Variant report

Variant	rs9990016
Chromosome Location	chr3:89364033-89364034
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:89363361..89364089-chr3:89576940..89577502,2	MCF-7	breast:
2	chr3:89363840..89366727-chr3:89369296..89370950,2	MCF-7	breast:
3	chr3:89363341..89364322-chr3:89553265..89554099,2	MCF-7	breast:
4	chr3:89362727..89364940-chr3:89377326..89380080,2	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1040017	0.93[CEU][hapmap];0.81[CHB][hapmap]
rs11128072	0.93[CEU][hapmap];0.81[CHB][hapmap];0.83[EUR][1000 genomes]
rs11923303	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13076853	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13081450	0.81[JPT][hapmap]
rs13088663	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13100388	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1398532	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1398535	0.93[CEU][hapmap];0.84[EUR][1000 genomes]
rs1512907	1.00[CHB][hapmap];0.80[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1512910	0.93[CEU][hapmap];0.81[CHB][hapmap]
rs1512912	0.89[CEU][hapmap];0.81[CHB][hapmap];0.82[EUR][1000 genomes]
rs1567732	0.93[CEU][hapmap];0.83[EUR][1000 genomes]
rs17800641	0.83[EUR][1000 genomes]
rs28675360	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28885734	0.81[EUR][1000 genomes]
rs35173319	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35448293	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35511518	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4449340	0.93[CEU][hapmap];0.81[CHB][hapmap];0.84[EUR][1000 genomes]
rs4857496	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs6551409	0.89[CEU][hapmap];0.81[CHB][hapmap];0.82[EUR][1000 genomes]
rs6551410	0.86[CHB][hapmap]
rs6768381	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6770978	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs6771336	0.81[EUR][1000 genomes]
rs6771477	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs7428532	0.80[EUR][1000 genomes]
rs7619025	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7644070	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs907712	0.93[CEU][hapmap];0.84[EUR][1000 genomes]
rs9310117	0.89[CEU][hapmap]
rs9310119	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9310120	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9310121	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9310122	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs954964	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9809011	0.93[CEU][hapmap];0.85[EUR][1000 genomes]
rs9811041	0.93[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9817310	0.89[CEU][hapmap]
rs9817553	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9833400	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9838512	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs9845870	0.93[CEU][hapmap]
rs9846844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9853389	0.82[EUR][1000 genomes]
rs9866945	0.93[CEU][hapmap];0.81[CHB][hapmap];0.85[EUR][1000 genomes]
rs9866959	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9877953	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs994129	0.93[CEU][hapmap];0.81[CHB][hapmap];0.83[EUR][1000 genomes]

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	nsv437866	chr3:89247881-89480265	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv590921	chr3:89294149-89392778	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv590922	chr3:89314862-89417064	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv590923	chr3:89336417-89417171	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89363400-89364200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:89363600-89364200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr3:89363600-89369000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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