Variant report

Variant	rs1915673
Chromosome Location	chr10:52996214-52996215
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10490978	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10822481	0.88[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10822496	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1865645	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1915672	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1915674	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2219884	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3844130	0.92[ASN][1000 genomes]
rs7079584	0.82[ASN][1000 genomes]
rs9943367	0.82[ASN][1000 genomes]
rs9943368	0.82[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	nsv1036645	chr10:52804961-53159076	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	esv2757383	chr10:52995974-53015583	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
3	esv2759750	chr10:52995974-53015583	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1915673	ARHGAP22	cis	cerebellum	SCAN
rs1915673	PRKG1	cis	parietal	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52991200-53003000	Weak transcription	Left Ventricle	heart
2	chr10:52991400-52996600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr10:52992000-53006200	Weak transcription	Aorta	Aorta
4	chr10:52992200-53003600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr10:52992200-53009600	Weak transcription	Stomach Smooth Muscle	stomach
6	chr10:52992800-53002200	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr10:52993000-52998000	Weak transcription	Psoas Muscle	Psoas
8	chr10:52993000-52998200	Weak transcription	Right Atrium	heart
9	chr10:52993000-53003200	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr10:52994000-53003200	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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