Variant report

Variant	rs6040559
Chromosome Location	chr20:11328600-11328601
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs6033122	0.87[AFR][1000 genomes]
rs6040536	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6040548	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6040564	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6040570	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6040574	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6108924	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6108930	0.83[AFR][1000 genomes]
rs7273061	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs761476	0.86[AFR][1000 genomes]
rs988375	0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1065969	chr20:10850562-11464172	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv544181	chr20:10850562-11464172	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv585415	chr20:11134907-11383327	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	4 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	chr20:11323600-11331000	Weak transcription	Psoas Muscle	Psoas
2	chr20:11326000-11329600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr20:11328600-11328800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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