Variant report

Variant	rs6936344
Chromosome Location	chr6:11490537-11490538
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	chr6:11489653..11491693-chr6:11494680..11496394,2	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs11962387	0.92[EUR][1000 genomes]
rs11962527	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11963496	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11965815	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17397079	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs17397134	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17397448	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17397532	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17476088	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17476123	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17607642	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17607970	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17608090	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17608111	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17676117	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs41270500	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4336440	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs547448	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs55635543	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55657760	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55691332	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55869413	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs55902701	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs56104474	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs56156527	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56382227	0.89[EUR][1000 genomes]
rs56383603	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6899374	0.81[EUR][1000 genomes]
rs6905551	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6921425	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6938970	0.84[EUR][1000 genomes]
rs72832975	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72833000	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72834704	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72834705	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834710	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72834714	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72834783	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834784	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72834785	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72834795	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72834796	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72834797	0.92[EUR][1000 genomes]
rs72834801	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72834802	0.89[EUR][1000 genomes]
rs72836604	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72836607	0.89[EUR][1000 genomes]
rs72836621	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9461774	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9461777	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469166	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9469216	1.00[CEU][hapmap];0.94[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469218	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469222	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469223	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469359	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9986655	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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
4	esv3357042	chr6:11489266-11493964	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	esv3372842	chr6:11489366-11493264	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	esv3396914	chr6:11489566-11493564	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	esv3441435	chr6:11489666-11493664	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11480200-11491200	Weak transcription	Fetal Kidney	kidney
2	chr6:11483800-11495000	Weak transcription	Pancreas	Pancrea
3	chr6:11486800-11496000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr6:11486800-11496800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:11487000-11495000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:11487400-11495800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr6:11487400-11495800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr6:11488000-11491400	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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