Variant report

Variant	rs10964943
Chromosome Location	chr9:21265633-21265634
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs10116540	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10116936	0.92[ASN][1000 genomes]
rs10117202	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10120117	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10122881	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10124167	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10124609	0.85[EUR][1000 genomes]
rs10738591	0.95[EUR][1000 genomes]
rs10811497	0.87[EUR][1000 genomes]
rs10811508	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10811509	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10811514	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10811527	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10811529	0.93[EUR][1000 genomes]
rs10964918	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10964928	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10964929	0.90[EUR][1000 genomes]
rs10964930	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10964932	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10964933	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10964934	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10964952	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10964957	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10964959	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10964961	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1112783	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12551190	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12552812	0.91[EUR][1000 genomes]
rs12553763	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12553910	0.89[EUR][1000 genomes]
rs12555749	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1330312	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1330314	0.93[EUR][1000 genomes]
rs1330317	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1411436	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1590897	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1590898	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1928854	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1928855	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1928856	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1952690	0.95[EUR][1000 genomes]
rs2007448	0.87[EUR][1000 genomes]
rs2225329	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28437205	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2988573	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2988574	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2990140	0.88[EUR][1000 genomes]
rs3855766	0.83[EUR][1000 genomes]
rs3955236	0.83[EUR][1000 genomes]
rs4007646	0.86[EUR][1000 genomes]
rs4112794	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4568686	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4582643	0.91[EUR][1000 genomes]
rs4628333	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4977714	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4978069	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56035072	0.88[EUR][1000 genomes]
rs57122438	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs57146220	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs57371737	0.89[EUR][1000 genomes]
rs583396	0.89[EUR][1000 genomes]
rs597440	0.86[EUR][1000 genomes]
rs604762	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs612966	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs614541	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs618507	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs637700	0.89[EUR][1000 genomes]
rs6475510	0.86[EUR][1000 genomes]
rs6475527	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs653778	0.82[EUR][1000 genomes]
rs660675	0.86[EUR][1000 genomes]
rs667214	0.88[EUR][1000 genomes]
rs667635	0.88[EUR][1000 genomes]
rs681680	0.89[EUR][1000 genomes]
rs7032044	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7043560	0.87[EUR][1000 genomes]
rs7046898	0.87[EUR][1000 genomes]
rs7047240	0.87[EUR][1000 genomes]
rs7047351	0.82[EUR][1000 genomes]
rs73418252	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs768848	0.87[EUR][1000 genomes]
rs768849	0.87[EUR][1000 genomes]
rs7848803	0.92[EUR][1000 genomes]
rs7849902	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7852809	0.87[EUR][1000 genomes]
rs7856345	0.85[EUR][1000 genomes]
rs7857863	0.91[EUR][1000 genomes]
rs7866359	0.85[EUR][1000 genomes]
rs7866640	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817218	chr9:20687769-21309177	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv892724	chr9:20690244-21517302	Genic enhancers Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases
3	nsv892734	chr9:21108817-21323089	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv1035128	chr9:21196300-21269669	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	esv2761295	chr9:21258108-21281544	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
6	esv3447912	chr9:21260652-21290903	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv430006	chr9:21262516-21280782	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21264800-21268600	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr9:21265200-21265800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr9:21265400-21266800	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr9:21265600-21265800	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
5	chr9:21265600-21266000	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr9:21265600-21266000	Enhancers	Fetal Thymus	thymus
7	chr9:21265600-21267200	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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