Variant report

Variant	rs12854608
Chromosome Location	chr13:30288990-30288991
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	chr13:30288057..30290485-chr13:30310229..30312690,2	MCF-7	breast:

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs12853894	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs12864282	0.87[EUR][1000 genomes]
rs12865724	0.82[EUR][1000 genomes]
rs12866411	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs12868072	0.84[EUR][1000 genomes]
rs12869833	1.00[JPT][hapmap]
rs12872620	0.87[EUR][1000 genomes]
rs12872872	0.87[EUR][1000 genomes]
rs12877965	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs13378487	0.87[EUR][1000 genomes]
rs2182778	0.94[ASN][1000 genomes]
rs34117941	0.87[EUR][1000 genomes]
rs34148142	0.85[EUR][1000 genomes]
rs34220342	0.87[EUR][1000 genomes]
rs34492142	0.87[EUR][1000 genomes]
rs34730463	0.94[ASN][1000 genomes]
rs34973257	0.87[EUR][1000 genomes]
rs35227498	0.85[EUR][1000 genomes]
rs35566813	0.85[EUR][1000 genomes]
rs35569918	0.84[EUR][1000 genomes]
rs35809262	0.85[EUR][1000 genomes]
rs35820783	0.85[EUR][1000 genomes]
rs4580011	0.88[ASN][1000 genomes]
rs59768871	0.88[ASN][1000 genomes]
rs61424636	0.94[ASN][1000 genomes]
rs71427278	0.87[EUR][1000 genomes]
rs71427279	0.87[EUR][1000 genomes]
rs71427280	0.87[EUR][1000 genomes]
rs71434744	0.85[EUR][1000 genomes]
rs71434746	0.87[EUR][1000 genomes]
rs7320198	0.82[EUR][1000 genomes]
rs73444211	0.88[ASN][1000 genomes]
rs73444214	0.88[ASN][1000 genomes]
rs74042382	0.94[ASN][1000 genomes]
rs74042383	0.94[ASN][1000 genomes]
rs74042387	0.94[ASN][1000 genomes]
rs74042388	0.94[ASN][1000 genomes]
rs74042389	0.94[ASN][1000 genomes]
rs74042390	0.94[ASN][1000 genomes]
rs74042392	0.94[ASN][1000 genomes]
rs74042393	0.94[ASN][1000 genomes]
rs7986326	0.82[EUR][1000 genomes]
rs8000607	1.00[JPT][hapmap]
rs9314968	0.82[EUR][1000 genomes]
rs9551729	0.82[ASN][1000 genomes]
rs9578127	0.85[EUR][1000 genomes]
rs9578128	0.85[EUR][1000 genomes]
rs9578130	0.82[EUR][1000 genomes]
rs9578131	0.85[EUR][1000 genomes]
rs9578133	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs9578134	0.87[EUR][1000 genomes]
rs9579440	0.89[CEU][hapmap]
rs9579457	0.84[EUR][1000 genomes]
rs9579459	0.84[EUR][1000 genomes]
rs9579462	0.84[EUR][1000 genomes]
rs9579463	0.84[EUR][1000 genomes]
rs9579464	0.85[EUR][1000 genomes]
rs9579465	0.85[EUR][1000 genomes]
rs9579466	0.87[EUR][1000 genomes]
rs9579468	0.87[EUR][1000 genomes]
rs9579469	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579472	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv899961	chr13:30226924-30407273	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	esv3520592	chr13:30243601-30648554	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	esv3520593	chr13:30243601-30648554	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30288400-30289400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr13:30288800-30289800	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr13:30288800-30292200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links