Variant report

Variant	rs2892216
Chromosome Location	chr20:24617039-24617040
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	chr20:24616131..24617827-chr20:24647064..24649863,2	MCF-7	breast:
2	chr20:24610034..24611986-chr20:24615289..24617855,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs12480522	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12481129	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12481146	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17250068	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17823746	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1883923	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1887057	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2024608	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2026566	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2179800	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4813523	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4813524	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4815282	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4815286	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4815287	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4815288	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4815289	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4815290	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4815291	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55770994	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58949684	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6036849	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6036851	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6036854	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs60869925	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7268862	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73345329	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73345369	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73345393	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8118304	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][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	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	esv3332519	chr20:24535099-24815615	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv912824	chr20:24612808-24639916	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24613400-24618000	Enhancers	iPS-18 Cell Line	embryonic stem cell
2	chr20:24613800-24618000	Enhancers	H9 Cell Line	embryonic stem cell
3	chr20:24614000-24619400	Weak transcription	Gastric	stomach
4	chr20:24614200-24619200	Weak transcription	Aorta	Aorta
5	chr20:24614600-24619800	Weak transcription	Esophagus	oesophagus
6	chr20:24614800-24617800	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr20:24614800-24617800	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr20:24615000-24617800	Enhancers	H1 Cell Line	embryonic stem cell
9	chr20:24615200-24617400	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr20:24615200-24617800	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr20:24615200-24620200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr20:24615400-24617400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr20:24615400-24633800	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr20:24615600-24619400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr20:24615800-24617200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr20:24616200-24618400	Weak transcription	Fetal Thymus	thymus
17	chr20:24616200-24619000	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr20:24616200-24619600	Weak transcription	Brain Cingulate Gyrus	brain
19	chr20:24616200-24639600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr20:24616400-24630200	Weak transcription	Brain Angular Gyrus	brain
21	chr20:24616600-24617600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr20:24616600-24618200	Weak transcription	Brain Substantia Nigra	brain
23	chr20:24616600-24618400	Weak transcription	A549	lung
24	chr20:24616600-24619400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr20:24616800-24619200	Weak transcription	Brain Hippocampus Middle	brain
26	chr20:24617000-24617600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

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