Variant report

Variant	rs12243859
Chromosome Location	chr10:18740632-18740633
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10764499	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11014267	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11014313	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12247582	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12256244	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56949798	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs12243859	NSUN6	cis	lymphoblastoid	seeQTL
rs12243859	RPP38	cis	parietal	SCAN
rs12243859	C10orf140	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18732000-18744200	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr10:18732400-18801600	Weak transcription	Pancreas	Pancrea
3	chr10:18739000-18741400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr10:18739000-18741800	Weak transcription	Placenta	Placenta
5	chr10:18739000-18744000	Weak transcription	Ovary	ovary
6	chr10:18739000-18744800	Weak transcription	Right Ventricle	heart
7	chr10:18739000-18752600	Weak transcription	Right Atrium	heart
8	chr10:18739000-18761000	Weak transcription	Colon Smooth Muscle	Colon
9	chr10:18739800-18745400	Weak transcription	Left Ventricle	heart
10	chr10:18740600-18744200	Enhancers	Fetal Heart	heart

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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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