Variant report

Variant	rs3842916
Chromosome Location	chr5:112790649-112790650
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:112789508..112791643-chr5:112823212..112825558,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171444	Chromatin interaction

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10035293	0.85[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10038504	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10043783	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10043834	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10052747	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10053052	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs10053157	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10053622	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10055327	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10057000	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10057264	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10057372	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10060179	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10063334	1.00[CHB][hapmap]
rs10066163	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10066985	0.86[CHB][hapmap]
rs10070825	0.81[ASN][1000 genomes]
rs10078576	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10155616	1.00[JPT][hapmap]
rs10440762	1.00[JPT][hapmap]
rs10477492	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10477493	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10477494	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10478123	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10478124	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11241204	0.88[CHB][hapmap]
rs11950577	1.00[JPT][hapmap]
rs11952758	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11953401	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11960559	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12332461	1.00[JPT][hapmap]
rs13157360	0.86[CHB][hapmap]
rs13182505	0.86[CHB][hapmap]
rs13354840	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13355687	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13356388	0.81[ASN][1000 genomes]
rs13356509	0.81[ASN][1000 genomes]
rs13358111	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1353100	0.88[CHB][hapmap]
rs17135581	0.86[CHB][hapmap]
rs17135586	0.85[CHB][hapmap]
rs17135601	0.85[CHB][hapmap]
rs17135607	0.85[CHB][hapmap]
rs17135618	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28566618	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28714108	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28793421	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34936289	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35724644	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3843500	0.85[CHB][hapmap];0.83[ASN][1000 genomes]
rs3843501	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs3857436	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs41459745	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4345310	1.00[JPT][hapmap]
rs55912732	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56081130	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56090613	0.87[ASN][1000 genomes]
rs59211196	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6594702	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6871995	0.90[ASN][1000 genomes]
rs6879177	1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6879370	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73779003	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73779004	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73779005	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73779006	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7705430	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7705568	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7709433	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7709550	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7709818	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7715071	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7715884	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7719254	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7722421	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7726631	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7731451	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs7735806	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7737155	0.86[CHB][hapmap]
rs882755	0.85[CHB][hapmap]
rs9654506	0.81[ASN][1000 genomes]

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	nsv599396	chr5:112408944-112853189	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112786200-112810000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:112786600-112790800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr5:112788000-112794200	Weak transcription	NHEK	skin
4	chr5:112788000-112808000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr5:112788200-112807600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr5:112790600-112790800	Flanking Active TSS	Lung	lung

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