Variant report

Variant	rs3904188
Chromosome Location	chr9:85997016-85997017
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	chr9:85996640..85999188-chr9:86152643..86154584,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000172159	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10512140	0.88[GIH][hapmap]
rs10780599	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10780600	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10868003	0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11140062	0.82[ASN][1000 genomes]
rs11140065	0.92[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.84[TSI][hapmap];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12115799	0.92[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12337675	0.81[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.92[MKK][hapmap];0.98[TSI][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12342540	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13292680	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13292829	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2183260	1.00[CHB][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];0.83[JPT][hapmap];0.84[TSI][hapmap];0.90[ASN][1000 genomes]
rs3860910	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3928783	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4084066	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4145728	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4242622	0.85[GIH][hapmap]
rs6559722	1.00[CHD][hapmap];0.85[GIH][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs7847162	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7853850	0.91[ASN][1000 genomes]
rs7854453	0.83[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs7868589	0.84[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046491	chr9:85861492-86063992	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85937400-85998000	Weak transcription	Aorta	Aorta
2	chr9:85958200-86007600	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr9:85981000-85997800	Weak transcription	Left Ventricle	heart
4	chr9:85982600-85998800	Weak transcription	Ovary	ovary
5	chr9:85983000-85998400	Weak transcription	Fetal Brain Male	brain
6	chr9:85995400-85997800	Weak transcription	Duodenum Smooth Muscle	Duodenum

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