Variant report

Variant	rs72889763
Chromosome Location	chr3:46126754-46126755
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46126220..46128716-chr3:46205313..46206814,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs55830589	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs55892227	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55956323	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56049139	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs56090968	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs56405718	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56905314	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57383235	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs57570169	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs58310007	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs58381747	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs58403651	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58477700	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59173279	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59463328	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59539425	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60853701	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs61415158	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs72887919	0.85[AMR][1000 genomes]
rs72889740	0.85[AMR][1000 genomes]
rs72889757	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72889761	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72889772	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72889774	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72889785	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72889790	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72889791	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72889793	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72891124	0.85[AMR][1000 genomes]
rs72891503	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72891504	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72891505	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72891509	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72891511	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs72907767	0.85[AMR][1000 genomes]
rs73830741	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73830746	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73830748	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73830756	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73830758	0.84[AFR][1000 genomes];0.87[AMR][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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46120600-46127200	Weak transcription	Fetal Stomach	stomach
2	chr3:46120800-46127000	Weak transcription	HSMMtube	muscle
3	chr3:46120800-46129400	Weak transcription	Monocytes-CD14+_RO01746	blood
4	chr3:46121400-46126800	Weak transcription	Fetal Thymus	thymus
5	chr3:46122600-46127000	Weak transcription	Colon Smooth Muscle	Colon
6	chr3:46123000-46127600	Weak transcription	Hela-S3	cervix
7	chr3:46123200-46127000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr3:46123200-46129600	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr3:46123400-46130400	Weak transcription	Adipose Nuclei	Adipose
10	chr3:46124600-46127000	Weak transcription	Fetal Lung	lung
11	chr3:46125000-46127200	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr3:46125200-46127400	Weak transcription	Placenta	Placenta
13	chr3:46125400-46127800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr3:46125400-46128400	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr3:46125800-46127000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr3:46125800-46127200	Weak transcription	HMEC	breast
17	chr3:46125800-46127400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr3:46125800-46127400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr3:46125800-46127800	Weak transcription	Fetal Heart	heart
20	chr3:46125800-46130600	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr3:46126000-46127200	Weak transcription	NHEK	skin
22	chr3:46126200-46132600	Weak transcription	Right Atrium	heart
23	chr3:46126600-46127600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr3:46126600-46127600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
25	chr3:46126600-46128000	Enhancers	Ovary	ovary
26	chr3:46126600-46128000	Enhancers	Placenta Amnion	Placenta Amnion

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links