Variant report

Variant	rs1562989
Chromosome Location	chr16:80618037-80618038
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs2316156	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2316157	0.86[EUR][1000 genomes]
rs4516240	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4547350	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7202869	0.83[EUR][1000 genomes]
rs7405439	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9927579	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9932574	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv907001	chr16:80405292-80620611	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1060621	chr16:80532848-80980616	Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv542989	chr16:80532848-80980616	Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:80612200-80618600	Weak transcription	Small Intestine	intestine
2	chr16:80615600-80619800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr16:80615800-80619600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr16:80615800-80624800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr16:80616200-80619800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr16:80616600-80619800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr16:80617000-80618200	Enhancers	HSMM	muscle
8	chr16:80617200-80618200	Enhancers	Muscle Satellite Cultured Cells	--
9	chr16:80617200-80618200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr16:80617200-80618400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr16:80617200-80620800	Enhancers	GM12878-XiMat	blood
12	chr16:80617800-80618200	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr16:80618000-80618200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chr16:80618000-80620000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr16:80618000-80620600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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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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