Variant report

Variant	rs7140766
Chromosome Location	chr14:39706741-39706742
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10137623	0.94[CHB][hapmap]
rs10140832	0.96[ASN][1000 genomes]
rs1570131	0.80[ASW][hapmap];1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.93[MKK][hapmap];0.98[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17109030	0.83[CHB][hapmap];0.83[JPT][hapmap]
rs17621388	0.83[CHB][hapmap];0.83[JPT][hapmap]
rs17692639	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28449389	0.83[EUR][1000 genomes]
rs34843498	0.88[CHB][hapmap];0.82[JPT][hapmap]
rs35280646	0.84[ASN][1000 genomes]
rs443158	0.83[EUR][1000 genomes]
rs4902459	1.00[ASW][hapmap]
rs6571912	0.82[ASW][hapmap]
rs7143942	0.83[CHB][hapmap];0.88[JPT][hapmap]
rs715136	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7153074	0.89[ASW][hapmap]
rs7154632	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7155164	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8006182	0.83[CHB][hapmap];0.83[JPT][hapmap]
rs8014839	0.92[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs8015094	0.92[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs8017896	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][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	nsv1053133	chr14:39657535-39770729	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv84871	chr14:39698400-39707997	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7140766	TRAPPC6B	cis	multi-tissue	Pritchard
rs7140766	NKX2-8	cis	parietal	SCAN
rs7140766	SEC23A	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:39703600-39735400	Weak transcription	Pancreas	Pancrea
2	chr14:39704000-39708000	Weak transcription	A549	lung
3	chr14:39704400-39734400	Weak transcription	Duodenum Mucosa	Duodenum
4	chr14:39705000-39707800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr14:39706000-39708400	Weak transcription	HepG2	liver
6	chr14:39706200-39707400	Enhancers	Liver	Liver
7	chr14:39706200-39715800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr14:39706400-39708600	Weak transcription	Fetal Intestine Large	intestine
9	chr14:39706600-39708800	Strong transcription	Fetal Intestine Small	intestine

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