Variant report

Variant	rs10090669
Chromosome Location	chr8:54827402-54827403
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10089614	0.83[EUR][1000 genomes]
rs10098863	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11984817	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11986028	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13264421	0.87[EUR][1000 genomes]
rs13267128	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13267284	0.89[EUR][1000 genomes]
rs13278745	0.93[EUR][1000 genomes]
rs16919680	0.91[EUR][1000 genomes]
rs2128820	0.89[EUR][1000 genomes]
rs2128821	0.90[EUR][1000 genomes]
rs2375866	0.90[EUR][1000 genomes]
rs28711043	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34749392	0.92[EUR][1000 genomes]
rs35583538	0.93[EUR][1000 genomes]
rs35636630	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35977614	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs58093835	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58507961	0.93[EUR][1000 genomes]
rs6473897	0.84[EUR][1000 genomes]
rs6473898	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6984470	0.84[EUR][1000 genomes]
rs6987892	0.92[EUR][1000 genomes]
rs6990456	0.87[EUR][1000 genomes]
rs6992137	0.88[EUR][1000 genomes]
rs7011248	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7016925	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7822718	0.92[EUR][1000 genomes]
rs7824575	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7843603	0.86[EUR][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	nsv1023983	chr8:54790309-55145770	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv539623	chr8:54790309-55145770	Bivalent Enhancer Genic enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:54818600-54843600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr8:54819400-54830200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr8:54819600-54829200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr8:54819600-54831000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr8:54819800-54830600	Weak transcription	NHLF	lung
6	chr8:54820600-54827600	Weak transcription	NHEK	skin
7	chr8:54823000-54830600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr8:54825000-54833000	Weak transcription	A549	lung
9	chr8:54825600-54827800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr8:54825800-54828000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr8:54825800-54829400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr8:54825800-54829400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr8:54826000-54827800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr8:54826000-54828400	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr8:54826600-54830200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr8:54827000-54830000	Weak transcription	HMEC	breast
17	chr8:54827000-54830400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr8:54827200-54827600	Weak transcription	GM12878-XiMat	blood
19	chr8:54827200-54828800	Weak transcription	Cortex derived primary cultured neurospheres	brain

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