Variant report

Variant	rs952711
Chromosome Location	chr2:37569508-37569509
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10204434	0.86[CHD][hapmap];0.90[JPT][hapmap]
rs10206380	0.81[JPT][hapmap]
rs10460527	0.81[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap]
rs11124570	0.83[CHB][hapmap];0.94[JPT][hapmap]
rs1160516	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs11887618	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs12468307	0.83[ASN][1000 genomes]
rs12469082	1.00[CEU][hapmap];0.83[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs12472984	0.82[ASN][1000 genomes]
rs12476195	0.86[EUR][1000 genomes]
rs13027919	0.87[ASN][1000 genomes]
rs13390055	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs13412560	0.80[CHB][hapmap];0.84[JPT][hapmap]
rs13421912	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs13429526	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs17020358	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs2041838	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs2041839	0.86[EUR][1000 genomes]
rs2075215	1.00[CEU][hapmap];0.90[JPT][hapmap];0.86[EUR][1000 genomes]
rs2075216	1.00[CEU][hapmap];0.90[JPT][hapmap];0.86[EUR][1000 genomes]
rs2216114	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs2241163	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2255991	0.91[CHB][hapmap];0.84[CHD][hapmap];0.91[GIH][hapmap];0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs2268988	1.00[CEU][hapmap];0.90[JPT][hapmap];0.95[EUR][1000 genomes]
rs2287091	0.86[CHD][hapmap];0.90[JPT][hapmap]
rs2287092	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs2300883	0.81[ASN][1000 genomes]
rs2300886	0.81[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap]
rs2300887	0.81[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap]
rs2300888	0.85[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap]
rs2300891	1.00[CEU][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes]
rs2300894	0.81[CHB][hapmap];0.84[CHD][hapmap];0.90[JPT][hapmap]
rs2300896	0.86[EUR][1000 genomes]
rs2302649	0.86[CHD][hapmap];0.90[JPT][hapmap]
rs28384455	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3213746	1.00[CEU][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs3755191	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3755192	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.85[YRI][hapmap];0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs3770749	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs3770761	0.81[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap]
rs3815555	0.86[CHB][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];0.83[JPT][hapmap];0.80[ASN][1000 genomes]
rs3821144	0.81[CHB][hapmap];0.85[CHD][hapmap];0.95[JPT][hapmap]
rs4384764	0.82[CHD][hapmap]
rs4610034	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4629138	0.84[CHD][hapmap];0.90[JPT][hapmap]
rs4670682	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs4670684	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs4670685	0.80[CHB][hapmap];0.95[CHD][hapmap];0.89[JPT][hapmap]
rs57861177	0.95[EUR][1000 genomes]
rs59612622	0.81[EUR][1000 genomes]
rs60981509	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73927424	0.95[EUR][1000 genomes]
rs7593932	0.95[CHB][hapmap];1.00[CHD][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs9309003	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs952712	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv430724	chr2:37546820-37628704	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	n/a
2	nsv2685	chr2:37550096-37594923	Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs952711	QPCT	cis	lymphoblastoid	seeQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:37565200-37570600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr2:37565600-37569800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr2:37565600-37570600	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr2:37566400-37569800	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr2:37566400-37570000	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr2:37567800-37569600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr2:37568000-37571600	Weak transcription	Ovary	ovary
8	chr2:37569000-37570200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr2:37569200-37571200	Enhancers	Fetal Muscle Leg	muscle
10	chr2:37569400-37571400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links