Variant report

Variant	rs10242326
Chromosome Location	chr7:25526887-25526888
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10230604	0.99[ASN][1000 genomes]
rs10486459	0.99[ASN][1000 genomes]
rs12667972	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12668322	0.91[ASN][1000 genomes]
rs12668343	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12672646	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12673720	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1393675	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17151744	0.92[ASN][1000 genomes]
rs17151747	0.95[ASN][1000 genomes]
rs17151750	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17151753	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17151766	0.91[ASN][1000 genomes]
rs17151770	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61238582	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs731007	0.82[EUR][1000 genomes]
rs73275511	0.94[ASN][1000 genomes]
rs73275554	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7796244	0.91[EUR][1000 genomes];0.94[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	nsv606426	chr7:25254125-25621579	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1016813	chr7:25405859-26150509	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	108 gene(s)	inside rSNPs	diseases
3	nsv538803	chr7:25405859-26150509	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	108 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10242326	HOXA9	cis	cerebellum	SCAN
rs10242326	HOXA3	cis	cerebellum	SCAN
rs10242326	CDCA7L	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:25524000-25528400	Enhancers	Fetal Lung	lung
2	chr7:25526000-25527000	Enhancers	Fetal Stomach	stomach

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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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