Variant report

Variant	rs16851097
Chromosome Location	chr3:105092229-105092230
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:105085642..105088173-chr3:105091150..105094093,3	MCF-7	breast:
2	chr3:105085142..105089200-chr3:105089308..105093087,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170017	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs12496827	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13065937	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13070223	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13070790	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13075944	0.82[EUR][1000 genomes]
rs13077096	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13079517	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13079993	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13085657	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13092913	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13095216	0.82[ASN][1000 genomes]
rs13095274	0.82[ASN][1000 genomes]
rs13095691	0.82[EUR][1000 genomes]
rs1438549	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1438551	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16851175	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2399046	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34198525	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35401795	0.88[AFR][1000 genomes]
rs35616213	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4894926	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4894928	0.82[EUR][1000 genomes]
rs6437582	0.82[ASN][1000 genomes]
rs6437583	0.82[ASN][1000 genomes]
rs6437584	0.82[ASN][1000 genomes]
rs66713063	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7431148	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7626665	0.82[ASN][1000 genomes]
rs976530	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[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:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105089000-105092600	Enhancers	Brain Substantia Nigra	brain
2	chr3:105089000-105107000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:105089200-105093600	Weak transcription	Primary hematopoietic stem cells	blood
4	chr3:105089200-105094000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr3:105089200-105095200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:105089200-105101800	Weak transcription	NHDF-Ad	bronchial
7	chr3:105089400-105094200	Weak transcription	Duodenum Mucosa	Duodenum
8	chr3:105089600-105095000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr3:105089800-105092800	Enhancers	Brain Hippocampus Middle	brain
10	chr3:105089800-105092800	Enhancers	HepG2	liver
11	chr3:105089800-105092800	Enhancers	NHEK	skin
12	chr3:105089800-105093200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:105089800-105094000	Weak transcription	Dnd41	blood
14	chr3:105089800-105095000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr3:105090000-105092800	Enhancers	HMEC	breast
16	chr3:105090200-105096400	Weak transcription	A549	lung
17	chr3:105090600-105092600	Enhancers	Pancreatic Islets	Pancreatic Islet
18	chr3:105090600-105092800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:105090600-105094000	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr3:105090600-105101800	Weak transcription	Osteobl	bone
21	chr3:105090800-105092600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr3:105090800-105094400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr3:105090800-105104800	Weak transcription	NHLF	lung
24	chr3:105091000-105093000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr3:105091000-105097600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr3:105091400-105105000	Weak transcription	Brain Cingulate Gyrus	brain
27	chr3:105091600-105093600	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr3:105091600-105095200	Weak transcription	Brain Angular Gyrus	brain
29	chr3:105091600-105095600	Weak transcription	HUVEC	blood vessel
30	chr3:105091600-105097400	Weak transcription	Brain Anterior Caudate	brain
31	chr3:105091600-105104000	Weak transcription	NH-A	brain
32	chr3:105091800-105104600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr3:105091800-105104800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr3:105092000-105092600	Flanking Active TSS	GM12878-XiMat	blood
35	chr3:105092000-105097600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr3:105092000-105106000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr3:105092200-105092400	Enhancers	Muscle Satellite Cultured Cells	--

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