Variant report

Variant	rs871512
Chromosome Location	chr9:85689581-85689582
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	chr9:85676023..85678265-chr9:85688162..85689853,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165105	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1008171	0.88[CEU][hapmap];0.89[JPT][hapmap]
rs10116216	0.96[CEU][hapmap];0.92[MEX][hapmap];0.83[TSI][hapmap];0.84[EUR][1000 genomes]
rs10121376	0.80[AMR][1000 genomes]
rs10735559	0.88[CEU][hapmap];0.95[GIH][hapmap]
rs10780561	0.87[CEU][hapmap]
rs10780563	0.90[JPT][hapmap];0.80[MEX][hapmap]
rs10780564	0.81[AMR][1000 genomes]
rs10780567	0.84[MEX][hapmap]
rs10867928	0.90[JPT][hapmap]
rs10867929	0.80[MEX][hapmap]
rs10867930	0.92[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1125915	0.81[CEU][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1393563	0.88[CEU][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1502683	0.88[CEU][hapmap]
rs1502684	0.88[CEU][hapmap];0.85[GIH][hapmap]
rs1546315	0.90[JPT][hapmap]
rs1976455	0.80[MEX][hapmap]
rs1995423	0.84[ASW][hapmap];1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2062761	0.81[CEU][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.96[MEX][hapmap];0.82[TSI][hapmap];0.92[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4146961	0.90[JPT][hapmap]
rs4301515	0.89[JPT][hapmap]
rs4355855	0.88[CEU][hapmap];0.95[GIH][hapmap]
rs4391505	0.88[CEU][hapmap]
rs4460464	0.96[CEU][hapmap];0.92[MEX][hapmap];0.83[TSI][hapmap];0.84[EUR][1000 genomes]
rs4877725	0.88[CEU][hapmap]
rs4877726	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6559694	0.90[JPT][hapmap];0.80[MEX][hapmap]
rs6559695	0.84[CEU][hapmap];0.91[MEX][hapmap]
rs7019227	0.84[MEX][hapmap]
rs7029133	0.81[EUR][1000 genomes]
rs7847666	0.84[GIH][hapmap];0.90[JPT][hapmap]
rs7854101	0.90[JPT][hapmap]
rs7866666	0.80[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893511	chr9:85495968-85833127	Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1043722	chr9:85663674-85747562	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv831642	chr9:85679425-85817338	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv831643	chr9:85679431-85798990	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85682400-85706200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:85685000-85696600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr9:85687200-85692800	Weak transcription	Pancreas	Pancrea

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