Variant report

Variant	rs11042602
Chromosome Location	chr11:10078104-10078105
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:10072187..10074484-chr11:10077289..10078994,2	MCF-7	breast:

Extended variants
information (count: 149 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:146)

rs_ID	r²[population]
rs10128601	0.90[EUR][1000 genomes]
rs10160247	0.81[ASN][1000 genomes]
rs10160669	0.81[ASN][1000 genomes]
rs10160692	0.81[ASN][1000 genomes]
rs10500718	0.81[ASN][1000 genomes]
rs10500719	0.81[ASN][1000 genomes]
rs10734652	0.89[EUR][1000 genomes]
rs10770082	0.90[EUR][1000 genomes]
rs10770083	0.90[EUR][1000 genomes]
rs10770084	0.92[EUR][1000 genomes]
rs10770087	0.90[EUR][1000 genomes]
rs10770088	0.81[EUR][1000 genomes]
rs10770089	0.84[EUR][1000 genomes]
rs10770090	0.90[EUR][1000 genomes]
rs10840346	0.90[EUR][1000 genomes]
rs10840349	0.92[EUR][1000 genomes]
rs10840353	0.92[EUR][1000 genomes]
rs10840354	0.92[EUR][1000 genomes]
rs10840357	0.90[EUR][1000 genomes]
rs10840358	0.90[EUR][1000 genomes]
rs10840360	0.90[EUR][1000 genomes]
rs10840363	0.90[EUR][1000 genomes]
rs10840365	0.88[EUR][1000 genomes]
rs10840369	0.88[EUR][1000 genomes]
rs11042586	0.82[ASN][1000 genomes]
rs11042617	0.90[EUR][1000 genomes]
rs11042620	0.82[EUR][1000 genomes]
rs11042621	0.90[EUR][1000 genomes]
rs11042622	0.90[EUR][1000 genomes]
rs11042625	0.90[EUR][1000 genomes]
rs11042638	0.90[EUR][1000 genomes]
rs11042650	0.81[ASN][1000 genomes]
rs1135372	0.80[ASN][1000 genomes]
rs1135374	0.82[ASN][1000 genomes]
rs11600852	0.92[EUR][1000 genomes]
rs12288355	0.91[EUR][1000 genomes]
rs12293757	0.81[ASN][1000 genomes]
rs12360854	0.91[EUR][1000 genomes]
rs13377397	0.81[ASN][1000 genomes]
rs16907462	0.89[ASN][1000 genomes]
rs16907471	0.88[ASN][1000 genomes]
rs16907481	0.87[ASN][1000 genomes]
rs16907483	0.85[ASN][1000 genomes]
rs16907493	0.86[ASN][1000 genomes]
rs16907496	0.82[ASN][1000 genomes]
rs16907498	0.82[ASN][1000 genomes]
rs16907500	0.82[ASN][1000 genomes]
rs16907503	0.82[ASN][1000 genomes]
rs16907504	0.82[ASN][1000 genomes]
rs16907509	0.81[ASN][1000 genomes]
rs16907515	0.81[ASN][1000 genomes]
rs16907519	0.81[ASN][1000 genomes]
rs16907527	0.81[ASN][1000 genomes]
rs16907528	0.81[ASN][1000 genomes]
rs16907533	0.81[ASN][1000 genomes]
rs2028575	0.81[ASN][1000 genomes]
rs2028576	0.81[ASN][1000 genomes]
rs2028577	0.81[ASN][1000 genomes]
rs2028578	0.81[ASN][1000 genomes]
rs2099877	0.86[ASN][1000 genomes]
rs2278628	0.81[ASN][1000 genomes]
rs2278630	0.81[ASN][1000 genomes]
rs2278632	0.81[ASN][1000 genomes]
rs2278633	0.81[ASN][1000 genomes]
rs2403230	0.92[EUR][1000 genomes]
rs2403264	0.92[EUR][1000 genomes]
rs2403265	0.90[EUR][1000 genomes]
rs2403267	0.80[ASN][1000 genomes]
rs2403290	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2896513	0.82[ASN][1000 genomes]
rs2896515	0.82[ASN][1000 genomes]
rs3178898	0.82[ASN][1000 genomes]
rs34124136	0.83[ASN][1000 genomes]
rs34984386	0.94[ASN][1000 genomes]
rs35815123	0.90[ASN][1000 genomes]
rs4284389	0.92[EUR][1000 genomes]
rs4316505	0.92[EUR][1000 genomes]
rs4350354	0.92[EUR][1000 genomes]
rs4366476	0.90[EUR][1000 genomes]
rs4466825	0.90[EUR][1000 genomes]
rs4509749	0.90[EUR][1000 genomes]
rs4543988	0.81[ASN][1000 genomes]
rs4622247	0.81[ASN][1000 genomes]
rs4635071	0.89[EUR][1000 genomes]
rs56850765	0.85[ASN][1000 genomes]
rs57520536	0.86[ASN][1000 genomes]
rs57618276	0.89[ASN][1000 genomes]
rs58623593	0.90[EUR][1000 genomes]
rs58652557	0.87[ASN][1000 genomes]
rs58842960	0.96[ASN][1000 genomes]
rs60257382	0.87[ASN][1000 genomes]
rs60578195	0.81[ASN][1000 genomes]
rs61149838	0.81[ASN][1000 genomes]
rs61520995	0.89[ASN][1000 genomes]
rs61877045	0.85[ASN][1000 genomes]
rs61878580	0.96[ASN][1000 genomes]
rs61878581	0.96[ASN][1000 genomes]
rs61878584	0.96[ASN][1000 genomes]
rs61878585	0.96[ASN][1000 genomes]
rs61878625	0.87[ASN][1000 genomes]
rs61878627	0.89[ASN][1000 genomes]
rs61878628	0.89[ASN][1000 genomes]
rs61878631	0.88[ASN][1000 genomes]
rs61878632	0.89[ASN][1000 genomes]
rs61878634	0.89[ASN][1000 genomes]
rs6483964	0.90[EUR][1000 genomes]
rs6483965	0.90[EUR][1000 genomes]
rs6483966	0.90[EUR][1000 genomes]
rs6483969	0.96[ASN][1000 genomes]
rs6483970	0.90[EUR][1000 genomes]
rs6484012	0.82[ASN][1000 genomes]
rs7104821	0.90[EUR][1000 genomes]
rs7105321	0.94[ASN][1000 genomes]
rs7106328	0.90[EUR][1000 genomes]
rs7106491	0.91[EUR][1000 genomes]
rs7107021	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7110312	0.89[EUR][1000 genomes]
rs7110664	0.90[EUR][1000 genomes]
rs7111072	0.82[EUR][1000 genomes]
rs7119000	0.90[EUR][1000 genomes]
rs7121704	0.91[EUR][1000 genomes]
rs7122422	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7124925	0.87[ASN][1000 genomes]
rs7125593	0.88[EUR][1000 genomes]
rs7126376	0.91[EUR][1000 genomes]
rs7128234	0.82[ASN][1000 genomes]
rs7128591	0.92[EUR][1000 genomes]
rs7129047	0.86[ASN][1000 genomes]
rs7131203	0.90[EUR][1000 genomes]
rs721008	0.86[ASN][1000 genomes]
rs72860548	0.88[ASN][1000 genomes]
rs73412899	0.82[ASN][1000 genomes]
rs73415015	0.82[ASN][1000 genomes]
rs7926678	0.93[ASN][1000 genomes]
rs7931957	0.93[ASN][1000 genomes]
rs7932988	0.89[EUR][1000 genomes]
rs7936409	0.96[ASN][1000 genomes]
rs7938534	0.96[ASN][1000 genomes]
rs7938891	0.89[EUR][1000 genomes]
rs7938932	0.93[ASN][1000 genomes]
rs7939064	0.94[ASN][1000 genomes]
rs7939146	0.90[EUR][1000 genomes]
rs7946649	0.96[ASN][1000 genomes]
rs7948166	0.84[EUR][1000 genomes]
rs7950240	0.90[EUR][1000 genomes]
rs9645625	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[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	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv553476	chr11:10024311-10117435	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11042602	RP11-351I24.1	cis	Whole Blood	GTEx

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10066600-10078600	Weak transcription	Aorta	Aorta
2	chr11:10067000-10078400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr11:10067800-10078200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr11:10072400-10101200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr11:10074000-10089200	Weak transcription	Ovary	ovary
6	chr11:10074000-10098200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr11:10074200-10079200	Weak transcription	Osteobl	bone
8	chr11:10074400-10079200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr11:10075400-10079000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr11:10078000-10078200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links