Variant report

Variant	rs4508990
Chromosome Location	chr5:57057960-57057961
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:57057021..57059491-chr5:57061557..57064948,3	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10054371	0.87[EUR][1000 genomes]
rs10077005	0.86[AFR][1000 genomes]
rs1016457	0.87[EUR][1000 genomes]
rs10213766	0.87[EUR][1000 genomes]
rs1023572	0.87[EUR][1000 genomes]
rs1023573	0.87[EUR][1000 genomes]
rs10487613	0.86[AFR][1000 genomes]
rs10487614	0.86[AFR][1000 genomes]
rs12520986	0.86[AFR][1000 genomes]
rs13185580	0.86[AFR][1000 genomes]
rs170740	0.86[AFR][1000 genomes]
rs183477	0.86[AFR][1000 genomes]
rs1861052	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1861055	0.86[EUR][1000 genomes]
rs1861056	0.87[EUR][1000 genomes]
rs2017201	0.86[AFR][1000 genomes]
rs2041678	0.86[AFR][1000 genomes]
rs2191445	0.86[AFR][1000 genomes]
rs2191446	0.86[AFR][1000 genomes]
rs2191448	0.86[AFR][1000 genomes]
rs2215420	0.86[AFR][1000 genomes]
rs229960	0.86[AFR][1000 genomes]
rs229961	0.86[AFR][1000 genomes]
rs229963	0.86[AFR][1000 genomes]
rs229965	0.86[AFR][1000 genomes]
rs230853	0.86[AFR][1000 genomes]
rs230860	0.86[AFR][1000 genomes]
rs230861	0.86[AFR][1000 genomes]
rs2408849	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2408850	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2898028	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs4235474	0.86[AFR][1000 genomes]
rs4588536	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4699910	0.86[AFR][1000 genomes]
rs4700214	0.86[AFR][1000 genomes]
rs6450431	0.86[AFR][1000 genomes]
rs6866242	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6868969	0.87[EUR][1000 genomes]
rs6875712	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6879952	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6886241	0.86[AFR][1000 genomes]
rs6890613	0.87[EUR][1000 genomes]
rs7708665	0.80[EUR][1000 genomes]
rs7726732	0.86[AFR][1000 genomes]
rs7732108	0.86[AFR][1000 genomes]
rs7735778	0.87[EUR][1000 genomes]
rs917655	0.86[AFR][1000 genomes]
rs986101	0.86[AFR][1000 genomes]
rs991727	0.86[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525330	chr5:56931673-57320343	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	esv2756302	chr5:56978143-57180143	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830310	chr5:56989346-57176006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv2763454	chr5:57006531-57161140	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57056400-57065200	Weak transcription	Aorta	Aorta
2	chr5:57057600-57058000	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr5:57057600-57058200	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived

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