Variant report

Variant	rs1562242
Chromosome Location	chr5:57566494-57566495
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:57560759..57562521-chr5:57565153..57567318,2	MCF-7	breast:
2	chr5:57564755..57567505-chr5:57575304..57577726,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs151807	0.88[JPT][hapmap]
rs184999	0.85[JPT][hapmap]
rs1862540	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1972647	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2409006	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs245491	0.86[JPT][hapmap]
rs2910578	0.92[CEU][hapmap];0.93[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2910579	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2910581	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2910586	0.82[EUR][1000 genomes]
rs2910606	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2962007	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2962025	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2964190	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2964192	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.86[YRI][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2964194	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2964196	0.88[AMR][1000 genomes]
rs2964197	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2964201	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs37489	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs37491	0.88[CEU][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs37511	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs37513	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs37514	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs37515	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs37517	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs37518	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs37525	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs37529	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs37530	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs37535	0.86[JPT][hapmap]
rs37537	0.86[JPT][hapmap]
rs40531	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs41385	0.94[CHB][hapmap];0.95[JPT][hapmap];0.80[YRI][hapmap];0.88[ASN][1000 genomes]
rs42964	0.86[JPT][hapmap]
rs466047	0.81[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs7715909	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs972060	0.93[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs972061	0.91[AMR][1000 genomes];0.86[EUR][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	esv3489100	chr5:57545689-57669673	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	esv3489101	chr5:57545689-57669673	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv2762520	chr5:57557770-57578659	Enhancers Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57562600-57568000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr5:57563200-57569000	Weak transcription	A549	lung
3	chr5:57564400-57566800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr5:57564600-57566600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr5:57564600-57567000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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