Variant report

Variant	rs13039850
Chromosome Location	chr20:24547144-24547145
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1326299	0.86[JPT][hapmap]
rs1409371	0.86[CHD][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs1980821	1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1980822	1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1980823	0.86[JPT][hapmap]
rs35191387	0.94[ASN][1000 genomes]
rs4815278	0.88[CHD][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs4815279	1.00[ASW][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.85[JPT][hapmap];0.83[MEX][hapmap];0.93[ASN][1000 genomes]
rs6036837	0.80[JPT][hapmap]
rs6076237	0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs6076238	0.82[ASN][1000 genomes]
rs6083555	1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AFR][1000 genomes];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6083556	0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6083558	0.86[CHD][hapmap];0.86[JPT][hapmap]
rs6083562	0.86[CHD][hapmap]
rs6138330	0.86[CHD][hapmap]
rs727409	0.91[CHB][hapmap];0.93[CHD][hapmap];0.83[MEX][hapmap]
rs8126241	0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][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	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	esv3332519	chr20:24535099-24815615	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24538800-24570200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr20:24541800-24551600	Weak transcription	Fetal Brain Male	brain
3	chr20:24542200-24552400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr20:24542400-24551800	Weak transcription	Brain Cingulate Gyrus	brain
5	chr20:24543200-24553200	Weak transcription	Brain Substantia Nigra	brain
6	chr20:24545400-24549200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr20:24545400-24553600	Weak transcription	Brain Anterior Caudate	brain
8	chr20:24545400-24554000	Weak transcription	Brain Angular Gyrus	brain
9	chr20:24545800-24555400	Weak transcription	Brain Hippocampus Middle	brain
10	chr20:24546000-24547600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr20:24546400-24548000	Enhancers	Fetal Intestine Large	intestine

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