Variant report

Variant	rs2177651
Chromosome Location	chr7:124305613-124305614
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10243547	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12534746	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12669028	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12669312	0.81[EUR][1000 genomes]
rs12672500	0.82[EUR][1000 genomes]
rs12673211	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12706618	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13246858	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1917358	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34540422	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35922487	0.81[EUR][1000 genomes]
rs4352784	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4728003	0.81[EUR][1000 genomes]
rs4731193	0.81[EUR][1000 genomes]
rs67794080	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs713128	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73221435	0.82[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	nsv429809	chr7:123937674-124835925	Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	49 gene(s)	inside rSNPs	diseases
2	nsv831118	chr7:124172267-124347527	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv275213	chr7:124300969-124311742	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2177651	LMOD2	cis	cerebellum	SCAN
rs2177651	NDUFA5	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:124302000-124307600	Weak transcription	Brain Cingulate Gyrus	brain
2	chr7:124302600-124307400	Weak transcription	Brain Angular Gyrus	brain
3	chr7:124302800-124307400	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr7:124303000-124307600	Weak transcription	Brain Hippocampus Middle	brain
5	chr7:124304200-124307600	Weak transcription	Brain Substantia Nigra	brain
6	chr7:124305200-124307000	Weak transcription	Brain Anterior Caudate	brain

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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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