Variant report

Variant	rs2424643
Chromosome Location	chr20:24718438-24718439
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:24716951..24718615-chr20:24720507..24722408,2	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1007135	0.83[ASN][1000 genomes]
rs1007136	0.83[ASN][1000 genomes]
rs10427467	0.83[ASN][1000 genomes]
rs1474776	0.83[ASN][1000 genomes]
rs1535065	0.83[ASN][1000 genomes]
rs1535066	0.83[ASN][1000 genomes]
rs1569756	0.83[ASN][1000 genomes]
rs2424642	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2424647	0.83[ASN][1000 genomes]
rs2424648	0.83[ASN][1000 genomes]
rs2424651	0.83[ASN][1000 genomes]
rs2424652	0.83[ASN][1000 genomes]
rs2424653	0.83[ASN][1000 genomes]
rs2424654	0.83[ASN][1000 genomes]
rs2424655	0.83[ASN][1000 genomes]
rs2424656	0.83[ASN][1000 genomes]
rs2424657	0.83[ASN][1000 genomes]
rs2424658	0.83[ASN][1000 genomes]
rs2424659	0.83[ASN][1000 genomes]
rs2424677	0.83[ASN][1000 genomes]
rs2424679	0.83[ASN][1000 genomes]
rs2424680	0.83[ASN][1000 genomes]
rs4239750	0.83[ASN][1000 genomes]
rs4813531	0.83[ASN][1000 genomes]
rs4813532	0.83[ASN][1000 genomes]
rs4813534	0.83[ASN][1000 genomes]
rs4813535	0.83[ASN][1000 genomes]
rs4815304	0.83[ASN][1000 genomes]
rs4815305	0.83[ASN][1000 genomes]
rs4815306	0.83[ASN][1000 genomes]
rs6036899	0.83[ASN][1000 genomes]
rs6036900	0.83[ASN][1000 genomes]
rs6036903	0.83[ASN][1000 genomes]
rs6049940	0.83[ASN][1000 genomes]
rs6049941	0.83[ASN][1000 genomes]
rs6049942	0.83[ASN][1000 genomes]
rs6049944	0.83[ASN][1000 genomes]
rs6049945	0.83[ASN][1000 genomes]
rs6049947	0.83[ASN][1000 genomes]
rs6049949	0.83[ASN][1000 genomes]
rs6049951	0.83[ASN][1000 genomes]
rs6076273	0.83[ASN][1000 genomes]
rs6083603	0.83[ASN][1000 genomes]
rs6083604	0.83[ASN][1000 genomes]
rs6083605	0.83[ASN][1000 genomes]
rs6106941	0.83[ASN][1000 genomes]
rs6114860	0.83[ASN][1000 genomes]
rs6114861	0.83[ASN][1000 genomes]
rs61190607	0.83[ASN][1000 genomes]
rs62216905	0.83[ASN][1000 genomes]
rs910242	0.83[ASN][1000 genomes]
rs926710	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs926711	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs971956	0.83[ASN][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:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24715200-24719000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr20:24716200-24723800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr20:24717000-24719800	Weak transcription	Colon Smooth Muscle	Colon
4	chr20:24717000-24719800	Weak transcription	Stomach Smooth Muscle	stomach
5	chr20:24717400-24718600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr20:24717400-24727600	Enhancers	Fetal Thymus	thymus
7	chr20:24718000-24718800	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr20:24718200-24723400	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr20:24718400-24718600	Flanking Active TSS	Spleen	Spleen
10	chr20:24718400-24719000	Genic enhancers	Thymus	Thymus
11	chr20:24718400-24723800	Weak transcription	HUES6 Cell Line	embryonic stem cell

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