Variant report

Variant	rs10085898
Chromosome Location	chr7:38870444-38870445
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 141 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:139)

rs_ID	r²[population]
rs1019065	0.88[ASN][1000 genomes]
rs10229531	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs10244901	0.86[ASN][1000 genomes]
rs10245322	0.82[CHB][hapmap];0.85[CHD][hapmap];0.86[ASN][1000 genomes]
rs10245333	0.86[ASN][1000 genomes]
rs10249090	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10250120	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs10251632	0.84[ASN][1000 genomes]
rs10254617	0.85[CHB][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10262154	0.80[MKK][hapmap]
rs10266910	0.86[ASN][1000 genomes]
rs10268253	0.82[ASN][1000 genomes]
rs10269756	0.88[ASN][1000 genomes]
rs10272658	0.82[ASN][1000 genomes]
rs10274968	1.00[CHB][hapmap];0.85[CHD][hapmap];0.82[GIH][hapmap];0.85[ASN][1000 genomes]
rs10279181	0.86[ASN][1000 genomes]
rs10279990	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs10280140	0.86[ASN][1000 genomes]
rs10281823	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs10951576	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10951578	0.82[CHB][hapmap];0.85[CHD][hapmap];0.86[ASN][1000 genomes]
rs1155507	0.85[CHB][hapmap];0.82[GIH][hapmap];0.89[MEX][hapmap];0.89[TSI][hapmap];0.82[ASN][1000 genomes]
rs1155513	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11765467	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11772408	0.86[ASN][1000 genomes]
rs11980197	0.88[ASN][1000 genomes]
rs11980627	1.00[CHB][hapmap];0.90[CHD][hapmap];0.90[ASN][1000 genomes]
rs11983390	0.88[ASN][1000 genomes]
rs12533017	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12533808	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12535711	0.90[ASN][1000 genomes]
rs12672018	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs13228087	1.00[CHB][hapmap];0.85[CHD][hapmap];0.90[ASN][1000 genomes]
rs13237387	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1468347	1.00[CEU][hapmap];0.89[GIH][hapmap];0.85[MEX][hapmap];0.89[TSI][hapmap];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1473138	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1473139	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17618395	0.82[CHB][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.89[TSI][hapmap];0.98[ASN][1000 genomes]
rs17619021	0.86[ASN][1000 genomes]
rs17680408	0.95[CHD][hapmap];0.94[ASN][1000 genomes]
rs17680879	0.86[ASN][1000 genomes]
rs2008199	0.86[ASN][1000 genomes]
rs2009277	0.88[ASN][1000 genomes]
rs2067683	0.82[CHB][hapmap];0.85[CHD][hapmap];0.86[ASN][1000 genomes]
rs2072248	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2074853	0.85[CHB][hapmap];0.81[ASN][1000 genomes]
rs2159018	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2189853	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2286080	0.96[CEU][hapmap];0.85[CHB][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2392600	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2392601	1.00[CEU][hapmap];0.85[CHB][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2392602	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2392603	0.86[ASN][1000 genomes]
rs2392604	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs2392605	0.88[ASN][1000 genomes]
rs2392606	0.84[ASN][1000 genomes]
rs2392607	0.90[ASN][1000 genomes]
rs28369620	0.88[ASN][1000 genomes]
rs28460817	0.90[ASN][1000 genomes]
rs34276565	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35548426	0.92[EUR][1000 genomes]
rs3735346	0.82[CHB][hapmap];0.85[CHD][hapmap];0.86[ASN][1000 genomes]
rs3779122	0.96[ASN][1000 genomes]
rs3779124	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3779125	0.82[CHB][hapmap];0.95[CHD][hapmap];0.94[ASN][1000 genomes]
rs3801111	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs3801113	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs3801114	0.86[ASN][1000 genomes]
rs3801115	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs3801116	0.82[CHB][hapmap];0.84[CHD][hapmap];0.86[ASN][1000 genomes]
rs3801119	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs3801124	0.86[ASN][1000 genomes]
rs3801126	1.00[CHB][hapmap];0.90[CHD][hapmap];0.90[ASN][1000 genomes]
rs3801127	1.00[CHB][hapmap];0.90[CHD][hapmap];0.90[ASN][1000 genomes]
rs3801128	0.96[ASN][1000 genomes]
rs3801132	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3801134	0.96[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4236355	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4610638	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4623319	0.86[ASN][1000 genomes]
rs4720303	0.85[CHB][hapmap];0.82[GIH][hapmap];0.89[MEX][hapmap];0.89[TSI][hapmap];0.82[ASN][1000 genomes]
rs4720306	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4723789	0.96[CEU][hapmap];0.85[CHB][hapmap];0.89[GIH][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4723791	0.85[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4723792	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4723795	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4723796	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4723798	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4723800	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56980069	0.86[ASN][1000 genomes]
rs59626436	0.86[ASN][1000 genomes]
rs59995998	0.86[ASN][1000 genomes]
rs62443565	0.86[ASN][1000 genomes]
rs62443566	0.86[ASN][1000 genomes]
rs62443573	0.86[ASN][1000 genomes]
rs62444126	0.92[ASN][1000 genomes]
rs62444137	0.96[ASN][1000 genomes]
rs62444140	0.96[ASN][1000 genomes]
rs6415270	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6462864	0.96[CEU][hapmap];0.85[CHB][hapmap];0.84[GIH][hapmap];0.95[MEX][hapmap];0.84[TSI][hapmap];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6462865	0.85[CHB][hapmap];0.80[CHD][hapmap];0.89[MEX][hapmap];0.84[TSI][hapmap];0.82[ASN][1000 genomes]
rs6462868	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6462869	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6462870	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6943746	0.82[CHB][hapmap];0.85[CHD][hapmap];0.86[ASN][1000 genomes]
rs6945239	0.88[ASN][1000 genomes]
rs6946636	1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6948026	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs6955677	1.00[CHB][hapmap];0.85[CHD][hapmap];0.88[ASN][1000 genomes]
rs6957565	1.00[CEU][hapmap];0.85[CHB][hapmap];0.80[CHD][hapmap];0.84[GIH][hapmap];0.89[MEX][hapmap];0.93[TSI][hapmap];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6959858	0.96[ASN][1000 genomes]
rs6960585	0.86[ASN][1000 genomes]
rs6962120	0.83[YRI][hapmap]
rs6963364	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6966738	0.86[ASN][1000 genomes]
rs6968196	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6969435	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6973415	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs6974795	0.88[ASN][1000 genomes]
rs6979578	0.91[EUR][1000 genomes]
rs713243	0.83[YRI][hapmap]
rs73123612	0.96[ASN][1000 genomes]
rs73127433	0.86[ASN][1000 genomes]
rs7776996	0.88[ASN][1000 genomes]
rs7777039	0.82[ASN][1000 genomes]
rs7782927	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs7788383	0.86[ASN][1000 genomes]
rs7793692	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs7798033	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7811383	0.97[EUR][1000 genomes]
rs8180877	0.88[ASN][1000 genomes]
rs917320	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs917321	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs917322	1.00[CHB][hapmap];0.90[CHD][hapmap];0.90[ASN][1000 genomes]
rs929422	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9639805	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9655397	0.82[CHB][hapmap];0.95[CHD][hapmap];0.96[ASN][1000 genomes]
rs976353	0.96[CEU][hapmap];0.85[CHB][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs982392	1.00[CHB][hapmap];0.88[ASN][1000 genomes]

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	nsv1032637	chr7:38832627-38902723	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv887966	chr7:38835035-38933942	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:38831000-38871200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr7:38835600-38900800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr7:38839800-38871000	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr7:38855600-38871000	Weak transcription	HepG2	liver
5	chr7:38856000-38871000	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr7:38856200-38871200	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr7:38857600-38871800	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr7:38858000-38870600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr7:38858400-38871800	Weak transcription	Lung	lung
10	chr7:38858600-38901600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr7:38858800-38907600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr7:38859000-38872800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr7:38859000-38895200	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr7:38859800-38900800	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr7:38860000-38870800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr7:38860600-38900200	Weak transcription	Fetal Intestine Large	intestine
17	chr7:38863000-38870800	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr7:38863000-38876800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr7:38863000-38888200	Weak transcription	Fetal Intestine Small	intestine
20	chr7:38863800-38879600	Weak transcription	Fetal Lung	lung
21	chr7:38864000-38874000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr7:38864200-38871200	Weak transcription	Primary T helper cells PMA-I stimulated	--
23	chr7:38865600-38873000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr7:38865800-38870800	Weak transcription	Brain Anterior Caudate	brain
25	chr7:38865800-38870800	Weak transcription	Fetal Heart	heart
26	chr7:38865800-38870800	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr7:38865800-38870800	Weak transcription	Stomach Smooth Muscle	stomach
28	chr7:38865800-38871000	Weak transcription	Brain Angular Gyrus	brain
29	chr7:38865800-38871200	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr7:38865800-38872800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr7:38865800-38879600	Weak transcription	Right Atrium	heart
32	chr7:38866000-38870800	Weak transcription	Aorta	Aorta
33	chr7:38866000-38870800	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr7:38866000-38872400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr7:38866000-38886400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr7:38866400-38870600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr7:38866400-38876800	Weak transcription	Primary hematopoietic stem cells	blood
38	chr7:38866400-38877000	Weak transcription	Primary T cells from cord blood	blood
39	chr7:38866800-38877000	Weak transcription	Primary B cells from cord blood	blood
40	chr7:38867200-38871000	Weak transcription	Rectal Smooth Muscle	rectum
41	chr7:38867200-38876800	Weak transcription	Primary B cells from peripheral blood	blood
42	chr7:38867400-38871800	Weak transcription	Fetal Brain Female	brain
43	chr7:38867400-38872800	Weak transcription	Ovary	ovary
44	chr7:38867400-38872800	Weak transcription	Pancreas	Pancrea
45	chr7:38867400-38873000	Weak transcription	Gastric	stomach
46	chr7:38867400-38877800	Weak transcription	Fetal Brain Male	brain
47	chr7:38867400-38905200	Weak transcription	Left Ventricle	heart
48	chr7:38867600-38879600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr7:38868800-38873800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr7:38869400-38870800	Enhancers	Brain Substantia Nigra	brain

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