Variant report

Variant	rs650183
Chromosome Location	chr6:4078734-4078735
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	E2F6	chr6:4078558-4079475	H1-hESC	embryonic stem cell:	n/a	n/a
2	MAX	chr6:4078644-4079326	H1-hESC	embryonic stem cell:	n/a	n/a
3	E2F6	chr6:4078511-4079484	H1-hESC	embryonic stem cell:	n/a	n/a
4	MAX	chr6:4078667-4079409	H1-hESC	embryonic stem cell:	n/a	n/a
5	CEBPB	chr6:4078638-4078736	HepG2	liver:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf201-4	chr6:4076360-4079955	NONHSAT107293

Variant related genes	Relation type
C6orf201	TF binding region

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs101418	0.93[CEU][hapmap];0.81[CHB][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11755877	0.81[CHB][hapmap]
rs1204951	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2473597	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2745453	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2745455	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2783063	0.93[CEU][hapmap];0.81[CHB][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs589494	0.81[AMR][1000 genomes]
rs590675	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs592953	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs593291	0.81[CHB][hapmap]
rs594662	0.81[CHB][hapmap]
rs595413	0.81[CHB][hapmap]
rs608195	0.81[CHB][hapmap]
rs609946	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs612477	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs619483	0.93[CEU][hapmap];0.82[CHB][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs620901	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs634114	0.81[CHB][hapmap]
rs639905	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs651246	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs653431	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs654621	1.00[CEU][hapmap];0.85[CHB][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs654982	0.84[CEU][hapmap];0.90[CHB][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs659025	0.81[CHB][hapmap]
rs6597028	0.93[CEU][hapmap]
rs662834	0.93[CEU][hapmap];0.81[CHB][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs664839	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs665894	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs666254	1.00[CEU][hapmap];0.82[CHB][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs670932	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs671364	1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs682063	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs688176	0.93[CEU][hapmap];0.81[CHB][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs707991	0.81[CHB][hapmap]
rs942475	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532020	chr6:3417520-4140257	Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv1022968	chr6:3862744-4272502	Enhancers Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv538106	chr6:3862744-4272502	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	nsv462615	chr6:4052383-4096678	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv600860	chr6:4052383-4096678	Strong transcription Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1030104	chr6:4062894-4240269	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
7	esv3444323	chr6:4078453-4080526	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4063400-4078800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr6:4066800-4079600	Weak transcription	NHLF	lung
3	chr6:4067000-4082400	Weak transcription	Brain Germinal Matrix	brain
4	chr6:4074400-4083000	Weak transcription	Pancreas	Pancrea
5	chr6:4078200-4084600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:4078600-4078800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:4078600-4079000	Bivalent Enhancer	Fetal Intestine Small	intestine
8	chr6:4078600-4079200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland

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