Variant report

Variant	rs1925177
Chromosome Location	chr6:56009023-56009024
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1205109	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1319112	0.91[ASN][1000 genomes]
rs1480	0.82[EUR][1000 genomes]
rs1555097	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1925141	0.91[ASN][1000 genomes]
rs1925147	0.81[ASN][1000 genomes]
rs1925179	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1925180	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1925181	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1925186	0.88[EUR][1000 genomes]
rs2038173	0.83[AMR][1000 genomes]
rs2206674	0.80[EUR][1000 genomes]
rs2328677	0.88[EUR][1000 genomes]
rs2397204	0.88[EUR][1000 genomes]
rs2745366	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764048	0.89[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	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	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2841006	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2841007	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3817983	0.80[EUR][1000 genomes]
rs3846918	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3846920	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3846921	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3857611	0.91[ASN][1000 genomes]
rs3996940	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4379279	0.91[EUR][1000 genomes]
rs4573075	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4596475	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4599643	0.82[EUR][1000 genomes]
rs4715597	0.83[ASN][1000 genomes]
rs6459124	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6459127	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs66585712	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6909268	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6927919	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7774374	0.82[EUR][1000 genomes]
rs9296828	0.82[EUR][1000 genomes]
rs9357886	0.82[EUR][1000 genomes]
rs9357891	0.89[EUR][1000 genomes]
rs9370493	0.91[ASN][1000 genomes]
rs9382583	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9475560	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs994667	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:19 , 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	chr6:56008400-56009600	Enhancers	NHDF-Ad	bronchial
8	chr6:56008400-56010000	Strong transcription	Fetal Lung	lung
9	chr6:56008400-56010000	Strong transcription	Fetal Muscle Trunk	muscle
10	chr6:56008400-56011600	Enhancers	HUVEC	blood vessel
11	chr6:56008600-56009400	Enhancers	Osteobl	bone
12	chr6:56008600-56009600	Enhancers	Muscle Satellite Cultured Cells	--
13	chr6:56008600-56011600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr6:56008800-56009200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr6:56008800-56009600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:56008800-56010400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr6:56008800-56010600	Enhancers	NH-A	brain
18	chr6:56009000-56010600	Enhancers	HSMM	muscle
19	chr6:56009000-56011400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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