Variant report

Variant	rs10789538
Chromosome Location	chr11:106594673-106594674
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10789539	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10890573	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10890574	0.92[ASN][1000 genomes]
rs10890575	0.94[ASN][1000 genomes]
rs11211884	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11211887	0.94[ASN][1000 genomes]
rs11823116	0.93[EUR][1000 genomes]
rs12146527	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12293752	0.89[ASN][1000 genomes]
rs1487903	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1487904	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1487905	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1487906	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1843988	0.97[ASN][1000 genomes]
rs1938622	0.84[EUR][1000 genomes]
rs2171459	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2200658	0.81[AMR][1000 genomes]
rs3763816	0.80[ASN][1000 genomes]
rs3763817	0.97[ASN][1000 genomes]
rs3763818	0.94[ASN][1000 genomes]
rs3858425	0.97[ASN][1000 genomes]
rs3907374	0.84[EUR][1000 genomes]
rs4121519	0.99[ASN][1000 genomes]
rs4121676	0.80[AMR][1000 genomes]
rs4754166	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7482785	0.94[ASN][1000 genomes]
rs7931295	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7942149	0.94[ASN][1000 genomes]
rs996782	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[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	nsv898359	chr11:106523574-106656863	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv898360	chr11:106566114-106598286	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv898361	chr11:106567910-106598286	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10789538	MMP20	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:106552800-106628200	Weak transcription	Pancreas	Pancrea
2	chr11:106583400-106595800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr11:106583600-106598000	Weak transcription	Fetal Brain Male	brain
4	chr11:106589600-106595000	Weak transcription	Dnd41	blood
5	chr11:106594000-106595800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr11:106594600-106595000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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