Variant report

Variant	rs12659412
Chromosome Location	chr5:57552715-57552716
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	chr5:57546757..57549531-chr5:57552284..57556177,4	MCF-7	breast:
2	chr5:57551727..57557881-chr5:57751726..57757187,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145632	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10045556	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10076155	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12187672	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12188902	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12658947	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1477347	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs151865	0.88[ASN][1000 genomes]
rs151870	0.88[ASN][1000 genomes]
rs151872	0.94[ASN][1000 genomes]
rs151873	0.94[ASN][1000 genomes]
rs151874	0.94[ASN][1000 genomes]
rs151875	0.94[ASN][1000 genomes]
rs151876	0.94[ASN][1000 genomes]
rs151877	0.94[ASN][1000 genomes]
rs151878	0.94[ASN][1000 genomes]
rs17695268	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17696032	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2052548	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2409008	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2964199	0.82[AMR][1000 genomes]
rs56942787	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs5868101	0.88[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs68192123	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6858896	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6892109	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72755727	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72755734	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72755740	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72755746	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs72755747	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57534800-57555200	Weak transcription	Left Ventricle	heart
2	chr5:57543000-57555600	Weak transcription	Right Atrium	heart
3	chr5:57547200-57554600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr5:57549200-57554600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr5:57552200-57554400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr5:57552200-57554400	Weak transcription	HMEC	breast
7	chr5:57552600-57553800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr5:57552600-57557400	Weak transcription	Aorta	Aorta

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