Variant report

Variant	rs3912900
Chromosome Location	chr1:59046883-59046884
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:59044335..59047263-chr1:59090898..59093148,2	MCF-7	breast:
2	chr1:59046705..59048378-chr1:59112246..59114318,2	MCF-7	breast:
3	chr1:59045065..59047572-chr1:59117802..59119674,2	MCF-7	breast:

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs17117608	1.00[MEX][hapmap]
rs17117702	1.00[ASW][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap]
rs17117734	0.89[YRI][hapmap]
rs338237	1.00[MEX][hapmap]
rs7553996	1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003930	chr1:58930444-59157038	Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Bivalent Enhancer Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:59043200-59047400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:59043200-59049200	Weak transcription	Gastric	stomach
3	chr1:59043400-59049000	Weak transcription	Pancreas	Pancrea
4	chr1:59043400-59049800	Weak transcription	Ovary	ovary
5	chr1:59043600-59049200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr1:59043800-59049000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr1:59043800-59049000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr1:59043800-59049200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr1:59043800-59049200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr1:59044000-59049000	Weak transcription	Fetal Lung	lung
11	chr1:59044000-59049000	Weak transcription	Osteobl	bone
12	chr1:59044000-59049200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr1:59044000-59049200	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr1:59044000-59049400	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr1:59044000-59049800	Weak transcription	Brain Angular Gyrus	brain
16	chr1:59044200-59049000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr1:59044200-59049000	Weak transcription	Spleen	Spleen
18	chr1:59044200-59049200	Weak transcription	Adipose Nuclei	Adipose
19	chr1:59044400-59049000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr1:59044400-59049000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr1:59044400-59049000	Weak transcription	Stomach Mucosa	stomach
22	chr1:59045400-59047200	Enhancers	Brain Substantia Nigra	brain
23	chr1:59045400-59049000	Weak transcription	Hela-S3	cervix
24	chr1:59045400-59049000	Weak transcription	HMEC	breast
25	chr1:59045600-59047200	Enhancers	Brain Germinal Matrix	brain
26	chr1:59046000-59047400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr1:59046000-59047600	Weak transcription	GM12878-XiMat	blood
28	chr1:59046000-59049000	Weak transcription	Lung	lung
29	chr1:59046200-59049000	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr1:59046200-59049000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr1:59046200-59049000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr1:59046200-59049000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr1:59046200-59049000	Weak transcription	Placenta	Placenta
34	chr1:59046200-59049000	Weak transcription	NHEK	skin
35	chr1:59046400-59047200	Enhancers	Brain Inferior Temporal Lobe	brain
36	chr1:59046600-59047000	Enhancers	Brain Cingulate Gyrus	brain
37	chr1:59046800-59047000	Enhancers	Monocytes-CD14+_RO01746	blood
38	chr1:59046800-59047800	Enhancers	HSMMtube	muscle
39	chr1:59046800-59047800	Enhancers	HUVEC	blood vessel

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