Variant report

Variant	rs13178509
Chromosome Location	chr5:59618379-59618380
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10461373	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10461452	0.89[CEU][hapmap];0.90[GIH][hapmap];0.86[EUR][1000 genomes]
rs10461453	0.86[EUR][1000 genomes]
rs10514890	1.00[CEU][hapmap];0.93[CHB][hapmap];0.86[CHD][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];0.88[MEX][hapmap];0.88[TSI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10514891	1.00[CEU][hapmap];0.93[CHB][hapmap];0.83[CHD][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];0.88[TSI][hapmap];0.89[EUR][1000 genomes]
rs10514892	1.00[CEU][hapmap];0.93[CHB][hapmap];0.82[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10514895	1.00[CEU][hapmap];0.92[GIH][hapmap];0.88[TSI][hapmap];0.88[EUR][1000 genomes]
rs12653662	1.00[CEU][hapmap];0.88[CHB][hapmap];0.91[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12656804	0.82[CEU][hapmap];0.84[CHB][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12656836	1.00[CEU][hapmap];0.93[CHB][hapmap];0.82[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12656871	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs12659623	1.00[CEU][hapmap];0.93[CHB][hapmap];0.81[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13158470	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13158573	0.85[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs13159724	0.88[CEU][hapmap];0.88[JPT][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13185075	1.00[CEU][hapmap];0.93[CHB][hapmap];0.82[JPT][hapmap];0.89[EUR][1000 genomes]
rs16877859	1.00[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap]
rs16877926	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs16877953	0.89[CEU][hapmap];0.82[GIH][hapmap];0.82[TSI][hapmap]
rs16877954	0.89[CEU][hapmap]
rs16877976	0.89[CEU][hapmap]
rs2961774	0.86[CEU][hapmap]
rs34114616	0.89[EUR][1000 genomes]
rs34757284	0.89[EUR][1000 genomes]
rs34762984	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35022567	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35250060	0.89[EUR][1000 genomes]
rs35813355	0.89[EUR][1000 genomes]
rs35955333	0.88[EUR][1000 genomes]
rs4274945	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4276368	0.85[EUR][1000 genomes]
rs4515249	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs4699954	0.81[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4700373	1.00[CEU][hapmap];0.80[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6880937	0.89[EUR][1000 genomes]
rs6893928	0.88[YRI][hapmap]
rs71628002	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71630003	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71630005	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7711093	0.81[ASW][hapmap];0.89[LWK][hapmap];0.90[MKK][hapmap];1.00[YRI][hapmap]
rs7711108	1.00[YRI][hapmap]
rs7711621	1.00[CEU][hapmap];0.88[JPT][hapmap];0.89[EUR][1000 genomes]
rs7711707	0.89[EUR][1000 genomes]
rs7718384	1.00[CEU][hapmap];0.93[CHB][hapmap];0.82[JPT][hapmap];0.89[EUR][1000 genomes]
rs7731452	0.89[EUR][1000 genomes]
rs7735398	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];0.88[MEX][hapmap];0.88[TSI][hapmap]

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	nsv1025856	chr5:59188419-59928852	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv830316	chr5:59480269-59689829	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:59616600-59618800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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