Variant report

Variant	rs9561109
Chromosome Location	chr13:87553689-87553690
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11620198	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12430609	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12583156	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12584162	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12585485	0.99[EUR][1000 genomes]
rs12585659	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2992715	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2996411	0.91[CEU][hapmap]
rs35199018	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4287428	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4309266	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4366593	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4466948	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4495988	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4564442	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61970701	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61970702	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61970728	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61973089	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61973370	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7324982	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7334147	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7985959	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7986098	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7995182	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7996680	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9523290	0.89[EUR][1000 genomes]
rs9556136	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9556142	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9556143	0.95[EUR][1000 genomes]
rs9556144	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9556145	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9556174	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9556192	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9556199	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9556349	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9560921	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9560937	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9561005	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9561008	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9561009	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9561066	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9561095	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9561105	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9561108	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9561122	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9561214	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9561217	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9561221	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9561257	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9561259	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9561261	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9561392	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9561404	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9561408	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047136	chr13:86979109-87555131	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv900763	chr13:87073397-87658986	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv562621	chr13:87192747-87927450	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv900775	chr13:87311967-87658986	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	esv3439251	chr13:87398732-87699077	Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv900776	chr13:87407377-87596606	Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv900777	chr13:87407377-87624393	Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv900778	chr13:87407377-87658986	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv900779	chr13:87443524-87658986	Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv1046278	chr13:87461244-87712231	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv1044991	chr13:87461244-87713936	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv900780	chr13:87492357-87624393	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv900781	chr13:87492357-87658986	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv900782	chr13:87536247-87658986	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv832671	chr13:87539345-87707707	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
16	nsv900783	chr13:87546157-87643970	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
17	nsv900784	chr13:87546157-87647740	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:87547200-87558000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr13:87553000-87553800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr13:87553000-87553800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr13:87553000-87553800	Enhancers	Hela-S3	cervix
5	chr13:87553600-87553800	Active TSS	Sigmoid Colon	Sigmoid Colon

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