Variant report

Variant	rs11999498
Chromosome Location	chr9:118640221-118640222
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	chr20:55549199..55549703-chr9:118639807..118640307,2	MCF-7	breast:

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10113886	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10113904	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10116122	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10116160	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10116601	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10116987	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10117171	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10118912	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10119888	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10120459	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10120876	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10121606	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10121783	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10123463	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10982960	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10982966	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10982969	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12341376	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12341579	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12552114	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12552132	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12552154	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12554711	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28396580	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28411999	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28581252	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60501683	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62577106	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62577108	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62577115	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62577116	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7020520	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7020729	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7024386	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7040535	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7040682	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs766102	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7855732	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7856951	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7857231	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7861659	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7866076	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7866714	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7869374	0.88[AMR][1000 genomes]
rs7874609	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7875310	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7875546	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs966955	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9987648	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9987812	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9987941	0.98[AMR][1000 genomes];0.93[EUR][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	nsv948346	chr9:118107565-118718197	Enhancers Bivalent Enhancer Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv1046948	chr9:118185587-118926891	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv916622	chr9:118206309-118952390	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv540207	chr9:118206311-118920304	Enhancers Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv491661	chr9:118206312-118802177	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv831699	chr9:118457011-118641819	Enhancers Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv1050714	chr9:118619303-118690263	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:118640000-118640800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:118640200-118640400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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