Variant report

Variant	rs4546069
Chromosome Location	chr20:24727712-24727713
allele	A/C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:24651840..24653392-chr20:24727209..24728729,2	MCF-7	breast:
2	chr20:24726357..24729522-chr20:24732233..24738144,6	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1474777	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4398330	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57111044	1.00[AMR][1000 genomes]
rs57244060	1.00[AMR][1000 genomes]
rs60563133	1.00[AMR][1000 genomes]
rs7270947	1.00[AMR][1000 genomes]
rs73903517	1.00[AMR][1000 genomes]
rs73903518	1.00[AMR][1000 genomes]
rs73903527	1.00[AMR][1000 genomes]
rs73903530	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73903536	1.00[AMR][1000 genomes]
rs73903543	1.00[AMR][1000 genomes]
rs73903553	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73903583	1.00[AMR][1000 genomes]
rs73903949	1.00[AMR][1000 genomes]
rs73903951	1.00[AMR][1000 genomes]
rs73903959	1.00[AMR][1000 genomes]
rs73905444	1.00[AMR][1000 genomes]
rs73905449	1.00[AMR][1000 genomes]
rs8114121	1.00[AMR][1000 genomes]
rs8118505	1.00[AMR][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	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	nsv1061412	chr20:24629468-24887869	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv544216	chr20:24629468-24887869	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1061281	chr20:24711635-24815107	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv544217	chr20:24711635-24815107	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv912825	chr20:24715544-24813345	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24723000-24729000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr20:24724600-24732600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr20:24725200-24727800	Enhancers	Stomach Mucosa	stomach
4	chr20:24726200-24728200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr20:24726400-24727800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr20:24726600-24727800	Enhancers	Duodenum Mucosa	Duodenum
7	chr20:24726600-24727800	Enhancers	Spleen	Spleen
8	chr20:24726600-24728400	Enhancers	Gastric	stomach
9	chr20:24726800-24728200	Enhancers	Placenta	Placenta
10	chr20:24727000-24727800	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr20:24727000-24728200	Flanking Active TSS	Thymus	Thymus
12	chr20:24727400-24728400	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr20:24727400-24734000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr20:24727400-24743400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr20:24727600-24727800	Enhancers	Fetal Kidney	kidney
16	chr20:24727600-24728000	Flanking Active TSS	Fetal Thymus	thymus
17	chr20:24727600-24728000	Weak transcription	Pancreas	Pancrea
18	chr20:24727600-24728200	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr20:24727600-24729200	Flanking Active TSS	Dnd41	blood

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