Variant report

Variant	rs566568
Chromosome Location	chr6:11499392-11499393
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10456073	0.89[JPT][hapmap]
rs10498678	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10947305	0.91[JPT][hapmap]
rs10947356	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs10947357	0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs10947360	0.88[JPT][hapmap]
rs10947419	0.81[CHD][hapmap];0.91[JPT][hapmap]
rs11755780	0.89[YRI][hapmap]
rs12189605	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12190208	0.91[JPT][hapmap]
rs12192607	0.90[JPT][hapmap]
rs12194504	0.88[JPT][hapmap]
rs12195075	0.81[ASN][1000 genomes]
rs12201467	0.81[ASN][1000 genomes]
rs12207526	0.81[CHD][hapmap];0.91[JPT][hapmap]
rs12210023	0.81[ASN][1000 genomes]
rs12210076	0.91[JPT][hapmap]
rs12211930	0.91[JPT][hapmap]
rs12212790	0.90[JPT][hapmap]
rs12525082	0.81[ASN][1000 genomes]
rs16868542	0.91[JPT][hapmap]
rs16868544	0.91[JPT][hapmap]
rs16871460	0.91[JPT][hapmap]
rs16871482	0.89[JPT][hapmap]
rs16871484	0.81[CHD][hapmap];0.91[JPT][hapmap]
rs17697397	0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs4711306	0.89[YRI][hapmap]
rs489364	0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs566535	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs672232	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs673633	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs821543	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9348895	0.89[YRI][hapmap]
rs9348896	0.92[YRI][hapmap]
rs9469217	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.93[TSI][hapmap];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9791196	0.81[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	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv432848	chr6:11371614-11560114	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11493000-11499800	Weak transcription	NH-A	brain
2	chr6:11494400-11500600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr6:11496600-11499800	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr6:11496600-11500000	Weak transcription	Osteobl	bone
5	chr6:11496600-11500200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:11497000-11499800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:11497000-11500000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr6:11497000-11500200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr6:11497200-11500000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr6:11497200-11500000	Weak transcription	NHEK	skin
11	chr6:11497400-11500000	Weak transcription	HepG2	liver
12	chr6:11498400-11500000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:11498600-11499800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:11498600-11500200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr6:11499200-11499400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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