Variant report

Variant	rs12274228
Chromosome Location	chr11:36606632-36606633
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	chr11:36600352..36602447-chr11:36604376..36607300,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11033700	0.86[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11033701	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11033702	0.86[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11033704	0.87[MKK][hapmap];0.84[YRI][hapmap];1.00[AMR][1000 genomes]
rs11033705	0.87[MKK][hapmap];0.84[YRI][hapmap];1.00[AMR][1000 genomes]
rs11033726	1.00[AMR][1000 genomes]
rs11033740	1.00[AMR][1000 genomes]
rs11033754	1.00[AMR][1000 genomes]
rs11820706	1.00[AMR][1000 genomes]
rs11824427	1.00[AMR][1000 genomes]
rs11825620	0.84[YRI][hapmap];1.00[AMR][1000 genomes]
rs11828016	1.00[ASW][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12271060	1.00[ASW][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12271149	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12271279	0.83[YRI][hapmap];1.00[AMR][1000 genomes]
rs12271312	0.83[YRI][hapmap];1.00[AMR][1000 genomes]
rs12272928	1.00[AMR][1000 genomes]
rs12273684	0.92[YRI][hapmap];1.00[AMR][1000 genomes]
rs12273796	0.80[YRI][hapmap];1.00[AMR][1000 genomes]
rs12274720	1.00[AMR][1000 genomes]
rs12276673	1.00[AMR][1000 genomes]
rs12277745	0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs12279639	1.00[AMR][1000 genomes]
rs12280515	1.00[ASW][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12280564	1.00[ASW][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12283026	0.84[YRI][hapmap];1.00[AMR][1000 genomes]
rs12286152	1.00[AMR][1000 genomes]
rs13377317	1.00[AMR][1000 genomes]
rs16929080	0.86[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16929093	1.00[ASW][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35211174	1.00[AMR][1000 genomes]
rs4150999	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs4151011	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4151030	0.87[MKK][hapmap];0.84[YRI][hapmap];1.00[AMR][1000 genomes]
rs4151047	0.87[MKK][hapmap];0.84[YRI][hapmap];1.00[AMR][1000 genomes]
rs57273606	1.00[AMR][1000 genomes]
rs7119565	1.00[AMR][1000 genomes]
rs9971624	1.00[AMR][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	nsv467791	chr11:36108497-36999385	Flanking Active TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv554003	chr11:36108497-36999385	ZNF genes & repeats Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv832123	chr11:36582872-36757443	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs12274228	LOC119710	cis	multi-tissue	Pritchard
rs12274228	C11orf74	cis	multi-tissue	Pritchard
rs12274228	C11orf74	cis	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:36603400-36608000	Weak transcription	Thymus	Thymus
2	chr11:36604200-36607800	Weak transcription	Dnd41	blood
3	chr11:36605800-36609400	Weak transcription	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links