Variant report

Variant	rs9843089
Chromosome Location	chr3:158153792-158153793
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 87 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10936129	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11717725	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11719188	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12107103	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12107104	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12494098	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12496767	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12629125	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12629587	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12631196	0.82[ASN][1000 genomes]
rs12632998	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12633594	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12638169	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2176893	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2222326	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2362965	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2362968	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2362969	0.98[ASN][1000 genomes]
rs2362970	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2362972	0.91[ASN][1000 genomes]
rs28578723	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28813180	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28820925	0.97[ASN][1000 genomes]
rs3845981	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4289388	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4309677	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4561872	0.85[ASN][1000 genomes]
rs4679828	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4680426	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4680431	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4680433	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4680434	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4680436	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4680437	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56387731	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs57519456	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs60336101	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6414388	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6414390	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6441188	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6441195	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6441197	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6441198	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6441200	0.88[ASN][1000 genomes]
rs6441201	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs67385174	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6767008	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6772340	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs67761009	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6785063	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6788703	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6797629	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6800887	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6806702	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73170315	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73170348	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7426603	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7430565	0.97[ASN][1000 genomes]
rs7610691	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7610713	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7614259	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7632059	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7639867	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7641954	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7648196	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9809952	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9810345	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9823076	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9827781	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9847045	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9847316	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9847460	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9850856	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9867152	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9867617	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9870802	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9872089	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9872889	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9877909	0.98[ASN][1000 genomes]
rs9879545	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9881630	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002378	chr3:157715428-158673414	Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv916910	chr3:157926799-158183372	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1014381	chr3:158070451-158350118	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1000904	chr3:158094357-158159317	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv1004124	chr3:158146715-158808638	Genic enhancers Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
6	nsv967206	chr3:158149860-158176292	Flanking Active TSS Enhancers Weak transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9843089	RSRC1	Cis_1M	lymphoblastoid	RTeQTL
rs9843089	RSRC1	cis	Esophagus Muscularis	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:158145600-158164600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links