Variant report

Variant	rs9853746
Chromosome Location	chr3:139720049-139720050
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	chr3:139719664..139721781-chr3:139724415..139725942,2	MCF-7	breast:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11712956	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13080287	0.95[ASN][1000 genomes]
rs2012477	0.95[ASN][1000 genomes]
rs2012512	0.95[ASN][1000 genomes]
rs2114165	0.95[ASN][1000 genomes]
rs2114166	0.95[ASN][1000 genomes]
rs2162210	0.95[ASN][1000 genomes]
rs2882368	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34053368	0.95[ASN][1000 genomes]
rs34903090	0.95[ASN][1000 genomes]
rs6766139	0.95[ASN][1000 genomes]
rs6766209	0.95[ASN][1000 genomes]
rs6766312	0.95[ASN][1000 genomes]
rs6768805	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6769344	0.95[ASN][1000 genomes]
rs7621988	0.95[ASN][1000 genomes]
rs7627845	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7632475	0.95[ASN][1000 genomes]
rs7640131	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7641534	0.95[ASN][1000 genomes]
rs7641861	0.95[ASN][1000 genomes]
rs7641890	0.95[ASN][1000 genomes]
rs7642085	0.95[ASN][1000 genomes]
rs7653609	0.95[ASN][1000 genomes]
rs9289593	0.95[ASN][1000 genomes]
rs9815854	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9818660	0.81[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs9828110	0.95[ASN][1000 genomes]
rs9830596	0.95[ASN][1000 genomes]
rs9833439	0.95[ASN][1000 genomes]
rs9834731	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9835073	0.95[ASN][1000 genomes]
rs9840271	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9841389	0.95[ASN][1000 genomes]
rs9845106	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9845526	0.95[ASN][1000 genomes]
rs9845932	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9850893	0.95[ASN][1000 genomes]
rs9852676	0.95[ASN][1000 genomes]
rs9855298	0.95[ASN][1000 genomes]
rs9856121	0.81[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs9862536	0.92[ASN][1000 genomes]
rs9863029	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9863642	0.85[AMR][1000 genomes]
rs9864281	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9866483	0.95[ASN][1000 genomes]
rs9871885	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9873448	0.95[ASN][1000 genomes]
rs9875299	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9878784	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003154	chr3:139060841-139788752	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv536729	chr3:139060841-139788752	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv916193	chr3:139187767-139821526	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv530058	chr3:139243971-139814419	Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv998423	chr3:139526446-139947336	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv829738	chr3:139670836-139851945	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:139682600-139726000	Weak transcription	HSMMtube	muscle
2	chr3:139700800-139723200	Weak transcription	Ovary	ovary
3	chr3:139714400-139741200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links