Variant report

Variant	rs12255686
Chromosome Location	chr10:28486809-28486810
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10508736	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10740785	1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs10740786	0.97[ASN][1000 genomes]
rs10763646	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10763647	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10763648	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10763649	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10763650	1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs10826406	0.80[JPT][hapmap]
rs10826408	0.81[CHB][hapmap]
rs10826414	0.97[ASN][1000 genomes]
rs10826415	0.96[ASN][1000 genomes]
rs10826417	0.97[ASN][1000 genomes]
rs10826418	0.97[ASN][1000 genomes]
rs10826419	0.97[ASN][1000 genomes]
rs10826420	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs10826421	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10826422	0.97[ASN][1000 genomes]
rs10826424	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10826425	0.86[CEU][hapmap];0.80[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11006896	0.86[CHB][hapmap]
rs11006897	0.86[CHB][hapmap]
rs11006902	0.86[CHB][hapmap]
rs11006903	0.85[CHB][hapmap]
rs11006914	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11006915	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006917	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12049636	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12221232	0.97[ASN][1000 genomes]
rs12248472	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12251587	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12251924	0.86[CHB][hapmap];0.80[JPT][hapmap]
rs12254584	0.86[CHB][hapmap]
rs12261363	0.89[CHB][hapmap]
rs12264184	0.86[CHB][hapmap];0.80[JPT][hapmap]
rs12268470	0.86[CHB][hapmap]
rs12357915	0.96[ASN][1000 genomes]
rs12766231	0.86[CHB][hapmap];0.80[JPT][hapmap]
rs17831690	0.96[ASN][1000 genomes]
rs1824172	0.97[ASN][1000 genomes]
rs1824173	0.96[ASN][1000 genomes]
rs1937807	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1937808	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1937809	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2607539	0.91[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs2607542	0.97[ASN][1000 genomes]
rs2607543	0.97[ASN][1000 genomes]
rs2607544	0.97[ASN][1000 genomes]
rs2607545	0.97[ASN][1000 genomes]
rs2607546	0.97[ASN][1000 genomes]
rs2763321	0.85[CHB][hapmap]
rs2801833	0.97[ASN][1000 genomes]
rs2801834	0.91[ASN][1000 genomes]
rs2801835	1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs2985521	0.97[ASN][1000 genomes]
rs2985535	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2997210	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs35494924	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3847382	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3901407	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3905706	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4018718	0.97[ASN][1000 genomes]
rs4568902	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4749310	0.82[CHB][hapmap]
rs4749311	0.82[CHB][hapmap];0.80[JPT][hapmap]
rs7067826	0.97[ASN][1000 genomes]
rs7068246	0.87[CEU][hapmap];0.90[CHB][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7068687	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7081378	0.86[CHB][hapmap]
rs7085245	0.86[CHB][hapmap]
rs7088552	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7096944	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7101051	0.86[CHB][hapmap]
rs72631847	0.97[ASN][1000 genomes]
rs7893311	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7901941	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7915273	0.97[ASN][1000 genomes]
rs7922685	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9663596	0.81[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1042524	chr10:28290149-28506812	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv831816	chr10:28304698-28493635	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv831817	chr10:28369836-28539930	Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
7	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
8	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28449800-28497000	Weak transcription	Fetal Intestine Small	intestine
2	chr10:28467600-28491800	Weak transcription	Psoas Muscle	Psoas
3	chr10:28467600-28525600	Weak transcription	Aorta	Aorta
4	chr10:28467800-28495200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr10:28469800-28491000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr10:28481000-28496400	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr10:28481200-28487600	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr10:28481200-28490400	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr10:28483600-28488800	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr10:28484600-28492400	Strong transcription	Monocytes-CD14+_RO01746	blood
11	chr10:28484600-28496800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr10:28485000-28490800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr10:28485400-28487200	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr10:28485600-28490400	Weak transcription	Stomach Smooth Muscle	stomach
15	chr10:28485600-28504400	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr10:28486600-28487800	Weak transcription	Primary T cells from cord blood	blood
17	chr10:28486800-28496200	Weak transcription	Primary B cells from cord blood	blood

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