Variant report

Variant	rs28587425
Chromosome Location	chr3:150191591-150191592
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12629077	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13069723	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16862648	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28517277	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28672230	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62269065	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6440677	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6763024	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs879634	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9838366	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9875882	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877645	chr3:150103135-150212698	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 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	chr3:150172600-150191600	Weak transcription	Brain Angular Gyrus	brain
2	chr3:150177000-150200600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr3:150179200-150201000	Weak transcription	Fetal Lung	lung
4	chr3:150180000-150192600	Weak transcription	Fetal Kidney	kidney
5	chr3:150187400-150196200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr3:150187800-150201400	Weak transcription	HSMMtube	muscle
7	chr3:150188200-150197600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:150188200-150218800	Weak transcription	HSMM	muscle
9	chr3:150188400-150192200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr3:150188400-150193600	Weak transcription	Osteobl	bone
11	chr3:150188400-150193800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr3:150188600-150192800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr3:150189200-150191600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr3:150190400-150193000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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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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