Variant report

Variant	rs6479425
Chromosome Location	chr9:95345310-95345311
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10115976	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10117603	0.86[EUR][1000 genomes]
rs10820973	0.81[EUR][1000 genomes]
rs10820978	0.82[EUR][1000 genomes]
rs10820982	0.87[EUR][1000 genomes]
rs10820995	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10992348	0.82[EUR][1000 genomes]
rs10992350	0.82[EUR][1000 genomes]
rs10992359	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12347857	0.86[EUR][1000 genomes]
rs12350198	0.87[EUR][1000 genomes]
rs12378023	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1951849	0.81[EUR][1000 genomes]
rs4744140	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56168105	0.85[EUR][1000 genomes]
rs7027998	0.87[EUR][1000 genomes]
rs7036459	0.91[EUR][1000 genomes]
rs7037068	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7862677	0.87[EUR][1000 genomes]
rs7872739	0.81[EUR][1000 genomes]
rs7875681	0.86[EUR][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	nsv893573	chr9:94974188-95355719	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv1047337	chr9:95105638-95347484	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv1052846	chr9:95291909-95366109	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs6479425	CENPP	cis	Esophagus Muscularis	GTEx
rs6479425	CENPP	cis	Artery Aorta	GTEx
rs6479425	CENPP	cis	Artery Tibial	GTEx
rs6479425	CENPP	cis	Muscle Skeletal	GTEx
rs6479425	CENPP	cis	Nerve Tibial	GTEx
rs6479425	CENPP	cis	Adipose Subcutaneous	GTEx
rs6479425	CENPP	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95344400-95345600	Enhancers	Ovary	ovary

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Input of quick search could be:

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

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