Variant report

Variant	rs12520466
Chromosome Location	chr5:57025481-57025482
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	chr5:57021892..57024271-chr5:57024416..57026789,2	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10447121	0.80[EUR][1000 genomes]
rs10940574	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12514617	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12514618	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12515493	0.80[EUR][1000 genomes]
rs12517867	0.80[EUR][1000 genomes]
rs12522697	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12523004	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1544621	0.80[EUR][1000 genomes]
rs17689645	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17689832	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2160057	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2160058	0.80[EUR][1000 genomes]
rs2192367	0.82[EUR][1000 genomes]
rs2192368	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2898027	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs58632739	0.80[EUR][1000 genomes]
rs62358372	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62358374	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62358380	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62358381	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62361169	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6450432	0.80[EUR][1000 genomes]
rs6450433	0.80[EUR][1000 genomes]
rs6450434	0.80[EUR][1000 genomes]
rs6450435	0.80[EUR][1000 genomes]
rs6870485	0.82[EUR][1000 genomes]
rs6891648	0.80[EUR][1000 genomes]
rs6894116	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72767430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72767434	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72767441	0.81[EUR][1000 genomes]
rs72767444	0.80[EUR][1000 genomes]
rs741181	0.81[EUR][1000 genomes]
rs7718447	0.80[EUR][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:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57021800-57029200	Weak transcription	Aorta	Aorta
2	chr5:57021800-57030400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links