Variant report

Variant	rs2840
Chromosome Location	chr20:53267576-53267577
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:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:52813240..52815097-chr20:53265630..53268256,2	MCF-7	breast:
2	chr20:53267329..53270165-chr20:53282445..53284109,2	MCF-7	breast:
3	chr20:53265522..53267786-chr20:53285191..53286958,2	MCF-7	breast:
4	chr20:52874919..52877914-chr20:53265478..53267845,2	MCF-7	breast:
5	chr20:53264843..53266677-chr20:53266709..53268595,2	MCF-7	breast:
6	chr20:52813822..52828208-chr20:53257867..53268573,36	MCF-7	breast:
7	chr17:56734864..56737981-chr20:53266638..53268279,3	MCF-7	breast:
8	chr20:53266052..53267809-chr3:64513514..64515079,2	MCF-7	breast:
9	chr17:62398813..62401406-chr20:53265428..53267653,2	MCF-7	breast:
10	chr20:53263266..53270310-chr20:53278109..53284478,8	MCF-7	breast:
11	chr20:53265389..53267623-chr20:53296471..53298044,17	MCF-7	breast:
12	chr20:52821463..52842130-chr20:53255769..53272087,93	MCF-7	breast:
13	chr20:53265255..53267860-chr3:64509597..64511868,2	MCF-7	breast:
14	chr20:53265628..53267769-chr20:53342567..53344182,16	MCF-7	breast:
15	chr20:52830354..52840699-chr20:53260794..53267992,26	MCF-7	breast:
16	chr10:63536527..63537120-chr20:53267181..53267986,2	MCF-7	breast:
17	chr20:53264816..53267963-chr3:64518109..64521238,5	MCF-7	breast:
18	chr20:52676834..52679503-chr20:53266669..53268779,2	MCF-7	breast:

No data

No data

No data

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs6014105	0.86[CEU][hapmap]
rs6068929	0.82[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 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
3	nsv1064144	chr20:53175264-53750137	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
4	nsv544302	chr20:53175264-53750137	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
5	nsv1060552	chr20:53234716-53655115	Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	54 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:53242400-53270200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr20:53265800-53268200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr20:53266000-53268200	Enhancers	Brain Germinal Matrix	brain
4	chr20:53266200-53267600	Enhancers	NHDF-Ad	bronchial
5	chr20:53266200-53267800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr20:53266200-53267800	Enhancers	NHLF	lung
7	chr20:53266200-53268000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr20:53266200-53269000	Enhancers	Fetal Lung	lung
9	chr20:53266200-53270800	Weak transcription	Ovary	ovary
10	chr20:53266800-53267800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr20:53266800-53276000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr20:53267000-53270800	Weak transcription	Fetal Brain Female	brain
13	chr20:53267000-53277200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr20:53267200-53270800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr20:53267200-53270800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr20:53267200-53270800	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr20:53267200-53270800	Weak transcription	Fetal Brain Male	brain
18	chr20:53267400-53270600	Weak transcription	Fetal Stomach	stomach

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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