Variant report

Variant	rs2684957
Chromosome Location	chr15:34309815-34309816
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:34308484..34310036-chr15:34321852..34323927,2	MCF-7	breast:

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10775220	1.00[AMR][1000 genomes]
rs12917199	1.00[AMR][1000 genomes]
rs1865924	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2243764	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2257058	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2632074	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2632089	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684929	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684938	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684942	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684948	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684949	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2702275	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2705351	1.00[AMR][1000 genomes]
rs2879445	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4411478	0.83[AFR][1000 genomes]
rs4780200	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4780201	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4780202	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs486970	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs499142	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs527470	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs537920	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs542890	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs545484	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs547824	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs572179	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs591999	1.00[AMR][1000 genomes]
rs612992	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs643827	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6495507	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6495516	1.00[AMR][1000 genomes]
rs681873	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs682484	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs683417	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7162728	1.00[AMR][1000 genomes]
rs7494971	1.00[AMR][1000 genomes]
rs8027337	1.00[AMR][1000 genomes]
rs8041507	1.00[AMR][1000 genomes]
rs8041929	1.00[AMR][1000 genomes]
rs889871	1.00[AMR][1000 genomes]
rs891342	1.00[AMR][1000 genomes]
rs919470	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv456789	chr15:34034421-34426618	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv568920	chr15:34034421-34426618	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv471235	chr15:34035529-34421951	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv903985	chr15:34279319-34370487	Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34265400-34311800	Weak transcription	Liver	Liver
2	chr15:34274400-34311000	Weak transcription	Primary B cells from cord blood	blood
3	chr15:34278200-34310000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr15:34292000-34315000	Weak transcription	Aorta	Aorta
5	chr15:34294800-34315600	Weak transcription	Left Ventricle	heart
6	chr15:34302200-34311200	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr15:34304200-34319800	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr15:34304800-34310400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr15:34305000-34314000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr15:34306600-34314400	Weak transcription	Rectal Smooth Muscle	rectum
11	chr15:34307000-34310200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr15:34307000-34311200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr15:34308200-34312400	Weak transcription	HSMMtube	muscle
14	chr15:34309000-34317400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr15:34309200-34314200	Weak transcription	Brain Cingulate Gyrus	brain
16	chr15:34309400-34311600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr15:34309400-34316000	Weak transcription	Brain Angular Gyrus	brain
18	chr15:34309400-34330000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr15:34309600-34312200	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr15:34309600-34330000	Weak transcription	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links