Variant report

Variant	rs6582332
Chromosome Location	chr12:41759957-41759958
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:41754640..41756533-chr12:41757713..41760164,2	K562	blood:

Extended variants
information (count: 67 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10506191	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs10506192	1.00[CEU][hapmap]
rs10735995	0.96[CEU][hapmap];0.80[CHB][hapmap];0.91[CHD][hapmap];0.89[MEX][hapmap]
rs10785235	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs10785246	0.80[LWK][hapmap]
rs10785253	0.80[LWK][hapmap]
rs10785258	1.00[CEU][hapmap]
rs10785259	0.90[EUR][1000 genomes]
rs10785261	1.00[CEU][hapmap];0.81[GIH][hapmap];0.84[TSI][hapmap];0.90[EUR][1000 genomes]
rs10785262	0.95[EUR][1000 genomes]
rs10785263	0.96[CEU][hapmap];0.86[CHB][hapmap]
rs10785264	1.00[CEU][hapmap]
rs10880054	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs10880063	1.00[CEU][hapmap];0.83[GIH][hapmap];0.87[TSI][hapmap];0.92[EUR][1000 genomes]
rs10880067	1.00[CEU][hapmap];0.83[GIH][hapmap];0.87[TSI][hapmap]
rs10880071	1.00[CEU][hapmap];0.98[GIH][hapmap];0.95[TSI][hapmap];0.96[EUR][1000 genomes]
rs11180834	0.88[EUR][1000 genomes]
rs11180836	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs11180843	0.92[EUR][1000 genomes]
rs11180851	0.96[CEU][hapmap];0.82[GIH][hapmap];0.86[TSI][hapmap];0.92[EUR][1000 genomes]
rs11180863	1.00[CEU][hapmap];0.83[GIH][hapmap];0.87[TSI][hapmap]
rs11180864	1.00[CEU][hapmap];0.83[GIH][hapmap];0.86[TSI][hapmap]
rs11180878	1.00[CEU][hapmap];0.93[CHB][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11614231	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs11835941	1.00[CEU][hapmap]
rs12146801	0.92[EUR][1000 genomes]
rs12369680	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs12370984	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12422274	0.91[EUR][1000 genomes]
rs12578784	0.92[EUR][1000 genomes]
rs12817575	1.00[CEU][hapmap];0.81[GIH][hapmap];0.86[TSI][hapmap];0.92[EUR][1000 genomes]
rs1405549	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];0.92[EUR][1000 genomes]
rs1458176	1.00[ASW][hapmap];0.96[CEU][hapmap];0.87[CHB][hapmap];0.91[CHD][hapmap];0.98[GIH][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.81[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1527090	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs1534279	0.91[EUR][1000 genomes]
rs1534280	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs1544000	0.92[EUR][1000 genomes]
rs1902907	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs1902909	0.90[EUR][1000 genomes]
rs1902911	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs1918221	0.92[EUR][1000 genomes]
rs1918226	0.92[EUR][1000 genomes]
rs1918227	0.92[EUR][1000 genomes]
rs2199030	1.00[ASW][hapmap];1.00[CEU][hapmap];0.87[CHB][hapmap];0.91[CHD][hapmap];0.98[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];0.85[YRI][hapmap];0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2405911	0.92[EUR][1000 genomes]
rs2897268	1.00[CEU][hapmap];0.81[GIH][hapmap];0.86[TSI][hapmap];0.92[EUR][1000 genomes]
rs34220247	0.91[EUR][1000 genomes]
rs34892771	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4768344	0.80[LWK][hapmap]
rs4768351	0.80[LWK][hapmap];0.81[YRI][hapmap]
rs6582334	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs6582336	0.86[EUR][1000 genomes]
rs7133365	1.00[CEU][hapmap]
rs7301366	0.89[EUR][1000 genomes]
rs7315276	0.90[EUR][1000 genomes]
rs7488531	0.91[EUR][1000 genomes]
rs7954106	1.00[CEU][hapmap];0.81[YRI][hapmap]
rs7956320	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs7957823	1.00[CEU][hapmap];0.87[CHB][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7960955	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs7963312	1.00[CEU][hapmap]
rs7967532	0.90[EUR][1000 genomes]
rs7979586	0.92[EUR][1000 genomes]
rs930905	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs961337	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs9783512	0.90[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832383	chr12:41693298-41846934	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6582332	PDZRN4	cis	parietal	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:41755400-41760200	Enhancers	Brain Germinal Matrix	brain
2	chr12:41759200-41760000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr12:41759200-41760200	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr12:41759400-41760000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr12:41759400-41760200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr12:41759600-41760000	Enhancers	Brain Hippocampus Middle	brain
7	chr12:41759600-41760000	Enhancers	Rectal Smooth Muscle	rectum
8	chr12:41759600-41760400	Enhancers	Fetal Kidney	kidney
9	chr12:41759800-41760000	Enhancers	Brain Angular Gyrus	brain
10	chr12:41759800-41760200	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr12:41759800-41760200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links