Variant report

Variant	rs6013974
Chromosome Location	chr20:52944982-52944983
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:52944672..52948060-chr20:52948300..52952949,4	MCF-7	breast:
2	chr20:52943899..52946632-chr9:129566333..129568871,2	MCF-7	breast:
3	chr20:52943484..52945141-chr20:53226820..53229123,2	MCF-7	breast:
4	chr20:52891578..52893729-chr20:52943256..52945368,2	MCF-7	breast:
5	chr20:52872209..52873824-chr20:52943616..52946580,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169155	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs1382013	0.92[EUR][1000 genomes]
rs16999452	0.92[EUR][1000 genomes]
rs16999466	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16999487	0.83[EUR][1000 genomes]
rs16999504	0.83[EUR][1000 genomes]
rs2219733	0.92[EUR][1000 genomes]
rs28373824	0.92[EUR][1000 genomes]
rs28516647	0.92[EUR][1000 genomes]
rs2870321	0.92[EUR][1000 genomes]
rs4289245	0.92[EUR][1000 genomes]
rs4493332	0.92[EUR][1000 genomes]
rs4541294	0.92[EUR][1000 genomes]
rs4599177	0.92[EUR][1000 genomes]
rs4619676	0.92[EUR][1000 genomes]
rs56149353	0.92[EUR][1000 genomes]
rs56268746	0.92[EUR][1000 genomes]
rs58025571	0.92[EUR][1000 genomes]
rs58475917	0.92[EUR][1000 genomes]
rs58894404	0.92[EUR][1000 genomes]
rs59811202	0.92[EUR][1000 genomes]
rs6013973	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6013977	0.92[EUR][1000 genomes]
rs6013980	0.83[EUR][1000 genomes]
rs6013981	0.83[EUR][1000 genomes]
rs6023065	0.84[EUR][1000 genomes]
rs6023077	0.92[EUR][1000 genomes]
rs6023109	0.92[EUR][1000 genomes]
rs6023111	0.92[EUR][1000 genomes]
rs6023113	0.92[EUR][1000 genomes]
rs6023114	0.92[EUR][1000 genomes]
rs6023116	0.92[EUR][1000 genomes]
rs6023118	0.92[EUR][1000 genomes]
rs6023119	0.92[EUR][1000 genomes]
rs6023120	0.92[EUR][1000 genomes]
rs6023124	0.92[EUR][1000 genomes]
rs6023126	0.92[EUR][1000 genomes]
rs6023128	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6023139	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6023144	0.83[EUR][1000 genomes]
rs6097927	0.92[EUR][1000 genomes]
rs723128	0.92[EUR][1000 genomes]
rs7265137	0.92[EUR][1000 genomes]
rs7265354	0.92[EUR][1000 genomes]
rs73137415	0.84[EUR][1000 genomes]
rs73137426	0.92[EUR][1000 genomes]
rs73137431	0.92[EUR][1000 genomes]
rs73137432	0.92[EUR][1000 genomes]
rs73137433	0.92[EUR][1000 genomes]
rs73137434	0.92[EUR][1000 genomes]
rs73137435	0.92[EUR][1000 genomes]
rs73137442	0.84[EUR][1000 genomes]
rs73137444	0.84[EUR][1000 genomes]
rs73137446	0.84[EUR][1000 genomes]
rs73137451	0.84[EUR][1000 genomes]
rs73139406	0.84[EUR][1000 genomes]
rs73139426	0.84[EUR][1000 genomes]
rs73139427	0.92[EUR][1000 genomes]
rs73139465	0.92[EUR][1000 genomes]
rs73139467	0.92[EUR][1000 genomes]
rs73139469	0.92[EUR][1000 genomes]
rs73139472	0.92[EUR][1000 genomes]
rs73139477	0.92[EUR][1000 genomes]
rs7347628	0.92[EUR][1000 genomes]
rs8119798	0.92[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	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:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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