Variant report

Variant	rs11779371
Chromosome Location	chr8:125754669-125754670
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10113303	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1367500	0.80[ASW][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes]
rs6470268	0.88[AFR][1000 genomes]
rs6983728	0.95[YRI][hapmap];0.87[AFR][1000 genomes]
rs6993864	0.81[ASW][hapmap];0.91[LWK][hapmap];0.88[MKK][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes]
rs6994403	0.81[ASW][hapmap];0.95[LWK][hapmap];0.88[MKK][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes]
rs7001166	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7006084	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs715006	0.95[YRI][hapmap];0.87[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv891434	chr8:125630655-126324432	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv1016502	chr8:125657664-125845074	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
3	nsv891435	chr8:125747374-125764361	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	nsv517427	chr8:125749707-125766271	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11779371	LOC100131726	cis	parietal	SCAN
rs11779371	FAM84B	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:125752800-125756200	Enhancers	Fetal Intestine Small	intestine
2	chr8:125753000-125755600	Enhancers	Stomach Mucosa	stomach
3	chr8:125753200-125755200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr8:125754000-125755200	Enhancers	HepG2	liver
5	chr8:125754000-125756200	Enhancers	Fetal Intestine Large	intestine
6	chr8:125754200-125755400	Weak transcription	Fetal Stomach	stomach
7	chr8:125754600-125755200	Enhancers	Liver	Liver

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