Variant report

Variant	rs13086843
Chromosome Location	chr3:119457226-119457227
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10511394	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1129708	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11926554	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13072420	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1464599	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2461829	0.82[ASN][1000 genomes]
rs2461830	0.83[ASN][1000 genomes]
rs28424110	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34333922	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34490729	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34787921	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34948068	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35017263	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35246961	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35576079	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4687882	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4688032	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4688033	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60639590	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66840889	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6770006	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9289134	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9682652	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9815093	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9817024	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9821892	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9865270	0.88[EUR][1000 genomes];0.91[ASN][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	nsv460834	chr3:119384163-119458851	Active TSS Strong transcription Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv591390	chr3:119384163-119458851	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1011178	chr3:119437192-119589116	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv536703	chr3:119437192-119589116	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119422200-119458200	Weak transcription	Aorta	Aorta
2	chr3:119423000-119463000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:119423000-119464400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:119423200-119464200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:119423200-119471600	Weak transcription	Fetal Kidney	kidney
6	chr3:119423400-119458200	Weak transcription	Brain Substantia Nigra	brain
7	chr3:119428800-119469200	Weak transcription	Stomach Smooth Muscle	stomach
8	chr3:119431200-119470400	Weak transcription	Gastric	stomach
9	chr3:119435400-119478200	Weak transcription	Colon Smooth Muscle	Colon
10	chr3:119436800-119462800	Weak transcription	Pancreas	Pancrea
11	chr3:119450400-119463000	Weak transcription	Brain Hippocampus Middle	brain
12	chr3:119450600-119474200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr3:119451000-119473400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:119451200-119465000	Weak transcription	Fetal Brain Female	brain
15	chr3:119451200-119475200	Weak transcription	Fetal Brain Male	brain
16	chr3:119453200-119462800	Weak transcription	Ovary	ovary
17	chr3:119453600-119463000	Weak transcription	Brain Angular Gyrus	brain
18	chr3:119455200-119470200	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr3:119456200-119470600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
20	chr3:119456600-119457400	Strong transcription	Brain Anterior Caudate	brain
21	chr3:119456600-119459600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr3:119456800-119457800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr3:119456800-119458400	Enhancers	Primary monocytes fromperipheralblood	blood
24	chr3:119457000-119457400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr3:119457000-119458000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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