Variant report

Variant	rs1411501
Chromosome Location	chr13:94478993-94478994
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs12876221	0.87[EUR][1000 genomes]
rs1330461	0.92[EUR][1000 genomes]
rs1330462	0.91[EUR][1000 genomes]
rs1330466	0.88[CEU][hapmap]
rs1330467	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs1360300	0.96[CEU][hapmap];0.91[EUR][1000 genomes]
rs1411506	0.93[EUR][1000 genomes]
rs1411511	0.92[CEU][hapmap];0.91[TSI][hapmap];0.87[EUR][1000 genomes]
rs17195813	0.86[CEU][hapmap]
rs1854731	0.96[CEU][hapmap]
rs2150125	0.88[CEU][hapmap];0.86[MKK][hapmap];0.89[TSI][hapmap];0.84[EUR][1000 genomes]
rs2183427	0.87[EUR][1000 genomes]
rs2183429	0.91[ASW][hapmap];0.96[CEU][hapmap];0.92[MKK][hapmap];0.93[TSI][hapmap];0.91[EUR][1000 genomes]
rs2389049	0.82[ASW][hapmap];0.96[CEU][hapmap];0.89[MKK][hapmap];0.93[TSI][hapmap];0.93[EUR][1000 genomes]
rs2389050	0.94[EUR][1000 genomes]
rs3759424	0.96[CEU][hapmap];0.92[EUR][1000 genomes]
rs4272893	0.86[EUR][1000 genomes]
rs61964368	0.87[EUR][1000 genomes]
rs6492680	0.91[EUR][1000 genomes]
rs6492681	0.87[EUR][1000 genomes]
rs71203705	0.93[EUR][1000 genomes]
rs7324433	0.91[EUR][1000 genomes]
rs7328659	0.95[CEU][hapmap];0.90[EUR][1000 genomes]
rs7337988	0.92[CEU][hapmap];0.92[EUR][1000 genomes]
rs7983687	0.87[EUR][1000 genomes]
rs7993741	0.83[EUR][1000 genomes]
rs7995578	0.83[EUR][1000 genomes]
rs8001985	0.92[EUR][1000 genomes]
rs8002684	0.82[ASW][hapmap];0.96[CEU][hapmap];0.89[MKK][hapmap];0.91[TSI][hapmap];0.92[EUR][1000 genomes]
rs913942	0.91[EUR][1000 genomes]
rs9301908	0.96[CEU][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap];0.87[EUR][1000 genomes]
rs9516292	0.93[EUR][1000 genomes]
rs9524210	0.91[EUR][1000 genomes]
rs9524211	0.91[EUR][1000 genomes]
rs9524246	0.95[EUR][1000 genomes]
rs9524260	0.96[CEU][hapmap];0.84[MKK][hapmap];0.93[TSI][hapmap];0.91[EUR][1000 genomes]
rs9524273	0.83[EUR][1000 genomes]
rs9556335	0.96[CEU][hapmap];0.91[TSI][hapmap];0.88[EUR][1000 genomes]
rs991432	0.82[ASW][hapmap];0.96[CEU][hapmap];0.89[MKK][hapmap];0.93[TSI][hapmap];0.91[EUR][1000 genomes]
rs991595	0.96[CEU][hapmap];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948714	chr13:94100104-94699435	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv933807	chr13:94187158-94845505	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1045230	chr13:94277683-94764671	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv832684	chr13:94379507-94550853	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv948455	chr13:94451368-94988900	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv934193	chr13:94462018-94493268	Weak transcription Enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1411501	GPC6	cis	Artery Aorta	GTEx

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:94461200-94483200	Weak transcription	Fetal Intestine Small	intestine
2	chr13:94476600-94479000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr13:94477000-94482200	Weak transcription	Fetal Heart	heart
4	chr13:94477600-94482200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr13:94478000-94482400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links