Variant report

Variant	rs13085485
Chromosome Location	chr3:20709960-20709961
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12491375	0.95[ASN][1000 genomes]
rs13099390	0.95[ASN][1000 genomes]
rs35758548	0.95[ASN][1000 genomes]
rs35854699	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs55966762	0.95[ASN][1000 genomes]
rs67804786	1.00[ASN][1000 genomes]
rs73029184	0.91[ASN][1000 genomes]
rs73029199	0.91[ASN][1000 genomes]
rs73032710	0.91[ASN][1000 genomes]
rs73032716	0.91[ASN][1000 genomes]
rs73032720	0.91[ASN][1000 genomes]
rs73034907	0.91[ASN][1000 genomes]
rs73036654	0.95[ASN][1000 genomes]
rs73038638	0.95[ASN][1000 genomes]
rs7613035	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001006	chr3:20110743-20752628	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv536512	chr3:20110743-20752628	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv876598	chr3:20242143-20970042	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv876599	chr3:20264950-20813009	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv876603	chr3:20626326-20727885	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv460460	chr3:20638228-20718124	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a
7	nsv589866	chr3:20638228-20718124	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a
8	nsv876604	chr3:20646486-20710994	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:20706000-20710000	Weak transcription	Psoas Muscle	Psoas
2	chr3:20707800-20710000	Weak transcription	Fetal Brain Male	brain
3	chr3:20708000-20711400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr3:20708000-20711600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:20708200-20711600	Enhancers	NHDF-Ad	bronchial
6	chr3:20709000-20710200	Weak transcription	Aorta	Aorta
7	chr3:20709200-20711200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr3:20709200-20711400	Enhancers	Fetal Heart	heart
9	chr3:20709400-20710400	Weak transcription	Adipose Nuclei	Adipose
10	chr3:20709400-20711000	Enhancers	Duodenum Smooth Muscle	Duodenum
11	chr3:20709400-20711000	Enhancers	NH-A	brain
12	chr3:20709400-20711600	Enhancers	Ovary	ovary
13	chr3:20709400-20711600	Enhancers	Skeletal Muscle Male	skeletal muscle
14	chr3:20709400-20712400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr3:20709600-20710600	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr3:20709800-20711400	Enhancers	Brain Germinal Matrix	brain
17	chr3:20709800-20711800	Enhancers	Brain Cingulate Gyrus	brain

Quick Search:

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

what's new

Quick links