Variant report

Variant	rs1555097
Chromosome Location	chr6:56012117-56012118
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs1022539	0.92[JPT][hapmap]
rs1033478	0.93[JPT][hapmap]
rs1205109	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12199712	0.93[JPT][hapmap]
rs12199742	0.92[JPT][hapmap]
rs1319112	0.82[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs13193925	0.81[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap]
rs13209836	0.90[JPT][hapmap]
rs1480	1.00[CEU][hapmap];0.82[CHB][hapmap];0.82[EUR][1000 genomes]
rs1925141	0.83[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1925143	0.93[JPT][hapmap]
rs1925147	0.83[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1925149	0.92[JPT][hapmap]
rs1925177	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1925179	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1925180	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1925181	0.91[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1925185	0.82[CHB][hapmap];0.92[JPT][hapmap]
rs1925186	0.88[EUR][1000 genomes]
rs1925189	0.93[JPT][hapmap]
rs1980487	0.92[JPT][hapmap]
rs2038149	0.92[JPT][hapmap]
rs2038173	0.83[AMR][1000 genomes]
rs2206674	1.00[CEU][hapmap];0.92[JPT][hapmap];0.80[EUR][1000 genomes]
rs2328677	0.96[CEU][hapmap];0.92[JPT][hapmap];0.88[EUR][1000 genomes]
rs2397204	0.96[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.88[EUR][1000 genomes]
rs2397208	0.84[JPT][hapmap]
rs2745366	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764046	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap]
rs2764048	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764050	0.86[EUR][1000 genomes]
rs2764052	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2764055	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2764056	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2764058	0.86[AMR][1000 genomes]
rs2764059	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2840989	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2840990	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2841000	0.83[CEU][hapmap];0.92[JPT][hapmap]
rs2841006	1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2841007	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3817983	1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.80[EUR][1000 genomes]
rs3846918	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3846920	1.00[CEU][hapmap];0.85[JPT][hapmap];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3846921	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3846922	0.92[JPT][hapmap]
rs3846923	0.93[JPT][hapmap]
rs3846924	0.92[JPT][hapmap]
rs3857611	0.83[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs3857612	0.93[JPT][hapmap]
rs3996940	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4119567	0.92[JPT][hapmap]
rs4126558	0.93[JPT][hapmap]
rs4379279	1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.91[EUR][1000 genomes]
rs4495274	0.92[JPT][hapmap]
rs4573075	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4596475	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4599643	0.96[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.82[EUR][1000 genomes]
rs4712113	0.91[CHB][hapmap];0.89[JPT][hapmap]
rs4715585	0.93[JPT][hapmap]
rs4715591	0.83[CEU][hapmap];0.86[JPT][hapmap]
rs4715597	0.83[CEU][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6459124	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6459127	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6459128	0.93[JPT][hapmap]
rs6459136	0.92[JPT][hapmap]
rs66585712	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6909268	0.90[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6914495	0.92[JPT][hapmap]
rs6927919	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6933151	0.93[JPT][hapmap]
rs6939465	0.93[JPT][hapmap]
rs7774374	0.87[CEU][hapmap];0.93[JPT][hapmap];0.82[EUR][1000 genomes]
rs9296828	1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.82[EUR][1000 genomes]
rs9296830	0.81[CEU][hapmap];0.82[CHB][hapmap];0.84[JPT][hapmap]
rs9357886	0.82[EUR][1000 genomes]
rs9357891	0.96[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.89[EUR][1000 genomes]
rs9370485	0.82[CHB][hapmap];0.93[JPT][hapmap]
rs9370486	0.93[JPT][hapmap]
rs9370493	0.91[ASN][1000 genomes]
rs9382583	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9382595	0.93[JPT][hapmap]
rs9396176	0.88[CHB][hapmap];0.86[JPT][hapmap]
rs9475560	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9475593	0.93[JPT][hapmap]
rs9475621	0.92[JPT][hapmap]
rs994667	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][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	nsv1034037	chr6:55222409-56069600	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv885911	chr6:55789704-56143231	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv526703	chr6:55810482-56023811	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 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	chr6:55920600-56018400	Weak transcription	Ovary	ovary
2	chr6:55984000-56037000	Weak transcription	Fetal Kidney	kidney
3	chr6:55999000-56021200	Weak transcription	Aorta	Aorta
4	chr6:55999200-56012800	Weak transcription	Fetal Stomach	stomach
5	chr6:56006600-56015400	Weak transcription	Fetal Muscle Leg	muscle
6	chr6:56006600-56018600	Weak transcription	Stomach Smooth Muscle	stomach
7	chr6:56010000-56016600	Weak transcription	Fetal Muscle Trunk	muscle
8	chr6:56010400-56012200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:56011200-56012800	Enhancers	Rectal Smooth Muscle	rectum
10	chr6:56011400-56013000	Enhancers	Colon Smooth Muscle	Colon
11	chr6:56011600-56013000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:56011600-56013200	Weak transcription	HUVEC	blood vessel
13	chr6:56011600-56013200	Weak transcription	NHDF-Ad	bronchial
14	chr6:56011600-56013600	Weak transcription	Osteobl	bone
15	chr6:56011600-56018600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr6:56011600-56018800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr6:56012000-56013600	Strong transcription	Fetal Lung	lung

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