Variant report

Variant	rs6023183
Chromosome Location	chr20:53003649-53003650
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:52882145..52883756-chr20:53001250..53003874,2	MCF-7	breast:
2	chr20:53003063..53004899-chr20:53016159..53019107,3	MCF-7	breast:
3	chr1:156718338..156720485-chr20:53003290..53005708,2	MCF-7	breast:
4	chr20:53001713..53004183-chr20:53005864..53007404,2	K562	blood:
5	chr20:53003557..53006099-chr20:53022424..53024577,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143294	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1007393	0.90[ASN][1000 genomes]
rs1014808	0.94[ASN][1000 genomes]
rs1321464	0.84[ASN][1000 genomes]
rs1321465	0.84[ASN][1000 genomes]
rs1321468	0.84[ASN][1000 genomes]
rs1358806	0.98[ASN][1000 genomes]
rs1358807	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1407043	0.91[ASN][1000 genomes]
rs1590206	0.97[ASN][1000 genomes]
rs16999597	0.89[ASN][1000 genomes]
rs1841860	0.86[ASN][1000 genomes]
rs1923118	0.90[ASN][1000 genomes]
rs2126676	0.87[ASN][1000 genomes]
rs28648440	0.85[EUR][1000 genomes]
rs2870329	0.98[ASN][1000 genomes]
rs56881371	0.81[ASN][1000 genomes]
rs6013997	0.91[ASN][1000 genomes]
rs6013999	0.90[ASN][1000 genomes]
rs6014003	0.90[ASN][1000 genomes]
rs6014004	0.89[ASN][1000 genomes]
rs6014005	0.89[ASN][1000 genomes]
rs6014011	0.83[ASN][1000 genomes]
rs6014013	0.82[ASN][1000 genomes]
rs6023153	0.81[ASN][1000 genomes]
rs6023154	0.81[ASN][1000 genomes]
rs6023155	0.83[ASN][1000 genomes]
rs6023156	0.83[ASN][1000 genomes]
rs6023158	0.83[ASN][1000 genomes]
rs6023178	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6023179	0.95[ASN][1000 genomes]
rs6023180	0.90[ASN][1000 genomes]
rs6023181	0.95[ASN][1000 genomes]
rs6023185	0.88[ASN][1000 genomes]
rs6023189	0.91[ASN][1000 genomes]
rs6023192	0.89[ASN][1000 genomes]
rs6023193	0.89[ASN][1000 genomes]
rs6023197	0.98[ASN][1000 genomes]
rs6023203	0.90[ASN][1000 genomes]
rs6023227	0.84[ASN][1000 genomes]
rs6091856	0.86[ASN][1000 genomes]
rs6097934	0.81[ASN][1000 genomes]
rs6097939	0.82[ASN][1000 genomes]
rs6097940	0.81[ASN][1000 genomes]
rs6097941	0.81[ASN][1000 genomes]
rs6097955	0.97[ASN][1000 genomes]
rs6097957	0.98[ASN][1000 genomes]
rs6097963	0.89[ASN][1000 genomes]
rs6097964	0.97[ASN][1000 genomes]
rs6097967	0.97[ASN][1000 genomes]
rs793033	0.86[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	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases
2	nsv834011	chr20:52858341-53086042	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases
3	nsv834012	chr20:52921007-53097177	Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:53001800-53004400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr20:53002600-53004200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr20:53002600-53017600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr20:53003000-53004000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links