Variant report

Variant	rs55838720
Chromosome Location	chr9:104350072-104350073
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10512283	0.82[EUR][1000 genomes]
rs10512284	0.82[EUR][1000 genomes]
rs10819954	0.82[EUR][1000 genomes]
rs10819955	0.82[EUR][1000 genomes]
rs10819956	0.82[EUR][1000 genomes]
rs10819958	0.82[EUR][1000 genomes]
rs10819959	0.82[EUR][1000 genomes]
rs10819961	0.82[EUR][1000 genomes]
rs10989572	0.82[EUR][1000 genomes]
rs10989592	0.81[EUR][1000 genomes]
rs12708308	0.80[EUR][1000 genomes]
rs1323427	0.82[EUR][1000 genomes]
rs13289501	0.82[EUR][1000 genomes]
rs1407873	0.82[EUR][1000 genomes]
rs1407874	0.82[EUR][1000 genomes]
rs17189275	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17189562	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17189604	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17189821	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17197124	0.82[EUR][1000 genomes]
rs17774987	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1853447	0.82[EUR][1000 genomes]
rs34888126	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35227408	0.82[EUR][1000 genomes]
rs35569161	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4266702	0.82[EUR][1000 genomes]
rs4442195	0.82[EUR][1000 genomes]
rs55731515	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55749212	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56052939	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56073506	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56246731	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58830774	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6479060	0.81[EUR][1000 genomes]
rs72745350	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72745355	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046975	chr9:104167583-104659873	Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv949579	chr9:104229820-104512923	Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Active TSS 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	14 gene(s)	inside rSNPs	diseases
3	nsv1052492	chr9:104263419-104387782	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv831672	chr9:104300755-104480849	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:104345400-104352000	Weak transcription	A549	lung
2	chr9:104349600-104350200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr9:104350000-104350600	Enhancers	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links