Variant report

Variant	rs6819990
Chromosome Location	chr4:30774308-30774309
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10517216	0.91[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11721555	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11723028	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11941127	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11946238	0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs12509289	0.81[JPT][hapmap]
rs13135261	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1374650	0.95[CHD][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs1374651	0.89[JPT][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1374652	1.00[ASW][hapmap];0.95[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];0.97[TSI][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1374654	0.92[ASN][1000 genomes]
rs1550896	0.91[CEU][hapmap];0.84[YRI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16884042	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16884047	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1823196	0.81[JPT][hapmap]
rs1823197	0.91[JPT][hapmap]
rs2029202	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2121656	0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs2121659	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]
rs2166718	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34343083	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6810526	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.97[TSI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6811850	0.95[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6820160	0.91[CEU][hapmap];0.88[MKK][hapmap];0.95[TSI][hapmap];0.86[YRI][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6820710	0.91[CEU][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6842641	0.90[JPT][hapmap]
rs6844742	0.87[ASN][1000 genomes]
rs6845219	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7664916	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7687637	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7700046	0.87[CEU][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs958274	0.83[CHD][hapmap];0.91[JPT][hapmap];0.81[MEX][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6819990	PCDH7	cis	parietal	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:30766000-30778000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr4:30770200-30779200	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr4:30771000-30779000	Weak transcription	Fetal Muscle Leg	muscle
4	chr4:30771200-30789400	Weak transcription	Fetal Muscle Trunk	muscle
5	chr4:30771800-30774600	Weak transcription	Aorta	Aorta
6	chr4:30771800-30775400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr4:30772000-30777800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr4:30772400-30775800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr4:30772600-30775800	Weak transcription	Stomach Smooth Muscle	stomach
10	chr4:30772600-30778000	Weak transcription	Fetal Kidney	kidney
11	chr4:30772600-30778000	Weak transcription	Fetal Stomach	stomach
12	chr4:30772800-30777800	Weak transcription	Colon Smooth Muscle	Colon
13	chr4:30773000-30775600	Weak transcription	Fetal Lung	lung
14	chr4:30773000-30778000	Weak transcription	Fetal Heart	heart
15	chr4:30773000-30778400	Weak transcription	HUVEC	blood vessel
16	chr4:30773200-30778400	Weak transcription	NH-A	brain
17	chr4:30773200-30778600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr4:30773200-30778600	Weak transcription	Rectal Smooth Muscle	rectum
19	chr4:30773400-30775600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr4:30774200-30775000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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