Variant report

Variant	rs1352890
Chromosome Location	chr3:49652156-49652157
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1060962	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11130212	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1131095	0.86[ASN][1000 genomes]
rs11709525	0.92[ASN][1000 genomes]
rs11710037	0.92[ASN][1000 genomes]
rs11718165	0.81[ASN][1000 genomes]
rs11917431	0.97[ASN][1000 genomes]
rs11919311	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11921590	0.97[ASN][1000 genomes]
rs12490267	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12497288	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13064576	0.81[ASN][1000 genomes]
rs13085791	0.86[ASN][1000 genomes]
rs13316695	0.92[ASN][1000 genomes]
rs1873625	0.97[ASN][1000 genomes]
rs1873626	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2005557	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2131104	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2131109	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2172252	0.92[ASN][1000 genomes]
rs2329020	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2960548	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3197999	0.86[ASN][1000 genomes]
rs34762726	0.92[ASN][1000 genomes]
rs35007338	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35404120	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4283605	0.92[ASN][1000 genomes]
rs4855835	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4855847	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4855852	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4855881	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4855883	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4855884	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6765869	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6767878	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6770670	0.92[ASN][1000 genomes]
rs6803222	0.97[ASN][1000 genomes]
rs7614725	0.97[ASN][1000 genomes]
rs9812791	0.92[ASN][1000 genomes]
rs9822268	0.86[ASN][1000 genomes]
rs9823546	0.81[ASN][1000 genomes]
rs9824092	0.92[ASN][1000 genomes]
rs9827708	0.97[ASN][1000 genomes]
rs9833611	0.97[ASN][1000 genomes]
rs9836291	0.81[ASN][1000 genomes]
rs9837341	0.97[ASN][1000 genomes]
rs9837520	0.86[ASN][1000 genomes]
rs9858542	0.81[ASN][1000 genomes]
rs9862080	0.92[ASN][1000 genomes]
rs9882740	0.92[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	nsv508217	chr3:49615446-49769896	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv1011428	chr3:49649989-49706068	Enhancers Genic enhancers Strong transcription Weak transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Active TSS 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	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:49637800-49653600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:49641200-49653600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:49645800-49653600	Weak transcription	Fetal Lung	lung
4	chr3:49647400-49653400	Weak transcription	Fetal Brain Female	brain
5	chr3:49647800-49653000	Weak transcription	Fetal Heart	heart
6	chr3:49648400-49662000	Weak transcription	Brain Germinal Matrix	brain
7	chr3:49648600-49653800	Weak transcription	NHDF-Ad	bronchial
8	chr3:49648600-49654000	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr3:49648800-49653600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr3:49649200-49654000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr3:49649400-49652400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr3:49649400-49652400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:49649400-49653600	Weak transcription	Fetal Muscle Trunk	muscle
14	chr3:49649600-49653200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr3:49652000-49652200	Enhancers	Brain Angular Gyrus	brain

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