Variant report

Variant	rs13390825
Chromosome Location	chr2:55152587-55152588
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10176018	0.83[AFR][1000 genomes]
rs13391802	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13429780	0.82[AFR][1000 genomes]
rs17346218	1.00[ASN][1000 genomes]
rs3769326	1.00[CHB][hapmap]
rs6744548	0.82[ASW][hapmap];0.84[CEU][hapmap];0.87[GIH][hapmap]
rs7355309	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.82[ASN][1000 genomes]
rs7355428	0.91[LWK][hapmap]
rs7586885	0.82[ASW][hapmap];0.84[CEU][hapmap];0.87[GIH][hapmap]
rs7589959	0.87[CEU][hapmap];0.81[GIH][hapmap]
rs7590241	0.84[CEU][hapmap]
rs7590265	0.82[ASW][hapmap];0.84[CEU][hapmap];0.82[GIH][hapmap]
rs7600676	0.82[ASW][hapmap];0.84[CEU][hapmap];0.87[GIH][hapmap]
rs9309261	0.82[EUR][1000 genomes]
rs9808435	0.84[CEU][hapmap];0.82[YRI][hapmap]

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	nsv834069	chr2:55096597-55251680	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13390825	PSME4	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:55134000-55153800	Weak transcription	Brain Angular Gyrus	brain
2	chr2:55134400-55153600	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr2:55148600-55155600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:55150000-55168400	Weak transcription	Pancreas	Pancrea
5	chr2:55152200-55154200	Enhancers	Skeletal Muscle Female	skeletal muscle
6	chr2:55152200-55154400	Enhancers	Adipose Nuclei	Adipose
7	chr2:55152200-55156400	Enhancers	Fetal Muscle Leg	muscle

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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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