Variant report

Variant	rs731052
Chromosome Location	chr15:49957299-49957300
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:49942997..49945397-chr15:49954846..49957351,2	MCF-7	breast:
2	chr15:49955894..49958426-chr15:49959044..49961456,2	MCF-7	breast:
3	chr15:49912534..49916324-chr15:49956970..49959051,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166262	Chromatin interaction
ENSG00000104047	Chromatin interaction
ENSG00000261597	Chromatin interaction

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10519235	0.93[ASW][hapmap];0.97[LWK][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs10519237	1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10519238	0.87[AFR][1000 genomes]
rs11070712	1.00[CHB][hapmap];0.93[JPT][hapmap];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12324090	0.93[AFR][1000 genomes]
rs12592839	0.90[AFR][1000 genomes]
rs12594926	0.91[AFR][1000 genomes]
rs12901023	0.87[ASN][1000 genomes]
rs12901631	0.87[ASN][1000 genomes]
rs12902098	1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12904876	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12906970	1.00[CHB][hapmap];0.93[JPT][hapmap];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12907986	1.00[CHB][hapmap];0.84[JPT][hapmap];0.84[ASN][1000 genomes]
rs12910139	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12913643	0.81[ASN][1000 genomes]
rs12913706	1.00[CHB][hapmap];0.93[JPT][hapmap];0.93[ASN][1000 genomes]
rs13313447	0.91[AFR][1000 genomes]
rs1507617	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1588129	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs16962583	1.00[CHB][hapmap];0.94[CHD][hapmap];0.93[JPT][hapmap];0.86[MEX][hapmap];0.90[TSI][hapmap];0.85[ASN][1000 genomes]
rs16962663	0.93[ASW][hapmap];0.97[LWK][hapmap];0.89[MKK][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs16962664	0.93[ASW][hapmap];0.97[LWK][hapmap];0.89[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs16962668	0.92[LWK][hapmap]
rs16962670	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs16962673	1.00[CHB][hapmap];0.97[CHD][hapmap];0.93[JPT][hapmap];0.86[MEX][hapmap];0.90[TSI][hapmap];0.93[ASN][1000 genomes]
rs16962697	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs16962733	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16962735	0.88[AFR][1000 genomes]
rs16962755	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1843147	0.94[CHB][hapmap]
rs1911617	1.00[ASW][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.88[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][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]
rs2202711	0.81[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2202712	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2202713	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34134305	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34200965	0.93[ASN][1000 genomes]
rs34212162	0.91[AFR][1000 genomes]
rs34377746	0.81[ASN][1000 genomes]
rs34443321	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34531968	0.87[ASN][1000 genomes]
rs34764936	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34779255	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34798694	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34951376	0.87[ASN][1000 genomes]
rs34980263	0.87[ASN][1000 genomes]
rs34982209	0.93[ASN][1000 genomes]
rs35112372	0.92[ASN][1000 genomes]
rs35224895	0.81[ASN][1000 genomes]
rs35451130	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35563735	0.86[ASN][1000 genomes]
rs35699093	0.85[ASN][1000 genomes]
rs36114417	0.80[ASN][1000 genomes]
rs4304966	0.89[ASN][1000 genomes]
rs55691379	0.91[AFR][1000 genomes]
rs56053668	0.91[AFR][1000 genomes]
rs56248339	0.81[ASN][1000 genomes]
rs60640257	0.83[AFR][1000 genomes]
rs66535408	0.93[ASN][1000 genomes]
rs67196042	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs71467692	0.87[ASN][1000 genomes]
rs72729172	0.86[ASN][1000 genomes]
rs72731149	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72731157	0.82[ASN][1000 genomes]
rs73391038	0.85[AFR][1000 genomes]
rs73406025	0.89[AFR][1000 genomes]
rs73406091	0.96[AFR][1000 genomes]
rs73406098	0.96[AFR][1000 genomes]
rs73406100	0.96[AFR][1000 genomes]
rs73407903	0.96[AFR][1000 genomes]
rs74012439	0.89[AFR][1000 genomes]
rs74012441	0.86[AFR][1000 genomes]
rs8025420	0.89[AFR][1000 genomes]
rs8027730	0.83[YRI][hapmap]
rs8028721	0.91[YRI][hapmap]
rs8029303	0.91[AFR][1000 genomes]
rs8030269	0.91[AFR][1000 genomes]
rs8030707	0.91[YRI][hapmap]
rs8039808	0.93[ASW][hapmap];0.83[LWK][hapmap];0.89[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs906420	0.81[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9972602	0.91[AFR][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	nsv431388	chr15:49835663-49997483	Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 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	chr15:49955600-49961400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr15:49956200-49957400	Enhancers	Fetal Lung	lung
3	chr15:49956600-49961400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr15:49957200-49965600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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