Variant report

Variant	rs789389
Chromosome Location	chr5:59707026-59707027
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10056638	0.81[AFR][1000 genomes]
rs1115372	0.81[CHB][hapmap];0.94[JPT][hapmap]
rs11745274	0.81[AFR][1000 genomes]
rs11745327	0.81[AFR][1000 genomes]
rs12189147	0.86[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13159422	0.94[ASW][hapmap];0.86[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.89[JPT][hapmap];0.93[LWK][hapmap];0.97[MKK][hapmap];0.97[TSI][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1363862	0.90[JPT][hapmap]
rs1423247	0.89[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17839379	0.86[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.85[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2042315	0.85[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28460011	0.81[AFR][1000 genomes]
rs2910629	0.86[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.84[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs364917	0.91[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs371424	0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs37684	0.82[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs37685	0.94[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs37691	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.96[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs37693	0.86[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs37694	0.81[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs37695	0.96[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs37697	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs37698	0.89[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs37700	0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs37702	0.81[CHB][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs37708	0.87[GIH][hapmap]
rs401207	0.86[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs404202	0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs411255	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs424626	0.88[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs42968	0.81[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs446883	0.91[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs6860887	0.90[JPT][hapmap]
rs6864442	0.83[ASW][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes]
rs6887545	0.92[YRI][hapmap];0.81[AFR][1000 genomes]
rs6887925	0.84[ASW][hapmap];0.82[LWK][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes]
rs702553	0.89[ASN][1000 genomes]
rs789395	0.89[CHB][hapmap];0.94[JPT][hapmap];0.81[YRI][hapmap];0.85[ASN][1000 genomes]
rs789396	0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs789615	0.91[CHB][hapmap];0.82[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs918590	0.95[CHB][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.85[TSI][hapmap];0.87[ASN][1000 genomes]
rs918591	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs918592	0.95[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.83[TSI][hapmap];0.87[ASN][1000 genomes]
rs9291690	0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	nsv598288	chr5:59627555-60003460	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	nsv1015381	chr5:59678425-59772485	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv1034331	chr5:59678773-59773467	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 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	chr5:59695000-59712600	Weak transcription	Primary B cells from cord blood	blood
2	chr5:59696000-59713200	Weak transcription	Aorta	Aorta
3	chr5:59705800-59707200	Enhancers	HepG2	liver

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