Variant report

Variant	rs10846576
Chromosome Location	chr12:124386673-124386674
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	chr12:124379452..124381499-chr12:124383777..124386818,3	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10773046	0.86[ASN][1000 genomes]
rs10773047	0.85[ASN][1000 genomes]
rs10846570	0.87[ASN][1000 genomes]
rs10846571	0.85[ASN][1000 genomes]
rs10846572	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10846573	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10846574	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10846575	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11057388	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11057389	0.88[ASN][1000 genomes]
rs11057390	0.88[ASN][1000 genomes]
rs11057391	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12306328	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12307524	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12309481	0.99[ASN][1000 genomes]
rs1317386	0.82[ASN][1000 genomes]
rs2341569	0.95[ASN][1000 genomes]
rs28435362	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28528904	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28654550	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34587940	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4390427	0.84[ASN][1000 genomes]
rs57078519	0.99[ASN][1000 genomes]
rs57316347	0.99[ASN][1000 genomes]
rs58411567	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61587964	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6488910	0.97[ASN][1000 genomes]
rs7296123	0.88[ASN][1000 genomes]
rs7297429	0.81[ASN][1000 genomes]
rs7303634	0.88[ASN][1000 genomes]
rs7314278	0.88[ASN][1000 genomes]
rs7964324	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7970597	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7976319	0.82[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs7977078	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7978781	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][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	nsv498024	chr12:123994372-124459856	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	esv1811815	chr12:124374716-124424636	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers 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	10 gene(s)	inside rSNPs	diseases
3	esv1832870	chr12:124374716-124424636	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS 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	10 gene(s)	inside rSNPs	diseases
4	nsv522321	chr12:124383950-124424636	Enhancers Strong transcription Genic enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:124382000-124391400	Weak transcription	Fetal Lung	lung
2	chr12:124384000-124408400	Weak transcription	Fetal Brain Female	brain
3	chr12:124384200-124387000	Weak transcription	Spleen	Spleen
4	chr12:124385000-124387200	Enhancers	Fetal Thymus	thymus
5	chr12:124385400-124386800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr12:124385400-124386800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr12:124385400-124390200	Enhancers	Primary neutrophils fromperipheralblood	blood
8	chr12:124386000-124391400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr12:124386000-124395800	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr12:124386200-124387200	Weak transcription	Thymus	Thymus
11	chr12:124386200-124390800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr12:124386200-124392000	Weak transcription	NH-A	brain
13	chr12:124386200-124392200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr12:124386200-124394000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links