Variant report

Variant	rs1999045
Chromosome Location	chr6:39369568-39369569
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10807207	0.94[CHB][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs10947809	1.00[CEU][hapmap];0.95[CHB][hapmap];0.85[CHD][hapmap];0.87[GIH][hapmap];0.90[JPT][hapmap];0.92[TSI][hapmap];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10947810	0.95[CHB][hapmap];0.82[CHD][hapmap];0.86[ASN][1000 genomes]
rs10947811	0.95[CHB][hapmap];0.84[ASN][1000 genomes]
rs1106961	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12527811	0.95[CHB][hapmap];0.86[CHD][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs1328383	1.00[CHB][hapmap];0.96[CHD][hapmap];0.83[GIH][hapmap];0.80[MEX][hapmap];0.93[ASN][1000 genomes]
rs1328388	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs1328389	1.00[CHB][hapmap];0.92[CHD][hapmap];0.89[ASN][1000 genomes]
rs1328390	0.87[ASN][1000 genomes]
rs1887713	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs4142117	0.95[CHB][hapmap];0.82[CHD][hapmap];0.84[ASN][1000 genomes]
rs4142118	1.00[CHB][hapmap];0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs4392720	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs4714250	0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4714251	0.95[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs6458114	0.83[ASN][1000 genomes]
rs6458115	0.95[CHB][hapmap];0.82[CHD][hapmap];0.83[ASN][1000 genomes]
rs6900629	0.95[CHB][hapmap];0.82[CHD][hapmap];0.83[ASN][1000 genomes]
rs6908396	0.94[CHB][hapmap]
rs72850620	0.98[ASN][1000 genomes]
rs7759557	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9367004	0.94[CHB][hapmap];0.92[CHD][hapmap];0.90[JPT][hapmap];0.98[ASN][1000 genomes]
rs9367005	1.00[CHB][hapmap];0.90[JPT][hapmap];0.98[ASN][1000 genomes]
rs9367006	0.95[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9369114	1.00[CHB][hapmap];0.96[CHD][hapmap];0.81[GIH][hapmap];0.93[ASN][1000 genomes]
rs9380860	0.99[ASN][1000 genomes]
rs9394591	0.95[CHB][hapmap];0.86[CHD][hapmap];0.85[ASN][1000 genomes]
rs9462543	0.93[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9471089	0.98[ASN][1000 genomes]
rs9471090	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs9471092	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs9471097	0.95[CHB][hapmap];0.85[ASN][1000 genomes]
rs9471098	0.95[CHB][hapmap];0.89[CHD][hapmap];0.85[ASN][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	nsv830645	chr6:39227601-39408310	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv533806	chr6:39270073-39397337	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39356000-39369600	Weak transcription	Brain Angular Gyrus	brain
2	chr6:39362400-39369600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:39362600-39369600	Weak transcription	Brain Hippocampus Middle	brain
4	chr6:39367600-39371600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:39368200-39370600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr6:39368400-39371000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:39368400-39371400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr6:39368400-39371400	Enhancers	Adipose Nuclei	Adipose
9	chr6:39368600-39371200	Enhancers	NHDF-Ad	bronchial
10	chr6:39368600-39371400	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr6:39368600-39371600	Enhancers	Brain Substantia Nigra	brain
12	chr6:39368800-39370600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr6:39369200-39370600	Enhancers	Placenta	Placenta
14	chr6:39369400-39370000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr6:39369400-39370400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:39369400-39371400	Enhancers	Brain Cingulate Gyrus	brain

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