Variant report

Variant	rs9458020
Chromosome Location	chr6:161156296-161156297
allele	C/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	NFIC	chr6:161156155-161157123	GM12878	blood:	n/a	n/a
2	NFATC1	chr6:161156293-161157051	GM12878	blood:	n/a	n/a
3	ATF2	chr6:161156066-161157128	GM12878	blood:	n/a	n/a
4	BCLAF1	chr6:161156207-161157052	GM12878	blood:	n/a	n/a
5	FOXM1	chr6:161156123-161157148	GM12878	blood:	n/a	n/a
6	RUNX3	chr6:161156242-161157009	GM12878	blood:	n/a	n/a
7	BATF	chr6:161156225-161157003	GM12878	blood:	n/a	n/a
8	MTA3	chr6:161155995-161157089	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
PLG	TF binding region

Extended variants
information (count: 50 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1321197	0.92[EUR][1000 genomes]
rs13231	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1853016	0.91[EUR][1000 genomes]
rs1853017	0.91[EUR][1000 genomes]
rs1853018	0.92[EUR][1000 genomes]
rs1897108	0.92[EUR][1000 genomes]
rs28402939	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35513104	0.90[EUR][1000 genomes]
rs4252066	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4252072	0.94[EUR][1000 genomes]
rs4252076	0.94[EUR][1000 genomes]
rs4252078	0.91[EUR][1000 genomes]
rs4252082	0.90[EUR][1000 genomes]
rs4252086	0.91[EUR][1000 genomes]
rs4252087	0.91[EUR][1000 genomes]
rs4252090	0.95[EUR][1000 genomes]
rs4252093	0.95[EUR][1000 genomes]
rs4252096	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4252107	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4252109	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4252114	0.92[EUR][1000 genomes]
rs4252117	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4252120	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4252125	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4252126	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4252130	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4252134	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4252135	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4252151	0.95[EUR][1000 genomes]
rs4252165	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4252181	0.84[EUR][1000 genomes]
rs56093624	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56262039	0.82[EUR][1000 genomes]
rs59614420	0.94[EUR][1000 genomes]
rs60198722	0.81[EUR][1000 genomes]
rs62439804	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62439805	0.89[EUR][1000 genomes]
rs9456578	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9456580	0.82[EUR][1000 genomes]
rs9458012	0.84[EUR][1000 genomes]
rs9458016	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9458017	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458019	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458022	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	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
4	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
5	nsv522773	chr6:161152449-161170835	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv965783	chr6:161155868-161156865	Flanking Active TSS Strong transcription Enhancers	TF binding region Chromatin interactive region lncRNA	1 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	chr6:161140800-161175200	Strong transcription	Liver	Liver
2	chr6:161156200-161156400	Enhancers	GM12878-XiMat	blood

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