Variant report

Variant	rs9845900
Chromosome Location	chr3:79066075-79066076
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	chr3:79059187..79061732-chr3:79063739..79067331,3	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10084694	0.86[YRI][hapmap]
rs11127638	1.00[EUR][1000 genomes]
rs11923198	1.00[EUR][1000 genomes]
rs12495750	1.00[EUR][1000 genomes]
rs13096526	0.86[EUR][1000 genomes]
rs1349023	1.00[EUR][1000 genomes]
rs1349024	1.00[EUR][1000 genomes]
rs1374883	1.00[EUR][1000 genomes]
rs1374885	0.86[EUR][1000 genomes]
rs1374886	0.86[EUR][1000 genomes]
rs1374887	1.00[EUR][1000 genomes]
rs1374888	1.00[EUR][1000 genomes]
rs1374889	1.00[EUR][1000 genomes]
rs1900663	0.86[EUR][1000 genomes]
rs1947154	1.00[EUR][1000 genomes]
rs2871747	1.00[EUR][1000 genomes]
rs4680946	0.86[EUR][1000 genomes]
rs61586777	0.86[EUR][1000 genomes]
rs6548603	1.00[EUR][1000 genomes]
rs6548604	0.86[EUR][1000 genomes]
rs6548605	0.86[EUR][1000 genomes]
rs6548606	0.86[EUR][1000 genomes]
rs6774082	1.00[EUR][1000 genomes]
rs6788693	1.00[EUR][1000 genomes]
rs6797152	1.00[EUR][1000 genomes]
rs6804234	0.86[EUR][1000 genomes]
rs7625043	0.86[EUR][1000 genomes]
rs7646169	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv834744	chr3:78911545-79076470	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv834745	chr3:79055426-79227937	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:79054400-79066600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:79061200-79067000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr3:79062600-79066200	Weak transcription	Aorta	Aorta
4	chr3:79062600-79069000	Active TSS	Fetal Brain Female	brain
5	chr3:79063600-79069000	Active TSS	HUES6 Cell Line	embryonic stem cell
6	chr3:79063800-79066800	Active TSS	HepG2	liver
7	chr3:79064200-79067200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
8	chr3:79064200-79069000	Active TSS	Brain Anterior Caudate	brain
9	chr3:79064200-79069000	Active TSS	NHLF	lung
10	chr3:79064200-79069400	Active TSS	H1 Cell Line	embryonic stem cell
11	chr3:79064400-79066200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr3:79064400-79069000	Active TSS	Right Atrium	heart
13	chr3:79064400-79069200	Active TSS	Stomach Smooth Muscle	stomach
14	chr3:79064600-79066800	Active TSS	Brain Germinal Matrix	brain
15	chr3:79064600-79069000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:79064600-79069000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr3:79064600-79069000	Active TSS	Brain Angular Gyrus	brain
18	chr3:79064600-79069000	Active TSS	Duodenum Smooth Muscle	Duodenum
19	chr3:79064600-79069400	Active TSS	Pancreatic Islets	Pancreatic Islet
20	chr3:79064800-79066200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr3:79064800-79067200	Active TSS	Brain Inferior Temporal Lobe	brain
22	chr3:79064800-79067600	Active TSS	Skeletal Muscle Female	skeletal muscle
23	chr3:79064800-79068800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr3:79064800-79069000	Active TSS	ES-I3 Cell Line	embryonic stem cell
25	chr3:79064800-79069000	Active TSS	Brain Substantia Nigra	brain
26	chr3:79065000-79066800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr3:79065000-79069000	Active TSS	iPS-15b Cell Line	embryonic stem cell
28	chr3:79065200-79066200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr3:79065200-79066200	Flanking Active TSS	Osteobl	bone
30	chr3:79065200-79066400	Enhancers	Primary hematopoietic stem cells	blood
31	chr3:79065200-79066400	Active TSS	Duodenum Mucosa	Duodenum
32	chr3:79065200-79067000	Active TSS	Fetal Muscle Leg	muscle
33	chr3:79065200-79069000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr3:79065200-79069200	Bivalent/Poised TSS	Fetal Intestine Small	intestine
35	chr3:79065400-79067200	Active TSS	Fetal Brain Male	brain
36	chr3:79065400-79067800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr3:79065400-79068200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr3:79065400-79068800	Active TSS	Fetal Adrenal Gland	Adrenal Gland
39	chr3:79065400-79069000	Active TSS	iPS-20b Cell Line	embryonic stem cell
40	chr3:79065400-79069000	Active TSS	Brain Hippocampus Middle	brain
41	chr3:79065400-79069000	Active TSS	Fetal Lung	lung
42	chr3:79065400-79069000	Active TSS	Fetal Stomach	stomach
43	chr3:79065400-79069000	Active TSS	Rectal Mucosa Donor 29	rectum
44	chr3:79065400-79069000	Active TSS	A549	lung
45	chr3:79065400-79069200	Active TSS	GM12878-XiMat	blood
46	chr3:79065600-79066200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr3:79065600-79066200	Flanking Active TSS	NH-A	brain
48	chr3:79065600-79068800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
49	chr3:79065600-79069000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr3:79065600-79069000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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