Variant report

Variant	rs10446292
Chromosome Location	chr3:105089034-105089035
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:64340243..64342606-chr3:105087627..105090133,2	MCF-7	breast:
2	chr3:105088832..105091045-chr3:105093820..105095533,2	MCF-7	breast:
3	chr3:104280640..104281427-chr3:105088752..105089262,2	MCF-7	breast:
4	chr3:105088359..105089332-chr3:105237182..105238145,2	MCF-7	breast:
5	chr3:105087236..105090040-chr3:105234697..105237400,2	MCF-7	breast:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1020110	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10433369	0.90[ASN][1000 genomes]
rs10511244	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12186012	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12186024	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12491519	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12495149	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12630634	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12633488	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12637538	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1347792	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1347793	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1438540	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16844719	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16844723	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16851091	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16851172	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16851188	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2007681	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2007688	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2164954	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs5012306	0.88[ASN][1000 genomes]
rs55639861	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56018019	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56052407	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs60073537	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6437591	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6437592	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6437593	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6437594	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73177460	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73177480	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73181308	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73183107	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73183124	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73185128	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73185129	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73185131	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73185136	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73185137	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73189029	0.83[ASN][1000 genomes]
rs9637374	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9637375	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9637376	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9637377	0.85[EUR][1000 genomes];0.89[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:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105084000-105089600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr3:105084200-105089200	Active TSS	NHDF-Ad	bronchial
3	chr3:105084200-105089600	Active TSS	Brain Inferior Temporal Lobe	brain
4	chr3:105084200-105089600	Active TSS	NHLF	lung
5	chr3:105084200-105090400	Active TSS	Pancreatic Islets	Pancreatic Islet
6	chr3:105084400-105089400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr3:105084400-105089400	Active TSS	GM12878-XiMat	blood
8	chr3:105084400-105089600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr3:105084600-105089200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr3:105084600-105089200	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr3:105084600-105089200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr3:105084600-105089200	Active TSS	HSMM	muscle
13	chr3:105084600-105089200	Active TSS	NH-A	brain
14	chr3:105084600-105089400	Active TSS	Brain Anterior Caudate	brain
15	chr3:105084600-105089800	Active TSS	Fetal Kidney	kidney
16	chr3:105084800-105089200	Active TSS	Brain Hippocampus Middle	brain
17	chr3:105084800-105089200	Active TSS	NHEK	skin
18	chr3:105084800-105089400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr3:105084800-105089600	Active TSS	HMEC	breast
20	chr3:105085000-105089400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr3:105085200-105089200	Active TSS	Fetal Intestine Large	intestine
22	chr3:105086200-105089200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
23	chr3:105086400-105089200	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
24	chr3:105086600-105089200	Active TSS	Rectal Mucosa Donor 31	rectum
25	chr3:105086600-105089400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr3:105086800-105089200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr3:105087200-105089600	Active TSS	Duodenum Smooth Muscle	Duodenum
28	chr3:105087600-105089200	Active TSS	Monocytes-CD14+_RO01746	blood
29	chr3:105087800-105089200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
30	chr3:105088000-105089200	Active TSS	Primary hematopoietic stem cells short term culture	blood
31	chr3:105088000-105089400	Active TSS	Fetal Adrenal Gland	Adrenal Gland
32	chr3:105088000-105089400	Active TSS	Fetal Brain Female	brain
33	chr3:105088200-105089200	Active TSS	HepG2	liver
34	chr3:105088400-105089200	Active TSS	ES-I3 Cell Line	embryonic stem cell
35	chr3:105088400-105089600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr3:105088600-105089200	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr3:105088600-105089200	Active TSS	Primary hematopoietic stem cells	blood
38	chr3:105088600-105089400	Active TSS	H1 Cell Line	embryonic stem cell
39	chr3:105088800-105089200	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
40	chr3:105088800-105089200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr3:105088800-105089200	Flanking Active TSS	Liver	Liver
42	chr3:105088800-105089200	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
43	chr3:105088800-105089200	Flanking Active TSS	HUVEC	blood vessel
44	chr3:105088800-105089400	Enhancers	Primary B cells from peripheral blood	blood
45	chr3:105088800-105089400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
46	chr3:105088800-105089400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
47	chr3:105088800-105089600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr3:105088800-105089600	Weak transcription	Placenta Amnion	Placenta Amnion
49	chr3:105088800-105090400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr3:105089000-105089200	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell

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