Variant report

Variant	rs9290052
Chromosome Location	chr3:159740086-159740087
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	chr3:159739668..159742959-chr3:159743211..159746773,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000242107	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs12487614	0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12489264	0.89[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12492679	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12496176	0.96[ASN][1000 genomes]
rs1651081	0.90[YRI][hapmap]
rs16830996	0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs16831029	0.86[EUR][1000 genomes]
rs2115174	0.86[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2366643	0.90[YRI][hapmap]
rs2914116	0.90[YRI][hapmap]
rs34842858	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35321606	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs480913	0.89[YRI][hapmap]
rs484600	0.90[YRI][hapmap]
rs491966	0.90[YRI][hapmap]
rs545143	0.89[YRI][hapmap]
rs545232	0.93[YRI][hapmap]
rs574808	0.93[YRI][hapmap]
rs586094	0.89[YRI][hapmap]
rs589545	0.90[YRI][hapmap]
rs59249997	0.86[EUR][1000 genomes]
rs59972445	0.88[ASN][1000 genomes]
rs600519	0.90[YRI][hapmap]
rs6441288	0.90[YRI][hapmap]
rs6441289	0.89[YRI][hapmap]
rs669003	0.93[YRI][hapmap]
rs6771363	0.90[YRI][hapmap]
rs6771983	1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6784758	0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6808498	0.90[YRI][hapmap]
rs7427782	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7427801	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7427807	0.86[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7429852	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7625648	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9283612	0.89[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9290053	0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9812698	0.88[ASN][1000 genomes]
rs9812995	0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs9813028	0.86[JPT][hapmap];1.00[ASN][1000 genomes]
rs9816860	1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9827531	0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9830969	0.88[ASN][1000 genomes]
rs9834418	0.89[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9835467	0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs9838248	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9850910	0.92[ASN][1000 genomes]
rs9851355	0.92[ASN][1000 genomes]
rs9857045	0.88[ASN][1000 genomes]
rs9862350	0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs9871440	0.89[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9872678	0.88[ASN][1000 genomes]
rs9873090	0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs9883287	0.88[ASN][1000 genomes]
rs9968092	0.89[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9968093	0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9968095	0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs9968097	0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv829769	chr3:159606913-159805282	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	esv1806743	chr3:159723529-159744022	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159729200-159740800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr3:159739000-159741400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr3:159739000-159742000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr3:159740000-159741200	Enhancers	Primary hematopoietic stem cells short term culture	blood

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