Variant report

Variant	rs12913779
Chromosome Location	chr15:79032355-79032356
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	chr15:78910640..78911433-chr15:79032225..79033403,4	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11072799	0.87[EUR][1000 genomes]
rs11072800	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11629639	0.83[EUR][1000 genomes]
rs11632672	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11633152	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11852887	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11852909	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11856441	0.87[EUR][1000 genomes]
rs12148817	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12899201	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12901228	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12904489	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12906022	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12906165	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12906835	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12906847	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12906977	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12907207	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12907432	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12907536	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12910831	0.84[AMR][1000 genomes]
rs12912245	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12917502	0.87[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1383634	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1383635	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1809412	0.84[EUR][1000 genomes]
rs1809414	0.87[EUR][1000 genomes]
rs1814880	0.83[EUR][1000 genomes]
rs1825086	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1904920	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2017091	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2017297	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2219939	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2622821	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4887091	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4887092	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs71402966	0.91[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs71402967	0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7176070	0.95[EUR][1000 genomes]
rs7182567	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7182694	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7182993	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs755998	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8030090	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8030335	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs899997	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917303	chr15:78491050-79205255	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	122 gene(s)	inside rSNPs	diseases
2	nsv974606	chr15:78996783-79048337	Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv904431	chr15:79006442-79155088	Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:79029800-79032800	Weak transcription	Spleen	Spleen
2	chr15:79030600-79032400	Weak transcription	Stomach Smooth Muscle	stomach
3	chr15:79030600-79032600	Weak transcription	Right Ventricle	heart
4	chr15:79030600-79032600	Weak transcription	K562	blood
5	chr15:79030800-79032600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr15:79031000-79032600	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr15:79031200-79033000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr15:79031200-79033000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr15:79031400-79033000	Enhancers	NHEK	skin
10	chr15:79031600-79032600	Weak transcription	HMEC	breast
11	chr15:79031600-79032800	Enhancers	Stomach Mucosa	stomach
12	chr15:79031600-79033000	Enhancers	A549	lung
13	chr15:79031800-79032600	Weak transcription	Gastric	stomach
14	chr15:79031800-79033000	Enhancers	Esophagus	oesophagus
15	chr15:79031800-79033800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr15:79032000-79032400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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