Variant report

Variant	rs56080561
Chromosome Location	chr15:58621630-58621631
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1037040	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11637094	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11855002	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1373660	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17821220	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17821226	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1816879	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs187774	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs261269	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs261271	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs500590	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55700245	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56195705	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56249653	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9788636	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047246	chr15:58375607-58707158	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv833024	chr15:58447459-58621963	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv529717	chr15:58519923-58756814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1042201	chr15:58520746-58780710	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv569598	chr15:58552606-58852463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv904266	chr15:58580921-58689187	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	nsv518436	chr15:58620796-58623408	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58617400-58623400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr15:58618600-58622200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr15:58620400-58622000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr15:58620400-58622600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr15:58621000-58622000	Enhancers	Primary neutrophils fromperipheralblood	blood
6	chr15:58621000-58622200	Enhancers	Monocytes-CD14+_RO01746	blood
7	chr15:58621200-58624000	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr15:58621200-58624800	Enhancers	Primary T cells from cord blood	blood
9	chr15:58621400-58622000	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr15:58621400-58622400	Weak transcription	Duodenum Mucosa	Duodenum
11	chr15:58621400-58622400	Enhancers	K562	blood
12	chr15:58621400-58623400	Enhancers	NHDF-Ad	bronchial
13	chr15:58621400-58624200	Flanking Active TSS	Liver	Liver
14	chr15:58621400-58625200	Enhancers	Primary T helper cells PMA-I stimulated	--

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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