Variant report

Variant	rs10840348
Chromosome Location	chr11:10075500-10075501
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	chr11:10074369..10077326-chr11:10315729..10317721,2	MCF-7	breast:
2	chr11:10075330..10076970-chr11:10327366..10329414,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000133812	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10458929	0.95[ASN][1000 genomes]
rs10500715	0.86[CHB][hapmap];0.91[CHD][hapmap];0.94[JPT][hapmap]
rs10500717	1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10770079	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs10840330	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs10840333	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs10840334	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs10840347	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10840352	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10840359	0.92[ASN][1000 genomes]
rs10840361	1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs10840362	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs10840370	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap]
rs11042558	1.00[CEU][hapmap];0.84[AMR][1000 genomes]
rs11042574	1.00[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes]
rs11042589	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11042590	1.00[CEU][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];0.94[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.92[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11042591	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11042592	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11042604	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11042605	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11042606	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11042610	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11042613	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.92[ASN][1000 genomes]
rs11042624	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11042630	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11042634	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11042635	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11042639	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11042645	0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs11042647	1.00[EUR][1000 genomes]
rs11042669	1.00[CEU][hapmap];0.93[CHB][hapmap];0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs11526057	0.88[AMR][1000 genomes]
rs11530489	0.91[ASN][1000 genomes]
rs11530492	1.00[EUR][1000 genomes]
rs12221716	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12222953	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];0.82[GIH][hapmap];0.94[JPT][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes]
rs12283105	1.00[CEU][hapmap];0.94[JPT][hapmap]
rs12575719	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1372807	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs1442732	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16907368	1.00[CEU][hapmap];0.93[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16907396	1.00[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2403226	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs2403227	0.85[CHB][hapmap];0.94[JPT][hapmap]
rs2403229	0.80[CHB][hapmap];0.87[CHD][hapmap];0.82[JPT][hapmap]
rs4478985	0.92[ASN][1000 genomes]
rs4529876	0.81[ASN][1000 genomes]
rs4576815	0.86[CHB][hapmap];0.91[CHD][hapmap];0.94[JPT][hapmap]
rs4625455	0.93[CHB][hapmap];0.88[JPT][hapmap]
rs4909917	0.80[CHB][hapmap];0.91[CHD][hapmap];0.94[JPT][hapmap]
rs4910086	0.86[CHB][hapmap];0.91[CHD][hapmap];0.94[JPT][hapmap]
rs57420335	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58084362	0.84[AMR][1000 genomes]
rs59757006	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60362241	0.84[AMR][1000 genomes]
rs7106914	0.86[CHB][hapmap];0.91[CHD][hapmap];0.94[JPT][hapmap]
rs7114303	0.93[CHB][hapmap];0.91[CHD][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs7121617	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7938788	0.93[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs7946995	0.92[CHB][hapmap];0.87[JPT][hapmap];0.92[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

No data

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	chr11:10075200-10076000	Enhancers	Hela-S3	cervix
10	chr11:10075400-10079000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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