Variant report

Variant	rs1909648
Chromosome Location	chr13:53792342-53792343
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	chr13:53225145..53227561-chr13:53790469..53792639,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165416	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1016829	0.99[ASN][1000 genomes]
rs1322949	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1322951	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1322952	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1322955	0.93[ASN][1000 genomes]
rs1322956	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1322961	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1322962	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1407686	0.86[ASN][1000 genomes]
rs1853369	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1909650	0.82[EUR][1000 genomes]
rs1923770	0.80[EUR][1000 genomes]
rs1923771	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2015677	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2038649	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2093599	0.82[EUR][1000 genomes]
rs2491124	0.99[ASN][1000 genomes]
rs2759675	0.83[EUR][1000 genomes]
rs2759706	0.99[ASN][1000 genomes]
rs2759708	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2759709	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2759712	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2759716	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2806936	0.87[ASN][1000 genomes]
rs2806939	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2806941	0.89[ASN][1000 genomes]
rs2806956	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2806960	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2806963	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2806964	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2806966	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4886270	0.93[ASN][1000 genomes]
rs7984963	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7994915	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8002513	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs912051	0.81[EUR][1000 genomes]
rs912052	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs912054	0.83[ASN][1000 genomes]
rs927518	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9527057	0.87[ASN][1000 genomes]
rs9568813	0.81[ASN][1000 genomes]
rs9568826	0.86[ASN][1000 genomes]
rs959222	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[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	nsv1050969	chr13:53665927-54064861	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:53791400-53792400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr13:53791400-53792400	Enhancers	Pancreatic Islets	Pancreatic Islet

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