Variant report

Variant	rs552739
Chromosome Location	chr7:80039705-80039706
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10224553	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10227661	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10246082	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10260212	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10262631	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10954165	1.00[EUR][1000 genomes]
rs10954166	1.00[EUR][1000 genomes]
rs17153872	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17153884	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17153898	0.95[EUR][1000 genomes]
rs28436901	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28692526	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4563825	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs471683	1.00[EUR][1000 genomes]
rs471775	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs483336	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs492403	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs496617	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs496621	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs496894	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs503046	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs504899	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs511060	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs512689	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs513740	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs526183	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs526322	0.98[EUR][1000 genomes]
rs531197	1.00[EUR][1000 genomes]
rs533267	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs534997	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs540192	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs553993	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs562467	1.00[EUR][1000 genomes]
rs565166	1.00[EUR][1000 genomes]
rs565829	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs568125	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs570687	1.00[EUR][1000 genomes]
rs573316	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs575195	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57684477	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs577808	1.00[EUR][1000 genomes]
rs581101	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7784820	1.00[EUR][1000 genomes]
rs7785386	1.00[EUR][1000 genomes]
rs7785985	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7790369	0.97[EUR][1000 genomes]
rs7792680	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7792890	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7799056	1.00[EUR][1000 genomes]
rs7800677	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7808977	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv429785	chr7:79589749-80177049	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers 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	9 gene(s)	inside rSNPs	diseases
2	nsv831042	chr7:79984079-80122312	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv464603	chr7:80030601-80064727	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv607679	chr7:80030601-80064727	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv1030961	chr7:80032525-80197468	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv538991	chr7:80032525-80197468	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1031915	chr7:80032898-80087603	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv949205	chr7:80039695-80211200	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:80033800-80041000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr7:80034200-80060200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr7:80039200-80039800	Enhancers	Osteobl	bone
4	chr7:80039200-80043200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr7:80039400-80039800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr7:80039400-80039800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr7:80039400-80040200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr7:80039400-80043000	Enhancers	NHDF-Ad	bronchial
9	chr7:80039600-80040000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links