Variant report

Variant	rs852781
Chromosome Location	chr1:58296881-58296882
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs12034235	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1408141	0.85[EUR][1000 genomes]
rs1570595	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1570596	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1886142	0.86[EUR][1000 genomes]
rs6698015	0.92[EUR][1000 genomes]
rs852749	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs852764	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs852765	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs852766	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs852767	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs852773	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs852776	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs852777	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs852780	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs852783	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs852786	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015057	chr1:57976993-58793962	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv530017	chr1:58002290-58669736	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv431379	chr1:58224212-58802608	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv829937	chr1:58258288-58406506	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:58293000-58297200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr1:58293000-58297200	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr1:58293000-58301000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr1:58295000-58297600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr1:58296600-58298600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr1:58296800-58297400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr1:58296800-58298600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr1:58296800-58299600	Enhancers	NHEK	skin
9	chr1:58296800-58299800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr1:58296800-58301600	Enhancers	HMEC	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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