Variant report

Variant	rs12225488
Chromosome Location	chr11:24611557-24611558
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10742044	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10767216	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10767218	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10834400	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11028036	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12276414	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1509597	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1858156	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4923194	0.81[AMR][1000 genomes]
rs931964	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9633851	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9651584	0.87[ASN][1000 genomes]

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	nsv1055026	chr11:24151133-24737122	Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1037744	chr11:24174588-24737122	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv553820	chr11:24583891-24633951	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv897092	chr11:24609026-24648325	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12225488	CCDC34	cis	parietal	SCAN
rs12225488	ZNF79	trans	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:24610000-24613600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr11:24610000-24614000	Weak transcription	NH-A	brain
3	chr11:24610000-24615000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr11:24610200-24612800	Weak transcription	Hela-S3	cervix
5	chr11:24610200-24613400	Weak transcription	HUVEC	blood vessel

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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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