Variant report

Variant	rs878208
Chromosome Location	chr11:17522086-17522087
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11024317	0.81[CEU][hapmap];0.84[TSI][hapmap];0.84[EUR][1000 genomes]
rs1119618	0.93[ASW][hapmap];0.80[CEU][hapmap];1.00[CHB][hapmap];0.87[LWK][hapmap];0.89[MKK][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes]
rs16934376	1.00[CHB][hapmap]
rs17703528	1.00[CHB][hapmap]
rs17714673	1.00[CHB][hapmap]
rs2073584	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]
rs2237964	0.86[EUR][1000 genomes]
rs3858490	0.81[CEU][hapmap]
rs7107406	1.00[CHB][hapmap]
rs7119876	0.81[CEU][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes]
rs7129919	0.80[CEU][hapmap];1.00[CHB][hapmap]
rs985575	1.00[CHB][hapmap];0.83[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
rs878208	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	chr11:17514800-17522800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr11:17515000-17523600	Weak transcription	Dnd41	blood
6	chr11:17515600-17524600	Strong transcription	Fetal Intestine Large	intestine
7	chr11:17516000-17523000	Strong transcription	Duodenum Mucosa	Duodenum
8	chr11:17516800-17529600	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr11:17516800-17553000	Weak transcription	Stomach Mucosa	stomach
10	chr11:17518000-17522800	Strong transcription	Rectal Mucosa Donor 31	rectum
11	chr11:17520000-17528600	Weak transcription	Gastric	stomach
12	chr11:17520400-17526000	Weak transcription	Brain Hippocampus Middle	brain
13	chr11:17521200-17522600	Strong transcription	Colonic Mucosa	Colon
14	chr11:17521400-17529800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr11:17521800-17529800	Weak transcription	Rectal Mucosa Donor 29	rectum

Quick Search:

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

what's new

Quick links