Variant report

Variant	rs574852
Chromosome Location	chr9:1724623-1724624
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:1721060..1723569-chr9:1724371..1726152,2	MCF-7	breast:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10962869	0.99[ASN][1000 genomes]
rs10962870	0.99[ASN][1000 genomes]
rs1382181	0.99[ASN][1000 genomes]
rs1382182	0.99[ASN][1000 genomes]
rs1382183	0.99[ASN][1000 genomes]
rs2447674	0.99[ASN][1000 genomes]
rs2447675	0.99[ASN][1000 genomes]
rs2616830	0.92[ASN][1000 genomes]
rs2616832	1.00[ASN][1000 genomes]
rs2616833	0.99[ASN][1000 genomes]
rs2616834	0.92[ASN][1000 genomes]
rs2616835	0.99[ASN][1000 genomes]
rs2616836	0.99[ASN][1000 genomes]
rs2616837	0.99[ASN][1000 genomes]
rs2616838	0.99[ASN][1000 genomes]
rs2616839	0.99[ASN][1000 genomes]
rs2616840	0.99[ASN][1000 genomes]
rs2616841	0.99[ASN][1000 genomes]
rs2616843	0.99[ASN][1000 genomes]
rs2783989	1.00[ASN][1000 genomes]
rs2783990	1.00[ASN][1000 genomes]
rs2783991	0.92[ASN][1000 genomes]
rs2783992	1.00[ASN][1000 genomes]
rs2785731	0.99[ASN][1000 genomes]
rs2785732	0.99[ASN][1000 genomes]
rs2785738	0.92[ASN][1000 genomes]
rs474015	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs474801	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs491303	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4989565	0.99[ASN][1000 genomes]
rs511600	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs519744	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs519864	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs521593	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs526771	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs568898	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs576652	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs576684	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6475118	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6475120	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7031842	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs747046	0.99[ASN][1000 genomes]
rs747047	0.99[ASN][1000 genomes]
rs747049	0.99[ASN][1000 genomes]
rs771057	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs771059	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs771061	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs945659	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752273	chr9:1062218-1824888	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1026043	chr9:1079462-1732502	Active TSS Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv539909	chr9:1079462-1732502	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1016148	chr9:1457605-2361750	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv539916	chr9:1457605-2361750	Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv892035	chr9:1556054-1823605	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv1016764	chr9:1564704-1736070	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv1021712	chr9:1647840-2216839	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
9	nsv539921	chr9:1647840-2216839	Bivalent Enhancer Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
10	nsv892040	chr9:1672167-1759486	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	nsv892041	chr9:1690810-1759486	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv613076	chr9:1699307-1747566	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv1018906	chr9:1702711-1743631	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
14	nsv539922	chr9:1702711-1743631	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
15	nsv892042	chr9:1721385-1762597	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv1024481	chr9:1722319-1758705	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv1025829	chr9:1722319-1759811	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv1015149	chr9:1722601-1759811	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
19	nsv1030725	chr9:1723364-1760672	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
20	esv2764130	chr9:1723376-1778025	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:1718000-1736800	Weak transcription	Adipose Nuclei	Adipose
2	chr9:1722400-1727200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr9:1722600-1727400	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr9:1723600-1724800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr9:1724400-1725800	Weak transcription	HUES48 Cell Line	embryonic stem cell

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