Variant report

Variant	rs9456578
Chromosome Location	chr6:161147368-161147369
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	NRF1	chr6:161147294-161147493	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
PLG	TF binding region

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

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1321197	0.95[EUR][1000 genomes]
rs13231	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1853016	0.94[EUR][1000 genomes]
rs1853017	0.94[EUR][1000 genomes]
rs1853018	0.94[EUR][1000 genomes]
rs1897108	0.95[EUR][1000 genomes]
rs28402939	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35513104	0.92[EUR][1000 genomes]
rs4252066	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4252072	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4252076	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4252078	0.94[EUR][1000 genomes]
rs4252082	0.92[EUR][1000 genomes]
rs4252086	0.94[EUR][1000 genomes]
rs4252087	0.94[EUR][1000 genomes]
rs4252090	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4252093	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4252096	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4252107	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4252109	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4252114	0.95[EUR][1000 genomes]
rs4252117	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4252120	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4252125	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4252126	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4252130	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4252134	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4252135	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4252147	1.00[CEU][hapmap]
rs4252151	0.92[EUR][1000 genomes]
rs4252165	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4252181	0.81[EUR][1000 genomes]
rs56093624	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs59614420	0.96[EUR][1000 genomes]
rs62439804	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62439805	0.91[EUR][1000 genomes]
rs9458012	0.86[EUR][1000 genomes]
rs9458016	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9458017	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9458019	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9458020	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9458022	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758089	chr6:160372244-161234665	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	esv2759484	chr6:160372244-161234665	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv605005	chr6:161069941-161152449	Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1019113	chr6:161127584-161197558	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	esv3352911	chr6:161140543-161324358	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9456578	PLG	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161140800-161175200	Strong transcription	Liver	Liver

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