Variant report

Variant	rs2121659
Chromosome Location	chr4:30785307-30785308
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10517216	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11721555	0.91[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11723028	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11941127	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11946238	1.00[CHB][hapmap];0.82[JPT][hapmap];0.92[ASN][1000 genomes]
rs12509289	0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs13135261	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1374650	1.00[CHB][hapmap];0.95[CHD][hapmap];0.83[JPT][hapmap];0.92[ASN][1000 genomes]
rs1374651	0.89[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1374652	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1374654	0.98[ASN][1000 genomes]
rs1447371	0.80[ASN][1000 genomes]
rs1550896	0.91[CEU][hapmap];0.88[YRI][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16884042	0.82[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16884047	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16884163	0.80[ASN][1000 genomes]
rs1823196	0.81[JPT][hapmap]
rs1823197	0.91[JPT][hapmap]
rs1900571	0.80[ASN][1000 genomes]
rs2029202	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2121656	1.00[CHB][hapmap];0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs2166718	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34211313	0.80[ASN][1000 genomes]
rs34343083	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6810526	0.91[CEU][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6811850	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6819990	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.93[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6820160	0.91[CEU][hapmap];0.81[MEX][hapmap];0.91[MKK][hapmap];0.95[TSI][hapmap];0.83[YRI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6820710	0.91[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6842641	0.90[JPT][hapmap]
rs6842866	0.80[ASN][1000 genomes]
rs6844742	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs6845219	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7664916	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7682792	0.80[ASN][1000 genomes]
rs7687637	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7700046	0.87[CEU][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs958274	0.83[CHD][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2121659	PCDH7	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:30771200-30789400	Weak transcription	Fetal Muscle Trunk	muscle
2	chr4:30779200-30787800	Weak transcription	Rectal Smooth Muscle	rectum
3	chr4:30779200-30790600	Weak transcription	Fetal Lung	lung
4	chr4:30784600-30790600	Weak transcription	Aorta	Aorta
5	chr4:30784800-30785600	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr4:30785000-30785600	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr4:30785200-30785400	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr4:30785200-30785800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr4:30785200-30785800	Enhancers	Colon Smooth Muscle	Colon

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