Variant report

Variant	rs6872198
Chromosome Location	chr5:52522750-52522751
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10513015	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1374055	0.91[ASN][1000 genomes]
rs1374059	0.88[ASN][1000 genomes]
rs1500363	0.83[ASN][1000 genomes]
rs1500364	0.83[ASN][1000 genomes]
rs1500365	0.83[ASN][1000 genomes]
rs1500366	0.83[ASN][1000 genomes]
rs1500367	0.83[ASN][1000 genomes]
rs1500368	0.83[ASN][1000 genomes]
rs1500369	0.83[ASN][1000 genomes]
rs153681	0.83[ASN][1000 genomes]
rs153684	0.83[ASN][1000 genomes]
rs16881049	0.94[ASN][1000 genomes]
rs16881068	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1814735	0.83[ASN][1000 genomes]
rs1846702	0.83[ASN][1000 genomes]
rs1846703	0.83[ASN][1000 genomes]
rs254474	0.83[ASN][1000 genomes]
rs254520	0.83[ASN][1000 genomes]
rs254521	0.83[ASN][1000 genomes]
rs254625	0.83[ASN][1000 genomes]
rs254632	0.83[ASN][1000 genomes]
rs254633	0.83[ASN][1000 genomes]
rs2547522	0.83[ASN][1000 genomes]
rs2561392	0.83[ASN][1000 genomes]
rs2591905	0.83[ASN][1000 genomes]
rs2591906	0.83[ASN][1000 genomes]
rs2591907	0.83[ASN][1000 genomes]
rs2650677	0.83[ASN][1000 genomes]
rs2650680	0.83[ASN][1000 genomes]
rs2650681	0.83[ASN][1000 genomes]
rs2650682	0.83[ASN][1000 genomes]
rs2650683	0.83[ASN][1000 genomes]
rs2937663	0.83[ASN][1000 genomes]
rs6450114	0.95[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6450118	0.95[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6450119	0.95[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6879405	0.94[ASN][1000 genomes]
rs6883958	0.95[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6892025	0.83[ASN][1000 genomes]
rs6895567	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs726904	0.83[ASN][1000 genomes]
rs726905	0.83[ASN][1000 genomes]
rs73100427	0.94[ASN][1000 genomes]
rs7703368	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7714660	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7723126	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs937579	0.83[ASN][1000 genomes]
rs937580	0.81[ASN][1000 genomes]
rs9918234	0.85[AMR][1000 genomes];0.94[ASN][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	nsv949005	chr5:52188028-52808229	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	esv2752745	chr5:52422063-53343529	Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv830297	chr5:52492494-52707758	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv515913	chr5:52492677-52545841	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv522454	chr5:52492677-52571758	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv880833	chr5:52502168-52544231	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:52509600-52540000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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