Variant report

Variant	rs235904
Chromosome Location	chr1:171580656-171580657
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	chr1:171580228..171582659-chr1:171584815..171586532,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs1055417	0.82[EUR][1000 genomes]
rs10913167	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12136576	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12137832	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12139715	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12142594	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12145045	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12734261	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs171005	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs183533	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs190198	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2294292	0.81[EUR][1000 genomes]
rs2294293	0.81[EUR][1000 genomes]
rs235471	0.80[ASN][1000 genomes]
rs235472	0.80[ASN][1000 genomes]
rs235488	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs235495	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs235498	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235502	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235507	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235865	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235886	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235892	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235893	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235895	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235897	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs235898	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235899	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235900	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235901	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235902	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235903	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235910	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235911	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs235912	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28661007	1.00[ASN][1000 genomes]
rs46407	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs536753	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs559739	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs591286	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs631259	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67133611	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71637418	0.80[ASN][1000 genomes]
rs71637419	0.80[ASN][1000 genomes]
rs7534464	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7534557	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7538745	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv14617	chr1:171016086-171726961	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv3512995	chr1:171329123-171994470	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	esv3512997	chr1:171329123-171994470	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	esv12447	chr1:171556291-171726822	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
5	nsv999578	chr1:171578076-171610740	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv528322	chr1:171578532-171612267	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv548191	chr1:171578532-171612267	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:171579000-171581000	Enhancers	Primary neutrophils fromperipheralblood	blood
2	chr1:171579200-171581200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr1:171579600-171580800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr1:171580000-171583800	Weak transcription	K562	blood
5	chr1:171580600-171580800	Weak transcription	GM12878-XiMat	blood
6	chr1:171580600-171580800	Enhancers	NHDF-Ad	bronchial

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