Variant report

Variant	rs3799028
Chromosome Location	chr6:69794931-69794932
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:68)

rs_ID	r²[population]
rs1007921	1.00[JPT][hapmap]
rs12194774	1.00[JPT][hapmap]
rs12194946	1.00[JPT][hapmap]
rs12213405	1.00[JPT][hapmap]
rs1336634	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1336651	1.00[JPT][hapmap]
rs1384246	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1384247	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1415029	1.00[JPT][hapmap]
rs1415036	1.00[JPT][hapmap]
rs1482323	1.00[JPT][hapmap]
rs1842743	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1889877	1.00[JPT][hapmap]
rs1889878	1.00[JPT][hapmap]
rs2128290	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2170508	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2170509	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2200088	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2210867	1.00[JPT][hapmap]
rs2225803	1.00[JPT][hapmap]
rs2785576	1.00[JPT][hapmap]
rs2793459	1.00[JPT][hapmap]
rs3734465	1.00[JPT][hapmap]
rs3757051	1.00[JPT][hapmap]
rs3799002	1.00[JPT][hapmap]
rs3799007	1.00[JPT][hapmap]
rs3799017	1.00[JPT][hapmap]
rs3799021	1.00[JPT][hapmap]
rs3799023	1.00[JPT][hapmap]
rs3799030	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3799039	1.00[JPT][hapmap]
rs3823067	1.00[JPT][hapmap]
rs4554293	1.00[JPT][hapmap]
rs4706857	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs524359	1.00[JPT][hapmap]
rs526898	1.00[JPT][hapmap]
rs557184	1.00[JPT][hapmap]
rs570181	0.81[CEU][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap]
rs602406	1.00[JPT][hapmap]
rs62406773	0.90[ASN][1000 genomes]
rs634695	1.00[JPT][hapmap]
rs635863	1.00[JPT][hapmap]
rs6455309	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs653895	1.00[JPT][hapmap]
rs686899	0.85[AFR][1000 genomes]
rs6904267	1.00[JPT][hapmap]
rs6930865	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739849	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7743332	1.00[JPT][hapmap]
rs7756040	1.00[JPT][hapmap]
rs7756358	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7756637	1.00[JPT][hapmap]
rs7760307	1.00[JPT][hapmap]
rs7764479	1.00[JPT][hapmap]
rs7767118	1.00[JPT][hapmap]
rs779017	1.00[JPT][hapmap]
rs9342740	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9346261	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9354816	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9360371	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9360372	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9446085	1.00[JPT][hapmap]
rs9454674	1.00[JPT][hapmap]
rs9454687	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9454695	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs964664	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs994380	0.90[CEU][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs994381	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886137	chr6:69684850-70095690	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69760400-69800200	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr6:69784000-69797800	Weak transcription	Brain Angular Gyrus	brain
3	chr6:69794600-69795000	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr6:69794600-69795200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr6:69794600-69796400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr6:69794800-69795000	Enhancers	Fetal Lung	lung
7	chr6:69794800-69795400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr6:69794800-69802800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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