Variant report

Variant	rs3758953
Chromosome Location	chr11:17499547-17499548
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10766406	0.85[JPT][hapmap]
rs10832792	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2188966	0.81[CHD][hapmap];0.81[JPT][hapmap];0.88[MEX][hapmap]
rs3758949	0.81[CHD][hapmap];0.81[JPT][hapmap];0.88[MEX][hapmap]
rs6486371	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs985572	1.00[CEU][hapmap];0.83[TSI][hapmap];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469895	chr11:17368270-17584220	Weak transcription Bivalent Enhancer Genic enhancers Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv897019	chr11:17475443-17499547	Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3758953	PRPH	trans	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:17498400-17500400	Weak transcription	Brain Cingulate Gyrus	brain
2	chr11:17498400-17501000	Weak transcription	Gastric	stomach
3	chr11:17498400-17501000	Weak transcription	Pancreas	Pancrea
4	chr11:17498800-17499600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr11:17498800-17500600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr11:17498800-17502000	Enhancers	Dnd41	blood
7	chr11:17499000-17500400	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr11:17499000-17500600	Weak transcription	Fetal Brain Female	brain
9	chr11:17499400-17499600	Enhancers	Brain Angular Gyrus	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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