Variant report

Variant	rs12671046
Chromosome Location	chr7:39081866-39081867
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1000869	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10464366	0.88[CHB][hapmap];0.90[CHD][hapmap];0.81[MEX][hapmap]
rs10951590	0.83[ASN][1000 genomes]
rs10951593	0.88[CHB][hapmap];0.89[CHD][hapmap];0.81[MEX][hapmap]
rs11765705	0.88[CHB][hapmap];0.90[CHD][hapmap];0.85[MEX][hapmap]
rs11972294	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11973171	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12538487	0.87[ASN][1000 genomes]
rs12667577	0.84[ASN][1000 genomes]
rs12667652	0.90[CEU][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.87[ASN][1000 genomes]
rs12669446	0.83[CEU][hapmap];0.82[GIH][hapmap]
rs12670003	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12674371	0.86[ASN][1000 genomes]
rs12701691	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13242896	0.87[ASN][1000 genomes]
rs1525798	0.82[CHB][hapmap]
rs1527952	0.82[CHB][hapmap]
rs17171519	0.87[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.82[ASN][1000 genomes]
rs17171537	0.89[ASW][hapmap]
rs4355688	0.82[ASW][hapmap]
rs6462886	0.88[CEU][hapmap];0.88[CHB][hapmap];0.83[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[ASN][1000 genomes]
rs6462887	0.85[ASN][1000 genomes]
rs6944670	0.83[CEU][hapmap];0.88[CHB][hapmap];0.83[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.80[ASN][1000 genomes]
rs6945380	0.82[CHB][hapmap]
rs6952464	0.87[CEU][hapmap];0.88[CHB][hapmap];0.83[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.86[ASN][1000 genomes]
rs6952466	0.82[ASW][hapmap]
rs6974522	0.87[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.87[ASN][1000 genomes]
rs6979210	0.88[CHB][hapmap]
rs7801660	0.88[CEU][hapmap];0.88[CHB][hapmap];0.83[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.92[YRI][hapmap];0.87[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	nsv1024142	chr7:38978728-39300444	Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv887967	chr7:39009307-39090698	Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39072400-39083200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr7:39078600-39082400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr7:39081800-39082400	Enhancers	iPS-15b Cell Line	embryonic stem cell

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