Variant report

Variant	rs718460
Chromosome Location	chr6:113744576-113744577
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	chr6:113741733..113746480-chr6:113749879..113754068,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000232316	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1009404	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10872098	0.86[ASN][1000 genomes]
rs11153416	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1883171	0.83[ASN][1000 genomes]
rs2049923	0.86[ASN][1000 genomes]
rs2142639	0.86[ASN][1000 genomes]
rs2348293	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2348294	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2348295	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2348302	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2881870	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4945495	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4945496	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6568788	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.87[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6568789	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6568790	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6568793	0.86[ASN][1000 genomes]
rs6903091	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6903628	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6908767	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6915133	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6915622	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6926220	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs718459	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7341217	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7738052	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7739755	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7768104	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs909541	1.00[CHB][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9285411	0.86[ASN][1000 genomes]
rs9320446	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9320450	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9320459	0.86[ASN][1000 genomes]
rs9374397	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9374399	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9374401	0.86[ASN][1000 genomes]
rs9387145	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9400624	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9481369	0.86[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	nsv916294	chr6:113518489-113904305	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1034256	chr6:113703567-113793790	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1021815	chr6:113703567-113799956	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs718460	ROS1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:113736000-113747200	Weak transcription	HMEC	breast

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