Variant report

Variant	rs537920
Chromosome Location	chr15:34341644-34341645
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10775220	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12917199	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1865924	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2243764	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2257058	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2632074	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2632089	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684929	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684938	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684942	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684948	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684949	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684957	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2702275	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2705351	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2879445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4411478	0.96[AFR][1000 genomes]
rs4780200	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4780201	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4780202	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs486970	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs499142	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs527470	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs542890	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs545484	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs547824	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs572179	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs591999	1.00[AMR][1000 genomes]
rs612992	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs643827	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6495507	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6495516	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs681873	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs682484	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs683417	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7162728	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7494971	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8027337	0.84[AFR][1000 genomes];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:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs537920	PPP6C	trans	lymphoblastoid	RTeQTL

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34337600-34341800	Enhancers	Osteobl	bone
2	chr15:34338800-34341800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr15:34339600-34341800	Enhancers	HMEC	breast
4	chr15:34340000-34341800	Flanking Active TSS	NH-A	brain
5	chr15:34340000-34342000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr15:34340400-34342000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr15:34340600-34341800	Enhancers	NHEK	skin
8	chr15:34340800-34341800	Enhancers	Hela-S3	cervix
9	chr15:34340800-34342000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr15:34341000-34341800	Enhancers	NHDF-Ad	bronchial
11	chr15:34341200-34341800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr15:34341400-34341800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr15:34341400-34341800	Enhancers	HSMMtube	muscle
14	chr15:34341600-34341800	Enhancers	Muscle Satellite Cultured Cells	--

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