Variant report

Variant	rs6786135
Chromosome Location	chr3:53669965-53669966
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	chr3:53661729..53666678-chr3:53666737..53670217,5	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1037827	0.89[EUR][1000 genomes]
rs11130373	0.82[EUR][1000 genomes]
rs11711045	0.94[CHB][hapmap]
rs11720002	0.94[CHB][hapmap]
rs1380606	0.82[ASW][hapmap];1.00[CEU][hapmap];0.95[GIH][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1401494	0.85[CEU][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1460118	0.94[CHB][hapmap]
rs1599230	0.91[ASW][hapmap];0.81[CEU][hapmap];0.82[LWK][hapmap];0.91[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs1841291	0.88[CEU][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2250736	0.85[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];0.87[LWK][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2612018	0.88[LWK][hapmap];0.92[MKK][hapmap];0.88[YRI][hapmap]
rs2612022	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2633707	0.89[CEU][hapmap];0.86[GIH][hapmap];0.87[TSI][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2680654	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2680656	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3774481	0.92[CEU][hapmap];0.88[YRI][hapmap];0.84[EUR][1000 genomes]
rs3774486	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3774491	1.00[CEU][hapmap];0.83[GIH][hapmap];0.80[MEX][hapmap];0.87[TSI][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6445590	0.90[CEU][hapmap];0.82[EUR][1000 genomes]
rs6445591	0.90[EUR][1000 genomes]
rs754063	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7630805	1.00[CEU][hapmap];0.95[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap]
rs898408	0.88[YRI][hapmap]
rs898415	0.82[ASW][hapmap];1.00[CEU][hapmap];0.95[GIH][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs898416	0.82[ASW][hapmap];1.00[CEU][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs930949	0.90[EUR][1000 genomes]
rs9846874	0.81[CEU][hapmap]
rs9850569	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs9883910	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003621	chr3:53448934-54425322	Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv1001128	chr3:53659570-53927842	Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53652800-53684000	Weak transcription	Right Atrium	heart
2	chr3:53666400-53681400	Weak transcription	Fetal Lung	lung
3	chr3:53667600-53680600	Weak transcription	Fetal Intestine Large	intestine
4	chr3:53668200-53672600	Weak transcription	Stomach Mucosa	stomach
5	chr3:53668800-53670600	Strong transcription	Fetal Intestine Small	intestine
6	chr3:53669800-53670000	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
7	chr3:53669800-53670000	Enhancers	Spleen	Spleen

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