772000-180823200	Weak transcription	Fetal Stomach	stomach
13	chr1:180772200-180801800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr1:180773000-180802200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr1:180773400-180849200	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr1:180773800-180853200	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr1:180774000-180806800	Weak transcription	Placenta	Placenta
18	chr1:180775000-180831600	Weak transcription	Brain Hippocampus Middle	brain
19	chr1:180776400-180801800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr1:180776600-180801800	Weak transcription	Dnd41	blood
21	chr1:180778600-180805600	Weak transcription	Brain Germinal Matrix	brain
22	chr1:180779000-180807400	Weak transcription	Right Ventricle	heart
23	chr1:180779800-180850800	Weak transcription	Small Intestine	intestine
24	chr1:180780000-180801600	Weak transcription	Brain Angular Gyrus	brain
25	chr1:180781600-180801600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr1:180781600-180805600	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr1:180781800-180807000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr1:180781800-180810400	Weak transcription	HSMM	muscle
29	chr1:180782200-180801800	Weak transcription	Adipose Nuclei	Adipose
30	chr1:180782200-180817800	Weak transcription	Lung	lung
31	chr1:180782600-180809000	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr1:180783000-180801800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr1:180783000-180802400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr1:180783400-180802000	Weak transcription	Liver	Liver
35	chr1:180784800-180811600	Weak transcription	HSMMtube	muscle
36	chr1:180785600-180805400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr1:180785800-180804000	Weak transcription	Primary hematopoietic stem cells	blood
38	chr1:180789600-180809200	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr1:180790400-180801800	Weak transcription	Fetal Lung	lung
40	chr1:180790600-180801800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr1:180790600-180801800	Weak transcription	Fetal Brain Female	brain
42	chr1:180790800-180801800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr1:180791400-180801800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr1:180791400-180822600	Weak transcription	Fetal Heart	heart
45	chr1:180791600-180803800	Weak transcription	K562	blood
46	chr1:180793200-180810800	Weak transcription	Osteobl	bone
47	chr1:180794400-180802000	Weak transcription	Primary B cells from peripheral blood	blood
48	chr1:180795000-180801800	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr1:180795600-180801800	Weak transcription	Primary T cells fromperipheralblood	blood
50	chr1:180795800-180802200	Weak transcription	Monocytes-CD14+_RO01746	blood

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