Variant report

Variant	rs16851098
Chromosome Location	chr3:105100176-105100177
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:105085649..105087902-chr3:105098446..105100560,2	MCF-7	breast:
2	chr3:105099610..105101866-chr3:105104777..105106508,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170017	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs16851279	0.84[MEX][hapmap]
rs2062433	0.81[ASN][1000 genomes]
rs2291377	0.89[CHB][hapmap];0.88[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap];0.89[MEX][hapmap];0.83[ASN][1000 genomes]
rs2291378	0.89[CHB][hapmap];0.88[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap];0.84[MEX][hapmap];0.83[ASN][1000 genomes]
rs3910551	0.85[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs41380949	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56341088	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62260777	0.83[ASN][1000 genomes]
rs7624892	0.81[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:23 , 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	chr3:105091400-105105000	Weak transcription	Brain Cingulate Gyrus	brain
6	chr3:105091600-105104000	Weak transcription	NH-A	brain
7	chr3:105091800-105104600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:105091800-105104800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:105092000-105106000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr3:105092800-105100200	Weak transcription	NHEK	skin
11	chr3:105092800-105103600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:105092800-105104200	Weak transcription	HepG2	liver
13	chr3:105092800-105105200	Weak transcription	HMEC	breast
14	chr3:105093200-105103800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:105094200-105105600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:105094400-105109000	Weak transcription	Primary hematopoietic stem cells	blood
17	chr3:105095800-105104400	Weak transcription	Brain Hippocampus Middle	brain
18	chr3:105097000-105106000	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr3:105098000-105104000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:105098000-105105200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr3:105098200-105101800	Weak transcription	Brain Anterior Caudate	brain
22	chr3:105098200-105102000	Weak transcription	Brain Substantia Nigra	brain
23	chr3:105098200-105103000	Weak transcription	A549	lung

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