Variant report

Variant	rs2073584
Chromosome Location	chr11:17524018-17524019
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11024317	0.81[CEU][hapmap];0.89[TSI][hapmap];0.86[EUR][1000 genomes]
rs1119618	0.85[ASW][hapmap];0.80[CEU][hapmap];1.00[CHB][hapmap];0.86[GIH][hapmap]
rs12793661	0.81[ASN][1000 genomes]
rs16934376	1.00[CHB][hapmap]
rs17703528	1.00[CHB][hapmap]
rs17714673	1.00[CHB][hapmap]
rs2041029	0.81[ASN][1000 genomes]
rs2041030	0.81[ASN][1000 genomes]
rs2237964	0.88[EUR][1000 genomes]
rs3858490	0.81[CEU][hapmap]
rs67020696	0.81[ASN][1000 genomes]
rs7107406	1.00[CHB][hapmap]
rs7119876	0.81[CEU][hapmap];0.80[GIH][hapmap];0.92[TSI][hapmap];0.86[EUR][1000 genomes]
rs7129919	0.80[CEU][hapmap];1.00[CHB][hapmap]
rs878208	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[TSI][hapmap];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs985575	1.00[CHB][hapmap];1.00[ASN][1000 genomes]

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	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2073584	NAV2	cis	parietal	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:17511200-17526000	Weak transcription	Brain Substantia Nigra	brain
2	chr11:17512600-17530000	Weak transcription	Right Atrium	heart
3	chr11:17513600-17530600	Strong transcription	Fetal Intestine Small	intestine
4	chr11:17515600-17524600	Strong transcription	Fetal Intestine Large	intestine
5	chr11:17516800-17529600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr11:17516800-17553000	Weak transcription	Stomach Mucosa	stomach
7	chr11:17520000-17528600	Weak transcription	Gastric	stomach
8	chr11:17520400-17526000	Weak transcription	Brain Hippocampus Middle	brain
9	chr11:17521400-17529800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr11:17521800-17529800	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr11:17522600-17531800	Weak transcription	Colonic Mucosa	Colon
12	chr11:17522800-17531200	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr11:17523000-17527600	Weak transcription	Duodenum Mucosa	Duodenum
14	chr11:17523200-17525600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr11:17523600-17526600	Enhancers	Dnd41	blood

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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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