Variant report

Variant	rs6899232
Chromosome Location	chr5:117914868-117914869
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	chr5:117911515..117913042-chr5:117914826..117917481,2	MCF-7	breast:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs2217396	0.86[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs57480014	1.00[EUR][1000 genomes]
rs57716066	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59444512	0.91[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs59609311	0.98[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs60003131	0.98[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs60150005	1.00[EUR][1000 genomes]
rs60937030	0.98[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs6595147	0.93[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs6858980	0.86[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs6860526	0.86[AFR][1000 genomes]
rs6868251	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6872428	0.88[EUR][1000 genomes]
rs6876252	0.98[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs6878364	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs6879873	0.86[AFR][1000 genomes]
rs6880410	0.98[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs6891112	0.88[EUR][1000 genomes]
rs6897820	0.98[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs6898763	0.86[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs6898917	0.86[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73234333	1.00[EUR][1000 genomes]
rs73234339	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73234341	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73234349	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73234352	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73234358	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73234360	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73234362	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73234365	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73234366	0.93[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73234370	0.91[AFR][1000 genomes]
rs73234375	0.98[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73234376	0.98[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73236250	0.98[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73236252	0.98[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73236255	0.98[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73251230	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7703116	0.98[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs7731955	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs7731988	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs7732518	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7737909	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs995881	0.86[AFR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:24 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027428	chr5:117072745-118036353	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv537877	chr5:117072745-118036353	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv1067621	chr5:117102544-118036352	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	nsv531292	chr5:117102544-118036352	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv432802	chr5:117612408-117921244	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	esv2758013	chr5:117664725-117942247	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	esv2759373	chr5:117664725-117942247	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
8	nsv462422	chr5:117740545-118020706	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
9	nsv599529	chr5:117740545-118020706	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
10	nsv427731	chr5:117781143-118023504	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
11	nsv1021863	chr5:117832733-117955524	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
12	nsv462424	chr5:117843869-117955570	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
13	nsv599539	chr5:117843869-117955570	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
14	nsv462425	chr5:117843869-117967472	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
15	nsv599540	chr5:117843869-117967472	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
16	nsv599541	chr5:117869174-118049776	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
17	nsv882764	chr5:117884766-118014946	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
18	nsv1027667	chr5:117891559-118036578	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
19	nsv882765	chr5:117893138-118020617	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
20	nsv882766	chr5:117893138-118032245	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
21	nsv1034379	chr5:117900051-118027895	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
22	nsv537880	chr5:117900051-118027895	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
23	nsv1032241	chr5:117900051-118157400	Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
24	nsv1020086	chr5:117901084-118013265	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:117907400-117915800	Weak transcription	Ovary	ovary
2	chr5:117913200-117915600	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr5:117913400-117915600	Enhancers	HSMMtube	muscle
4	chr5:117914400-117916000	Enhancers	Psoas Muscle	Psoas
5	chr5:117914600-117915800	Weak transcription	Right Atrium	heart
6	chr5:117914600-117916000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr5:117914600-117916000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr5:117914600-117916200	Weak transcription	Fetal Lung	lung
9	chr5:117914800-117915800	Weak transcription	Fetal Muscle Leg	muscle

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