Variant report

Variant	rs821543
Chromosome Location	chr6:11498425-11498426
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:11142754..11146580-chr6:11494452..11498982,8	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

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	0.81[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs10947357	0.81[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs10947360	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs10947419	0.91[JPT][hapmap]
rs11755780	0.96[YRI][hapmap]
rs12189605	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12190208	0.91[JPT][hapmap]
rs12192607	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs12194504	0.88[JPT][hapmap]
rs12195075	0.81[ASN][1000 genomes]
rs12201467	0.81[ASN][1000 genomes]
rs12207526	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	0.81[CHB][hapmap];0.89[JPT][hapmap]
rs16871484	0.91[JPT][hapmap]
rs17697397	0.81[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs4711306	0.96[YRI][hapmap]
rs4713594	0.82[YRI][hapmap]
rs489364	0.81[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs566535	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs566568	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs672232	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs673633	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9348895	0.96[YRI][hapmap]
rs9348896	0.85[YRI][hapmap]
rs9469217	0.85[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][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:18 , 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	chr6:11496400-11498600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
4	chr6:11496600-11499800	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr6:11496600-11500000	Weak transcription	Osteobl	bone
6	chr6:11496600-11500200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:11497000-11499800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr6:11497000-11500000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr6:11497000-11500200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:11497200-11499200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr6:11497200-11500000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:11497200-11500000	Weak transcription	NHEK	skin
13	chr6:11497400-11500000	Weak transcription	HepG2	liver
14	chr6:11497800-11498600	Enhancers	Primary neutrophils fromperipheralblood	blood
15	chr6:11497800-11498800	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr6:11498000-11498600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:11498400-11498600	Enhancers	Placenta	Placenta
18	chr6:11498400-11500000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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