Variant report

Variant	rs554187
Chromosome Location	chr6:85980159-85980160
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10944093	0.87[ASN][1000 genomes]
rs10944094	1.00[EUR][1000 genomes]
rs12199725	0.82[ASN][1000 genomes]
rs12206706	0.87[ASN][1000 genomes]
rs12211596	0.87[ASN][1000 genomes]
rs1321733	0.99[EUR][1000 genomes]
rs1321745	0.84[EUR][1000 genomes]
rs1321747	0.84[EUR][1000 genomes]
rs1321750	0.85[EUR][1000 genomes]
rs1321751	0.85[EUR][1000 genomes]
rs1321752	0.85[EUR][1000 genomes]
rs1407154	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1407155	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1407168	0.83[EUR][1000 genomes]
rs1535313	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1547702	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1570108	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1590235	0.85[EUR][1000 genomes]
rs1590236	0.85[EUR][1000 genomes]
rs1590237	0.85[EUR][1000 genomes]
rs1853125	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1853126	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1853129	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1853130	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1853131	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1885016	1.00[ASN][1000 genomes]
rs1958940	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1981018	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2183944	0.98[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2210479	1.00[EUR][1000 genomes]
rs4053812	0.85[EUR][1000 genomes]
rs4363008	0.87[ASN][1000 genomes]
rs4400187	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4484492	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4707141	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4707142	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4707143	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs504604	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs525779	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs537411	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs550481	1.00[EUR][1000 genomes]
rs552249	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs559487	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs562380	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6454456	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs648993	0.82[EUR][1000 genomes]
rs6922736	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6937238	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6941709	1.00[ASN][1000 genomes]
rs700499	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs700500	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs700502	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs700506	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs700509	0.82[EUR][1000 genomes]
rs721753	1.00[ASN][1000 genomes]
rs72918312	1.00[ASN][1000 genomes]
rs7753409	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7762165	0.98[EUR][1000 genomes]
rs7771273	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7772310	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9342025	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9344467	0.85[EUR][1000 genomes]
rs9344468	0.85[EUR][1000 genomes]
rs9351040	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9353253	0.85[EUR][1000 genomes]
rs9353292	0.99[EUR][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	nsv1017418	chr6:85344786-86259540	Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Enhancers Bivalent/Poised TSS Strong transcription Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv538347	chr6:85344786-86259540	Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv1022445	chr6:85972678-86392968	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
4	nsv538349	chr6:85972678-86392968	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	136 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	chr6:85978800-85980200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr6:85979800-85987600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr6:85980000-85980200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

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