Variant report

Variant	rs58519993
Chromosome Location	chr6:77499766-77499767
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1011537	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1335428	0.80[ASN][1000 genomes]
rs1381670	0.85[ASN][1000 genomes]
rs1381671	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1381673	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1457944	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1457945	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1463536	0.85[ASN][1000 genomes]
rs16888079	1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1824642	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs4706634	0.85[ASN][1000 genomes]
rs4706635	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs57550972	0.89[AMR][1000 genomes]
rs6907328	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6908609	0.85[ASN][1000 genomes]
rs6921448	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7751987	0.85[ASN][1000 genomes]
rs7769300	0.85[ASN][1000 genomes]
rs9294028	0.85[ASN][1000 genomes]
rs9341608	0.80[ASN][1000 genomes]
rs936499	0.85[ASN][1000 genomes]

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	nsv1019520	chr6:77355212-77875164	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv538321	chr6:77355212-77875164	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv886218	chr6:77415155-77500526	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv886220	chr6:77415155-77505717	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv886219	chr6:77415155-77515516	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	4 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	chr6:77498600-77500000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:77498600-77500000	ZNF genes & repeats	Fetal Intestine Small	intestine
3	chr6:77498800-77500200	Enhancers	Pancreas	Pancrea
4	chr6:77499000-77501600	Enhancers	Fetal Intestine Large	intestine
5	chr6:77499200-77500000	Flanking Active TSS	Stomach Mucosa	stomach
6	chr6:77499200-77501000	Enhancers	Duodenum Mucosa	Duodenum
7	chr6:77499200-77501000	Enhancers	Rectal Mucosa Donor 31	rectum
8	chr6:77499400-77499800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
9	chr6:77499400-77499800	Enhancers	Sigmoid Colon	Sigmoid Colon
10	chr6:77499400-77500000	Enhancers	Colonic Mucosa	Colon
11	chr6:77499400-77500000	Enhancers	Placenta	Placenta
12	chr6:77499600-77499800	Flanking Active TSS	Liver	Liver
13	chr6:77499600-77500000	Flanking Active TSS	HepG2	liver
14	chr6:77499600-77530800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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

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