Variant report

Variant	rs9859198
Chromosome Location	chr3:105096411-105096412
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs13315085	1.00[JPT][hapmap]
rs13317379	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17181561	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17181701	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28452673	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs751554	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9288807	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9822014	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9825097	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9826369	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9831077	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9832489	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9840990	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9851399	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9854028	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9866561	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9876906	0.88[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9877002	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9877483	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9882494	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[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	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105089000-105107000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr3:105089200-105101800	Weak transcription	NHDF-Ad	bronchial
3	chr3:105090600-105101800	Weak transcription	Osteobl	bone
4	chr3:105090800-105104800	Weak transcription	NHLF	lung
5	chr3:105091000-105097600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr3:105091400-105105000	Weak transcription	Brain Cingulate Gyrus	brain
7	chr3:105091600-105097400	Weak transcription	Brain Anterior Caudate	brain
8	chr3:105091600-105104000	Weak transcription	NH-A	brain
9	chr3:105091800-105104600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr3:105091800-105104800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr3:105092000-105097600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr3:105092000-105106000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr3:105092800-105100200	Weak transcription	NHEK	skin
14	chr3:105092800-105103600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr3:105092800-105104200	Weak transcription	HepG2	liver
16	chr3:105092800-105105200	Weak transcription	HMEC	breast
17	chr3:105093200-105103800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr3:105094200-105105600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr3:105094400-105109000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr3:105095000-105099000	Enhancers	Pancreatic Islets	Pancreatic Islet
21	chr3:105095400-105097800	Weak transcription	Brain Substantia Nigra	brain
22	chr3:105095600-105097200	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr3:105095600-105097400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr3:105095800-105104400	Weak transcription	Brain Hippocampus Middle	brain
25	chr3:105096400-105097000	Enhancers	Muscle Satellite Cultured Cells	--
26	chr3:105096400-105097000	Enhancers	A549	lung

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