Variant report

Variant	rs2016865
Chromosome Location	chr5:151739218-151739219
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10037446	0.88[EUR][1000 genomes]
rs10059148	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10064093	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10064171	0.90[EUR][1000 genomes]
rs1006969	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10214018	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10214020	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10223089	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10223235	0.83[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs10477014	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10477015	0.84[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs10477016	0.84[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs11167575	0.86[EUR][1000 genomes]
rs11167577	0.84[EUR][1000 genomes]
rs11954622	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12110035	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12187043	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12187221	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13154938	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13154974	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13155261	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13172915	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13173220	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13180768	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1422349	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1549196	0.85[CEU][hapmap]
rs1592895	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1833649	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1833652	0.89[EUR][1000 genomes]
rs1862285	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1862393	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1862394	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1862395	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1862396	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1862397	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1895323	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1922667	0.91[EUR][1000 genomes]
rs1922668	0.89[EUR][1000 genomes]
rs1922669	0.89[EUR][1000 genomes]
rs2042204	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2161291	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2194143	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2194144	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2216643	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2216644	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35868344	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4034960	0.89[EUR][1000 genomes]
rs4034961	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4034962	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4034965	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4273593	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4552577	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4552578	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4569858	0.89[EUR][1000 genomes]
rs4958301	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55655970	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61254880	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61579841	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62394475	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62394500	0.80[ASN][1000 genomes]
rs62394502	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62394507	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6860799	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6866565	0.82[EUR][1000 genomes]
rs6866637	0.84[EUR][1000 genomes]
rs6867177	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6876527	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6882001	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7709568	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7709598	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7709605	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7709816	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7709990	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7729379	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs918460	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs918461	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs918462	0.80[ASN][1000 genomes]
rs9324725	0.83[AFR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023828	chr5:151522149-151956217	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv830519	chr5:151588627-151800192	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv883048	chr5:151682439-151846236	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv432814	chr5:151682807-151852807	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv432815	chr5:151682807-151875807	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv432816	chr5:151691807-151875807	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	esv2763511	chr5:151737559-151776755	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2016865	PPARGC1B	cis	parietal	SCAN
rs2016865	ZNF300P1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:151738400-151739800	Enhancers	Fetal Stomach	stomach
2	chr5:151738600-151739600	Enhancers	Fetal Intestine Large	intestine
3	chr5:151738600-151739800	Enhancers	Fetal Intestine Small	intestine
4	chr5:151739000-151740600	Enhancers	Pancreatic Islets	Pancreatic Islet
5	chr5:151739200-151740200	Weak transcription	Fetal Heart	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links