Variant report

Variant	rs6540575
Chromosome Location	chr1:210150020-210150021
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10779516	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10779517	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10779518	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1099863	0.84[EUR][1000 genomes]
rs11119376	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs126277	0.80[EUR][1000 genomes]
rs1334567	0.80[EUR][1000 genomes]
rs1334568	0.81[EUR][1000 genomes]
rs1387933	0.84[EUR][1000 genomes]
rs170557	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2205987	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2205988	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs227169	0.84[EUR][1000 genomes]
rs227172	0.84[EUR][1000 genomes]
rs227174	0.85[EUR][1000 genomes]
rs227179	0.85[EUR][1000 genomes]
rs227181	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs227182	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs227191	0.85[EUR][1000 genomes]
rs227193	0.85[EUR][1000 genomes]
rs227196	0.84[EUR][1000 genomes]
rs227197	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs227201	0.84[EUR][1000 genomes]
rs227203	0.84[EUR][1000 genomes]
rs227204	0.84[EUR][1000 genomes]
rs227205	0.84[EUR][1000 genomes]
rs227209	0.84[EUR][1000 genomes]
rs227211	0.85[EUR][1000 genomes]
rs227217	0.84[EUR][1000 genomes]
rs227218	0.84[EUR][1000 genomes]
rs227219	0.85[EUR][1000 genomes]
rs227224	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs227226	0.83[EUR][1000 genomes]
rs227228	0.85[EUR][1000 genomes]
rs227230	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2473073	0.81[EUR][1000 genomes]
rs2636376	0.85[EUR][1000 genomes]
rs2743889	0.85[EUR][1000 genomes]
rs6540573	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6540580	0.81[EUR][1000 genomes]
rs6656855	0.81[EUR][1000 genomes]
rs6682546	0.84[EUR][1000 genomes]
rs6702257	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs701947	0.84[EUR][1000 genomes]
rs701948	0.84[EUR][1000 genomes]
rs7514257	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7519750	0.81[EUR][1000 genomes]
rs7525980	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7530426	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7544033	0.80[EUR][1000 genomes]
rs7547709	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7548989	0.80[EUR][1000 genomes]
rs846551	0.85[EUR][1000 genomes]
rs846552	0.85[EUR][1000 genomes]
rs846554	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs846555	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9430026	0.81[EUR][1000 genomes]
rs9659395	0.81[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	nsv999901	chr1:209600631-210205379	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv1014034	chr1:209759648-210501731	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv873140	chr1:210068117-210335644	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	esv1821002	chr1:210108473-210291476	ZNF genes & repeats Enhancers Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210126800-210152000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr1:210136600-210152600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr1:210146400-210152800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr1:210146600-210160400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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