Variant report

Variant	rs16976525
Chromosome Location	chr15:56063040-56063041
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	chr15:56061686..56064215-chr15:56064871..56066642,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10518817	0.80[CEU][hapmap]
rs10851589	0.80[CEU][hapmap]
rs11071205	0.81[JPT][hapmap]
rs11071206	0.81[JPT][hapmap]
rs11636556	0.81[MEX][hapmap]
rs12373006	0.82[MEX][hapmap];0.84[MKK][hapmap]
rs12594642	1.00[ASW][hapmap];0.95[MEX][hapmap];0.93[MKK][hapmap];0.91[TSI][hapmap]
rs1371056	1.00[ASW][hapmap];0.95[MEX][hapmap];0.93[MKK][hapmap];0.90[TSI][hapmap]
rs1530087	0.80[CEU][hapmap]
rs16976450	0.81[CEU][hapmap];0.95[MEX][hapmap]
rs2018522	0.81[JPT][hapmap]
rs2414424	0.90[MEX][hapmap];0.88[TSI][hapmap]
rs2414426	1.00[ASW][hapmap];0.95[MEX][hapmap];0.93[MKK][hapmap];0.88[TSI][hapmap];0.82[YRI][hapmap]
rs2414427	0.90[MEX][hapmap];0.91[TSI][hapmap]
rs572531	1.00[MEX][hapmap]
rs62043930	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6493819	0.81[JPT][hapmap]
rs7176575	0.80[JPT][hapmap]
rs7177532	0.81[JPT][hapmap]
rs7178959	0.84[JPT][hapmap]
rs7179377	0.81[JPT][hapmap]
rs8028734	0.86[ASN][1000 genomes]
rs8029134	0.81[JPT][hapmap]
rs9920076	0.80[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv457157	chr15:55722213-56255774	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv569539	chr15:55722213-56255774	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv833017	chr15:55965957-56157912	Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	esv3366380	chr15:56003224-56141650	Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
6	nsv1052495	chr15:56013617-56102164	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56057400-56069400	Weak transcription	Right Atrium	heart
2	chr15:56057400-56078800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:56060400-56063400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:56061200-56066200	Weak transcription	Hela-S3	cervix
5	chr15:56061400-56066600	Weak transcription	Placenta	Placenta
6	chr15:56061600-56065600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr15:56062000-56063200	Enhancers	Fetal Stomach	stomach
8	chr15:56062400-56063400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr15:56062600-56063200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr15:56062600-56063200	Enhancers	Adipose Nuclei	Adipose
11	chr15:56062600-56063400	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr15:56062600-56063800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr15:56062800-56063400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr15:56062800-56063400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr15:56063000-56063200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr15:56063000-56063400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr15:56063000-56063400	Enhancers	Fetal Brain Male	brain

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