Variant report

Variant	rs10519584
Chromosome Location	chr4:142020902-142020903
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10008705	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs12509440	1.00[CEU][hapmap];0.96[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs1395668	0.89[EUR][1000 genomes]
rs1395669	0.89[EUR][1000 genomes]
rs1873370	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs3913899	1.00[CEU][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4267811	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs4386678	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs4629541	1.00[CEU][hapmap];0.96[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs4637487	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4956512	0.85[EUR][1000 genomes]
rs4956513	0.89[EUR][1000 genomes]
rs4956514	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs4956517	0.83[GIH][hapmap]
rs4956518	0.82[GIH][hapmap];0.82[MEX][hapmap]
rs62324901	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62324902	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6537030	1.00[CEU][hapmap];0.96[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs6817313	0.89[EUR][1000 genomes]
rs6826231	0.89[EUR][1000 genomes]
rs6831578	0.89[EUR][1000 genomes]
rs6856997	0.81[EUR][1000 genomes]
rs7658695	0.82[EUR][1000 genomes]
rs7683490	1.00[CEU][hapmap];0.96[GIH][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7697519	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9790672	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs9790673	1.00[CEU][hapmap];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880167	chr4:141616979-142092124	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv880169	chr4:142005573-142038481	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10519584	MGST2	cis	cerebellum	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:142000800-142031600	Weak transcription	Right Ventricle	heart
2	chr4:142003600-142021000	Weak transcription	Fetal Kidney	kidney
3	chr4:142010400-142027600	Weak transcription	Left Ventricle	heart
4	chr4:142013000-142040400	Weak transcription	Psoas Muscle	Psoas
5	chr4:142018400-142025800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr4:142018600-142023400	Weak transcription	Colon Smooth Muscle	Colon
7	chr4:142019800-142022800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr4:142020000-142021000	Weak transcription	Fetal Heart	heart
9	chr4:142020400-142021000	Enhancers	NH-A	brain
10	chr4:142020800-142023200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr4:142020800-142023200	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr4:142020800-142023400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr4:142020800-142023400	Weak transcription	Osteobl	bone

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