Variant report

Variant	rs28514722
Chromosome Location	chr15:59858800-59858801
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10083653	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10152904	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10163153	0.84[EUR][1000 genomes]
rs11856554	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11856580	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12438840	0.88[EUR][1000 genomes]
rs12440292	0.81[EUR][1000 genomes]
rs12902622	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12908589	0.85[EUR][1000 genomes]
rs12914046	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17236671	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17269684	0.85[EUR][1000 genomes]
rs34444281	0.83[EUR][1000 genomes]
rs34642067	0.86[EUR][1000 genomes]
rs35384735	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35461856	0.92[EUR][1000 genomes]
rs35743616	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs36034625	0.85[EUR][1000 genomes]
rs4419005	0.85[EUR][1000 genomes]
rs4597252	0.88[EUR][1000 genomes]
rs4775180	0.86[ASN][1000 genomes]
rs71480534	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71480535	0.88[EUR][1000 genomes]
rs71480536	0.87[EUR][1000 genomes]
rs7179805	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8041216	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv1044442	chr15:59765724-59955587	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv542403	chr15:59765724-59955587	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv569605	chr15:59855226-59956553	Strong transcription Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv533240	chr15:59858093-59998176	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59841600-59861600	Weak transcription	Gastric	stomach
2	chr15:59851000-59859000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:59853800-59861200	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr15:59855000-59858800	Weak transcription	Hela-S3	cervix
5	chr15:59856400-59858800	Weak transcription	Osteobl	bone
6	chr15:59857600-59858800	Weak transcription	Colonic Mucosa	Colon
7	chr15:59857800-59860200	Weak transcription	Duodenum Mucosa	Duodenum
8	chr15:59858400-59859400	ZNF genes & repeats	Fetal Intestine Small	intestine
9	chr15:59858600-59862600	Enhancers	Rectal Mucosa Donor 31	rectum
10	chr15:59858800-59859400	Enhancers	Colonic Mucosa	Colon
11	chr15:59858800-59859400	Enhancers	Rectal Mucosa Donor 29	rectum
12	chr15:59858800-59860000	Enhancers	Osteobl	bone
13	chr15:59858800-59862400	Enhancers	Hela-S3	cervix

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