Variant report

Variant	rs6820160
Chromosome Location	chr4:30774359-30774360
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10517216	0.83[CEU][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11721555	0.83[CEU][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11723028	0.85[EUR][1000 genomes]
rs13135261	0.91[CEU][hapmap];0.81[MEX][hapmap];0.91[MKK][hapmap];0.95[TSI][hapmap];0.86[YRI][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13138213	0.83[CHB][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs13143986	0.88[ASN][1000 genomes]
rs1348923	0.83[CHB][hapmap];0.90[JPT][hapmap];0.93[ASN][1000 genomes]
rs1374651	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1374652	0.87[CEU][hapmap];0.81[MEX][hapmap];0.91[MKK][hapmap];0.93[TSI][hapmap];0.83[YRI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1550896	1.00[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2121659	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]
rs34343083	0.81[EUR][1000 genomes]
rs6810526	0.83[CEU][hapmap];0.81[MEX][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6811850	0.87[CEU][hapmap];0.86[YRI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6819990	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	1.00[CEU][hapmap];0.88[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6845219	0.82[EUR][1000 genomes]
rs7687637	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7700046	0.96[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6820160	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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