Variant report

Variant	rs9469222
Chromosome Location	chr6:11488252-11488253
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:11438078..11439699-chr6:11488240..11490265,2	MCF-7	breast:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs11963496	1.00[CEU][hapmap];0.87[LWK][hapmap];0.83[AMR][1000 genomes]
rs11965815	1.00[CEU][hapmap];0.87[LWK][hapmap];0.83[AMR][1000 genomes]
rs17397079	1.00[CEU][hapmap];0.80[LWK][hapmap]
rs17397134	0.83[AMR][1000 genomes]
rs17397448	0.83[AMR][1000 genomes]
rs17397532	1.00[CEU][hapmap];0.87[LWK][hapmap];0.83[AMR][1000 genomes]
rs17476088	0.83[AMR][1000 genomes]
rs17476123	0.83[AMR][1000 genomes]
rs17607642	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17607970	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17608090	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17608111	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17676117	1.00[CEU][hapmap];1.00[MEX][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs41270500	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4336440	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs547448	1.00[CEU][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.81[TSI][hapmap];0.81[EUR][1000 genomes]
rs55657760	0.90[AMR][1000 genomes]
rs55691332	0.86[AMR][1000 genomes]
rs55869413	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs56104474	0.83[AMR][1000 genomes]
rs56156527	0.83[AMR][1000 genomes]
rs56383603	0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6905551	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6921425	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6936344	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6938970	0.83[AMR][1000 genomes]
rs72832975	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs72833000	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72834704	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72834705	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834710	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72834714	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72834783	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834784	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72834785	0.90[AMR][1000 genomes]
rs72834795	0.86[AMR][1000 genomes]
rs72834796	0.83[AMR][1000 genomes]
rs72834801	0.83[AMR][1000 genomes]
rs72836604	0.83[AMR][1000 genomes]
rs72836621	0.83[AMR][1000 genomes]
rs9461774	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9461777	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469166	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs9469216	1.00[CEU][hapmap];0.94[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469217	0.85[LWK][hapmap];0.86[MKK][hapmap]
rs9469218	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469223	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9469359	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9986655	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[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: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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