Variant report

Variant	rs11727862
Chromosome Location	chr4:153075234-153075235
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10030518	0.91[ASN][1000 genomes]
rs11099843	1.00[ASN][1000 genomes]
rs11721407	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11721782	0.91[ASN][1000 genomes]
rs11726930	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11727188	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11732677	0.95[CEU][hapmap]
rs11733393	0.89[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11733971	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11736628	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11737156	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13112841	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13131134	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17276520	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17361258	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17361391	0.84[CEU][hapmap];0.85[AMR][1000 genomes]
rs2406622	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2406625	0.91[ASN][1000 genomes]
rs28531716	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2897478	0.96[ASN][1000 genomes]
rs34069606	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34276148	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34771630	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs34909306	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35296212	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4557238	0.91[ASN][1000 genomes]
rs56780740	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61226564	0.91[ASN][1000 genomes]
rs6535839	0.91[ASN][1000 genomes]
rs6535840	0.91[ASN][1000 genomes]
rs66476112	0.83[AMR][1000 genomes]
rs6823091	0.91[ASN][1000 genomes]
rs6833264	0.96[ASN][1000 genomes]
rs6837375	0.91[ASN][1000 genomes]
rs6843947	0.91[ASN][1000 genomes]
rs6848307	0.90[ASN][1000 genomes]
rs6858062	0.95[CEU][hapmap]
rs72736219	0.85[AMR][1000 genomes]
rs7662581	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7671283	0.96[ASN][1000 genomes]
rs7674458	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7675252	0.96[ASN][1000 genomes]
rs7675481	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7682931	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880341	chr4:152861685-153110256	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv931416	chr4:152877808-153440553	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv880774	chr4:153035743-153121818	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11727862	RP11-18H21.1	cis	Whole Blood	GTEx

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:153068600-153077400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr4:153073000-153076400	Enhancers	Fetal Brain Male	brain
3	chr4:153074800-153080400	Enhancers	Thymus	Thymus
4	chr4:153075000-153075600	Enhancers	Fetal Stomach	stomach
5	chr4:153075000-153079400	Weak transcription	Brain Germinal Matrix	brain
6	chr4:153075000-153079800	Enhancers	Dnd41	blood
7	chr4:153075000-153080400	Enhancers	Fetal Thymus	thymus

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