Variant report

Variant	rs9810290
Chromosome Location	chr3:160573380-160573381
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10513553	0.80[JPT][hapmap]
rs12486979	1.00[YRI][hapmap]
rs12494732	0.87[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12637922	0.89[ASW][hapmap];0.87[GIH][hapmap];0.83[LWK][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap]
rs13073659	1.00[YRI][hapmap]
rs13080397	0.91[CHB][hapmap];0.97[CHD][hapmap];0.89[JPT][hapmap]
rs1598495	0.80[JPT][hapmap]
rs1839017	0.87[CHB][hapmap];0.93[CHD][hapmap];0.87[GIH][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1839019	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2886905	0.89[ASW][hapmap];0.87[GIH][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap]
rs2886909	0.89[ASW][hapmap];0.87[GIH][hapmap];0.86[TSI][hapmap]
rs4256178	0.91[CHB][hapmap];0.89[JPT][hapmap]
rs6781371	0.89[ASW][hapmap];0.87[GIH][hapmap];0.83[LWK][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap]
rs6791128	1.00[YRI][hapmap]
rs6805905	1.00[YRI][hapmap]
rs722871	0.80[JPT][hapmap]
rs7618832	0.80[JPT][hapmap]
rs7633816	1.00[YRI][hapmap]
rs7634342	1.00[YRI][hapmap]
rs7640348	1.00[YRI][hapmap]
rs959960	0.80[GIH][hapmap];0.83[TSI][hapmap]
rs9809208	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.80[MEX][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9815499	0.80[JPT][hapmap]
rs9820796	1.00[YRI][hapmap]
rs9831287	0.90[CHD][hapmap];0.87[ASN][1000 genomes]
rs9833075	0.84[JPT][hapmap]
rs9835634	1.00[YRI][hapmap]
rs9868489	0.80[JPT][hapmap]
rs9869116	0.81[CEU][hapmap];0.91[CHB][hapmap];0.97[CHD][hapmap];0.87[GIH][hapmap];0.89[JPT][hapmap];0.84[TSI][hapmap];0.81[ASN][1000 genomes]
rs9883862	0.89[ASW][hapmap];0.87[GIH][hapmap];0.83[LWK][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap]

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	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1009249	chr3:160496237-160627378	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv536780	chr3:160496237-160627378	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	esv32963	chr3:160555238-160603116	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9810290	PPM1L	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160568400-160576600	Weak transcription	Psoas Muscle	Psoas
2	chr3:160569600-160587800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:160569800-160575000	Weak transcription	Brain Anterior Caudate	brain
4	chr3:160573200-160575200	Weak transcription	Brain Angular Gyrus	brain

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