Variant report

Variant	rs7620377
Chromosome Location	chr3:159083511-159083512
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs11917412	1.00[CEU][hapmap]
rs11917829	0.88[CEU][hapmap]
rs11920486	0.94[CEU][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12696092	1.00[CEU][hapmap]
rs13059800	0.82[CEU][hapmap]
rs13060178	0.81[CEU][hapmap]
rs13061579	1.00[CEU][hapmap]
rs13061619	1.00[CEU][hapmap]
rs13065679	1.00[CEU][hapmap]
rs13066122	0.94[CEU][hapmap]
rs13070853	0.93[CEU][hapmap]
rs13071140	0.93[CEU][hapmap]
rs13072096	0.83[CEU][hapmap]
rs13075790	1.00[CEU][hapmap]
rs13077258	1.00[CEU][hapmap]
rs13079265	0.83[CEU][hapmap]
rs13080892	0.94[CEU][hapmap]
rs13083244	1.00[CEU][hapmap];0.83[GIH][hapmap]
rs13083408	0.83[CEU][hapmap]
rs13083887	0.93[CEU][hapmap]
rs13085008	1.00[CEU][hapmap]
rs13085667	1.00[CEU][hapmap]
rs13091349	0.83[CEU][hapmap]
rs13095658	0.93[CEU][hapmap]
rs1448996	1.00[CEU][hapmap];0.83[GIH][hapmap]
rs1449002	0.94[CEU][hapmap]
rs17795417	1.00[CEU][hapmap]
rs1839219	1.00[CEU][hapmap]
rs1906951	1.00[CEU][hapmap]
rs2886480	1.00[CEU][hapmap]
rs34202807	1.00[EUR][1000 genomes]
rs34566304	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35342196	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35556756	0.91[EUR][1000 genomes]
rs35922036	0.88[EUR][1000 genomes]
rs4328854	0.83[CEU][hapmap]
rs56264622	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs59583574	1.00[EUR][1000 genomes]
rs61378344	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61794665	0.92[EUR][1000 genomes]
rs61794673	0.88[EUR][1000 genomes]
rs61795455	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6781001	0.83[CEU][hapmap]
rs6781285	0.94[CEU][hapmap]
rs6784143	1.00[CEU][hapmap]
rs7631740	0.94[CEU][hapmap]
rs7644770	1.00[CEU][hapmap]
rs870852	0.94[CEU][hapmap];0.87[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9848338	1.00[CEU][hapmap]
rs9848831	1.00[CEU][hapmap]
rs9968056	0.83[CEU][hapmap]

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	nsv530059	chr3:158332590-159147549	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv470971	chr3:158590928-159158217	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
3	nsv998949	chr3:158774806-159394550	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7620377	C3orf57	cis	cerebellum	SCAN
rs7620377	TRIM59	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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

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