Variant report

Variant	rs1960557
Chromosome Location	chr6:76973027-76973028
allele	A/C
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]
rs12194233	0.96[EUR][1000 genomes]
rs12207018	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12527444	0.91[EUR][1000 genomes]
rs13193039	0.95[EUR][1000 genomes]
rs13218458	0.93[EUR][1000 genomes]
rs13218818	0.93[EUR][1000 genomes]
rs1385897	0.91[EUR][1000 genomes]
rs1385898	0.92[EUR][1000 genomes]
rs1387842	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1486043	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1486048	0.96[EUR][1000 genomes]
rs1486050	0.92[EUR][1000 genomes]
rs1486051	0.92[EUR][1000 genomes]
rs1825653	0.92[EUR][1000 genomes]
rs1843572	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1994334	0.92[EUR][1000 genomes]
rs2029148	0.96[EUR][1000 genomes]
rs2029149	0.96[EUR][1000 genomes]
rs2029150	0.96[EUR][1000 genomes]
rs2101563	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2314706	0.96[EUR][1000 genomes]
rs2314707	0.96[EUR][1000 genomes]
rs2451594	0.93[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.97[TSI][hapmap];0.89[YRI][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2504634	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2504986	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2504987	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3123639	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4267921	0.91[EUR][1000 genomes]
rs4267922	0.91[EUR][1000 genomes]
rs4386775	0.96[EUR][1000 genomes]
rs4493724	0.91[EUR][1000 genomes]
rs4562099	0.95[EUR][1000 genomes]
rs4706606	0.92[EUR][1000 genomes]
rs4706607	0.92[EUR][1000 genomes]
rs4708234	0.92[EUR][1000 genomes]
rs4708235	0.92[EUR][1000 genomes]
rs4708236	0.95[CEU][hapmap];0.95[CHB][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62430437	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs923553	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9343382	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9350626	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9352276	0.92[EUR][1000 genomes]
rs9352277	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9352278	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9443242	0.91[CEU][hapmap];0.87[TSI][hapmap]
rs990578	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[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	nsv932201	chr6:76365548-77219650	Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv1028764	chr6:76870971-77145573	Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS	Chromatin interactive region	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	chr6:76971200-76973800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr6:76972200-76973200	ZNF genes & repeats	iPS-15b Cell Line	embryonic stem cell

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