Variant report

Variant	rs13316599
Chromosome Location	chr3:45819125-45819126
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs56404048	1.00[AMR][1000 genomes]
rs57013034	1.00[AMR][1000 genomes]
rs58213273	0.83[AMR][1000 genomes]
rs6778381	0.83[AMR][1000 genomes]
rs6780893	0.83[AMR][1000 genomes]
rs72882544	0.83[AMR][1000 genomes]
rs73830443	1.00[AMR][1000 genomes]
rs73830463	1.00[AMR][1000 genomes]
rs9827350	0.83[AMR][1000 genomes]
rs9850601	0.83[AMR][1000 genomes]
rs9860832	1.00[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv876735	chr3:45764246-45832052	Weak transcription Strong transcription Enhancers Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv834678	chr3:45804294-46010256	Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:45814200-45820600	Enhancers	Fetal Intestine Large	intestine
2	chr3:45815600-45823200	Genic enhancers	Fetal Intestine Small	intestine
3	chr3:45816800-45820200	Weak transcription	Small Intestine	intestine
4	chr3:45817400-45833600	Weak transcription	Pancreas	Pancrea
5	chr3:45818000-45819400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr3:45818400-45819400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:45818400-45822800	Weak transcription	Thymus	Thymus
8	chr3:45818400-45823000	Enhancers	Duodenum Mucosa	Duodenum
9	chr3:45818600-45820200	Weak transcription	Liver	Liver
10	chr3:45818600-45821400	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr3:45818600-45821600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr3:45818600-45822000	Weak transcription	Fetal Lung	lung
13	chr3:45819000-45819200	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr3:45819000-45820400	Weak transcription	Rectal Mucosa Donor 29	rectum

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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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