Variant report

Variant	rs11175409
Chromosome Location	chr12:40558785-40558786
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10454013	0.90[ASN][1000 genomes]
rs10506141	0.81[ASN][1000 genomes]
rs10877929	0.87[ASN][1000 genomes]
rs10878029	0.80[ASN][1000 genomes]
rs11174735	0.87[ASN][1000 genomes]
rs11174918	0.80[ASN][1000 genomes]
rs11174998	0.88[ASN][1000 genomes]
rs11175021	0.88[ASN][1000 genomes]
rs11175027	0.88[ASN][1000 genomes]
rs11175090	0.87[ASN][1000 genomes]
rs11175094	0.87[ASN][1000 genomes]
rs11175106	0.86[ASN][1000 genomes]
rs11175456	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11564157	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11564215	0.88[EUR][1000 genomes]
rs12228213	0.85[ASN][1000 genomes]
rs12230685	0.83[ASN][1000 genomes]
rs1871895	0.80[ASN][1000 genomes]
rs2101144	0.87[ASN][1000 genomes]
rs2708445	0.90[ASN][1000 genomes]
rs28370645	0.85[ASN][1000 genomes]
rs28370647	0.85[ASN][1000 genomes]
rs28370666	0.87[ASN][1000 genomes]
rs4533099	0.84[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs61933163	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7135815	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7301226	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7953143	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7966132	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7966741	0.87[ASN][1000 genomes]
rs7967369	0.81[ASN][1000 genomes]
rs7967822	0.80[ASN][1000 genomes]
rs7973688	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7975693	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv558596	chr12:40413698-40591117	Active TSS Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv899030	chr12:40509341-40580440	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv899031	chr12:40520684-40580440	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1045516	chr12:40543200-40589557	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a
5	esv3398206	chr12:40556364-40581392	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:40557400-40564600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr12:40558600-40559400	Enhancers	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links