Variant report

Variant	rs9879710
Chromosome Location	chr3:105073835-105073836
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	chr3:105072055..105074262-chr3:105075883..105078714,2	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs16851209	0.94[YRI][hapmap]
rs28444183	0.81[ASN][1000 genomes]
rs6437585	0.92[CHB][hapmap];0.81[YRI][hapmap];0.89[ASN][1000 genomes]
rs6437586	0.81[ASN][1000 genomes]
rs7618632	0.92[CHB][hapmap];0.81[ASN][1000 genomes]
rs7633625	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7640337	0.81[ASN][1000 genomes]
rs7651616	0.85[CHB][hapmap]
rs7651901	0.85[CHB][hapmap]
rs9846962	0.81[YRI][hapmap]
rs9848760	0.83[YRI][hapmap]
rs9875972	0.92[CHB][hapmap];0.81[ASN][1000 genomes]
rs9879039	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[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:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105068600-105074600	Enhancers	HMEC	breast
2	chr3:105071000-105078200	Weak transcription	A549	lung
3	chr3:105071800-105074600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:105072800-105075000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr3:105073000-105078600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr3:105073000-105081200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr3:105073200-105074400	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr3:105073200-105074600	Enhancers	NHDF-Ad	bronchial
9	chr3:105073200-105074800	Enhancers	NHEK	skin
10	chr3:105073200-105076000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr3:105073400-105074000	Enhancers	H9 Cell Line	embryonic stem cell
12	chr3:105073400-105074200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr3:105073400-105074800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr3:105073400-105074800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:105073400-105075000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr3:105073400-105075000	Enhancers	Muscle Satellite Cultured Cells	--
17	chr3:105073400-105075200	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr3:105073400-105075400	Weak transcription	Brain Substantia Nigra	brain
19	chr3:105073400-105076200	Enhancers	Monocytes-CD14+_RO01746	blood
20	chr3:105073400-105084400	Weak transcription	Aorta	Aorta
21	chr3:105073600-105074000	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
22	chr3:105073600-105074000	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr3:105073600-105074400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr3:105073600-105074400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr3:105073600-105074400	Weak transcription	Fetal Kidney	kidney
26	chr3:105073600-105074600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr3:105073600-105074600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
28	chr3:105073600-105074600	Enhancers	HSMM	muscle
29	chr3:105073600-105074600	Enhancers	HSMMtube	muscle
30	chr3:105073600-105074800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr3:105073600-105075000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr3:105073600-105075000	Enhancers	NHLF	lung
33	chr3:105073600-105075000	Enhancers	Osteobl	bone
34	chr3:105073600-105075400	Weak transcription	Brain Hippocampus Middle	brain
35	chr3:105073600-105075600	Weak transcription	Brain Cingulate Gyrus	brain
36	chr3:105073600-105075600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr3:105073600-105075800	Weak transcription	Brain Anterior Caudate	brain
38	chr3:105073600-105076000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr3:105073600-105076200	Enhancers	Primary monocytes fromperipheralblood	blood
40	chr3:105073600-105077600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr3:105073800-105074000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr3:105073800-105074400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
43	chr3:105073800-105074600	Enhancers	ES-I3 Cell Line	embryonic stem cell
44	chr3:105073800-105074600	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
45	chr3:105073800-105074600	Enhancers	HUES64 Cell Line	embryonic stem cell
46	chr3:105073800-105074800	Enhancers	HUES6 Cell Line	embryonic stem cell
47	chr3:105073800-105074800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr3:105073800-105075000	Enhancers	NH-A	brain
49	chr3:105073800-105075200	Enhancers	HUVEC	blood vessel

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