Variant report

Variant	rs1459908
Chromosome Location	chr3:67776001-67776002
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1037819	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1037820	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11717401	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11720476	0.84[EUR][1000 genomes]
rs11924244	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11924309	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11925909	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12630936	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1459904	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1459905	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1459906	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1459909	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17046864	0.84[EUR][1000 genomes]
rs2125811	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2362439	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4856797	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4856798	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4856881	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4856882	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4856885	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs55833751	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6548740	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6548748	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6802973	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7614322	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7617263	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7617448	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7627435	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7632493	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7637890	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7649792	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9832460	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9843013	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9881852	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[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	nsv470638	chr3:67367341-67814738	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers 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	10 gene(s)	inside rSNPs	diseases
2	esv3359258	chr3:67589615-67828274	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1459908	GPR27	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:67721400-67800400	Weak transcription	Left Ventricle	heart
2	chr3:67775000-67778400	Weak transcription	Liver	Liver
3	chr3:67775800-67777000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:67775800-67777400	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr3:67775800-67790200	Weak transcription	Psoas Muscle	Psoas
6	chr3:67776000-67776200	Enhancers	iPS-18 Cell Line	embryonic stem cell

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