Variant report

Variant	rs13155734
Chromosome Location	chr5:127108252-127108253
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1002214	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10044507	0.98[ASN][1000 genomes]
rs10066288	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10067219	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1067705	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1086479	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1092294	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1213745	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1356121	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1432641	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1432642	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1464132	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1616107	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2673770	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6867166	1.00[ASW][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.90[LWK][hapmap];0.97[MKK][hapmap];0.90[YRI][hapmap];0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6878186	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs711361	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs711363	0.95[CEU][hapmap];0.90[TSI][hapmap]
rs711364	0.95[CEU][hapmap]
rs711369	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7729013	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs790829	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.96[TSI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs790834	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs790839	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs790840	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs790841	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs796919	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs806464	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs810996	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033607	chr5:126385181-127304459	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv1021483	chr5:126927834-127304873	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv830480	chr5:126964751-127124522	Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs13155734	CTXN3	cis	parietal	SCAN
rs13155734	PRRC1	cis	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:127103000-127109000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr5:127108000-127108400	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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