Variant report

Variant	rs6023346
Chromosome Location	chr20:53152150-53152151
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:53149408..53151407-chr20:53151746..53153466,2	MCF-7	breast:
2	chr20:53151757..53155024-chr20:53157486..53161432,6	MCF-7	breast:
3	chr20:53072388..53074660-chr20:53151314..53154004,2	MCF-7	breast:
4	chr20:53136461..53138913-chr20:53151347..53153819,2	MCF-7	breast:
5	chr20:53146553..53148462-chr20:53150458..53152861,2	MCF-7	breast:
6	chr20:53150589..53153407-chr20:53188313..53191169,3	MCF-7	breast:
7	chr20:53148405..53152406-chr20:53153631..53156129,3	MCF-7	breast:
8	chr20:53151691..53153238-chr20:53161258..53162843,2	MCF-7	breast:

No data

No data

No data

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs17326001	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs17326260	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2426538	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs6014046	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6014054	1.00[CEU][hapmap]
rs6014059	1.00[CEU][hapmap]
rs6023341	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes]
rs6023342	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes]
rs6068904	0.80[AMR][1000 genomes]
rs62214422	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs62214423	0.80[AMR][1000 genomes]
rs62214426	0.80[AMR][1000 genomes]
rs66842421	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs67854575	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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	nsv1067497	chr20:53146241-53751820	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:53150800-53152400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr20:53151000-53152400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr20:53151000-53152800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr20:53151200-53153000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr20:53151200-53153000	Enhancers	Fetal Brain Female	brain
6	chr20:53151600-53152800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr20:53151600-53153000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr20:53151600-53153000	Enhancers	Osteobl	bone
9	chr20:53151800-53153000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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Input of quick search could be:

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

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