Variant report

Variant	rs10500562
Chromosome Location	chr16:71627731-71627732
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:71599003..71601212-chr16:71626503..71628905,3	MCF-7	breast:
2	chr16:71619005..71622158-chr16:71624497..71628582,3	MCF-7	breast:
3	chr16:71610910..71613434-chr16:71625307..71628011,2	MCF-7	breast:
4	chr16:71620059..71623986-chr16:71624555..71628126,4	K562	blood:
5	chr16:71617743..71620944-chr16:71623510..71629650,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260886	Chromatin interaction
ENSG00000198650	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs12149264	0.90[CEU][hapmap];1.00[YRI][hapmap]
rs12444890	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12446333	0.91[CEU][hapmap]
rs12447033	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12447672	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs12919417	0.81[CEU][hapmap];0.81[AMR][1000 genomes]
rs12922775	1.00[CEU][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12923781	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12924650	0.91[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs12927006	0.91[CEU][hapmap]
rs12927456	0.91[CEU][hapmap]
rs12927768	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12931191	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12935422	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs17282500	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17345863	0.89[CEU][hapmap]
rs17347255	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17354693	0.91[CEU][hapmap];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17355804	0.91[CEU][hapmap];1.00[YRI][hapmap]
rs17356206	0.86[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs17356316	0.91[CEU][hapmap]
rs34181942	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34381861	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34753286	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35538253	0.97[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs71403859	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7203606	1.00[CEU][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs8051974	0.91[CEU][hapmap]
rs8053720	0.81[CEU][hapmap]
rs8063455	1.00[CEU][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][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	esv3347477	chr16:71555148-71985177	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Bivalent Enhancer 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	56 gene(s)	inside rSNPs	diseases
2	nsv1063338	chr16:71612346-71752968	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10500562	RP11-432I5.1	cis	Thyroid	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:71627200-71628600	Flanking Active TSS	HepG2	liver
2	chr16:71627400-71630400	Enhancers	Liver	Liver

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