Variant report

Variant	rs10779526
Chromosome Location	chr1:210352196-210352197
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	chr1:210350899..210352953-chr1:210354578..210356622,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10779525	0.88[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs10863811	0.81[ASN][1000 genomes]
rs11119413	0.87[ASN][1000 genomes]
rs11119414	0.87[ASN][1000 genomes]
rs11119425	0.93[EUR][1000 genomes]
rs11119427	0.95[EUR][1000 genomes]
rs11119428	0.95[EUR][1000 genomes]
rs11119429	0.95[EUR][1000 genomes]
rs11119431	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12117075	0.81[ASN][1000 genomes]
rs12129172	0.95[EUR][1000 genomes]
rs126277	0.82[AMR][1000 genomes]
rs1334569	0.80[AMR][1000 genomes]
rs1413695	0.93[EUR][1000 genomes]
rs1933477	0.94[EUR][1000 genomes]
rs2046849	0.86[ASN][1000 genomes]
rs2200970	0.87[ASN][1000 genomes]
rs2484032	0.83[YRI][hapmap]
rs2485888	0.85[AMR][1000 genomes]
rs2485889	0.86[AMR][1000 genomes]
rs2485890	0.87[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2485891	0.95[EUR][1000 genomes]
rs2485892	0.95[EUR][1000 genomes]
rs2485893	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2485894	0.82[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2487909	0.86[AMR][1000 genomes]
rs2494168	0.87[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2494169	0.95[CEU][hapmap];0.84[YRI][hapmap];0.95[EUR][1000 genomes]
rs2494176	0.86[AMR][1000 genomes]
rs2494189	0.94[EUR][1000 genomes]
rs2494190	0.87[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2743891	0.81[CHD][hapmap];0.83[MEX][hapmap]
rs4421592	0.95[CEU][hapmap];0.97[TSI][hapmap];0.92[EUR][1000 genomes]
rs4844948	0.88[ASN][1000 genomes]
rs4844954	0.87[LWK][hapmap];0.87[MKK][hapmap];0.84[YRI][hapmap]
rs4844971	0.86[AMR][1000 genomes]
rs6540584	0.90[EUR][1000 genomes]
rs701947	0.81[MKK][hapmap]
rs7541569	0.92[EUR][1000 genomes]
rs846559	0.81[CHD][hapmap];0.87[MEX][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014034	chr1:209759648-210501731	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10779526	CR1	cis	parietal	SCAN
rs10779526	POLR2E	trans	parietal	SCAN
rs10779526	DYRK3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210339400-210361200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links