Variant report

Variant	rs17054812
Chromosome Location	chr13:53720725-53720726
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PCDH8-4	chr13:53720674-53721037	XLOC_010626

Extended variants
information (count: 105 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs10507575	0.82[CEU][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[EUR][1000 genomes]
rs12860364	0.82[CEU][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes]
rs12865218	0.97[EUR][1000 genomes]
rs12867491	1.00[EUR][1000 genomes]
rs12868253	0.92[EUR][1000 genomes]
rs12869523	1.00[EUR][1000 genomes]
rs12870777	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12871248	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12874939	1.00[EUR][1000 genomes]
rs12876105	1.00[EUR][1000 genomes]
rs12876387	0.97[EUR][1000 genomes]
rs12876786	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12877178	0.97[EUR][1000 genomes]
rs12877599	1.00[EUR][1000 genomes]
rs12877758	1.00[EUR][1000 genomes]
rs12877912	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1343608	1.00[EUR][1000 genomes]
rs17053814	0.90[TSI][hapmap]
rs17054937	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1909651	0.86[EUR][1000 genomes]
rs2275840	0.90[TSI][hapmap]
rs2799344	0.85[EUR][1000 genomes]
rs2799345	0.85[EUR][1000 genomes]
rs2806932	0.91[ASN][1000 genomes]
rs2806957	0.82[CEU][hapmap];0.88[CHD][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs34030659	1.00[EUR][1000 genomes]
rs34031649	1.00[EUR][1000 genomes]
rs34059997	1.00[EUR][1000 genomes]
rs34163916	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs34201111	1.00[EUR][1000 genomes]
rs34211399	0.97[EUR][1000 genomes]
rs34298498	0.97[EUR][1000 genomes]
rs34330988	0.97[EUR][1000 genomes]
rs34531708	1.00[EUR][1000 genomes]
rs34557321	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34610752	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34642277	0.97[EUR][1000 genomes]
rs34687272	1.00[EUR][1000 genomes]
rs34708622	0.97[EUR][1000 genomes]
rs34756826	0.97[EUR][1000 genomes]
rs34820311	0.86[EUR][1000 genomes]
rs34902019	1.00[EUR][1000 genomes]
rs35003538	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs35007240	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs35114755	1.00[EUR][1000 genomes]
rs35226075	0.97[EUR][1000 genomes]
rs35340650	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35575822	0.97[EUR][1000 genomes]
rs35625606	0.97[EUR][1000 genomes]
rs35628629	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35666947	0.97[EUR][1000 genomes]
rs35727089	0.97[EUR][1000 genomes]
rs35756659	0.97[EUR][1000 genomes]
rs35765587	0.97[EUR][1000 genomes]
rs35800707	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs36044845	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55702516	1.00[AFR][1000 genomes]
rs55972529	1.00[EUR][1000 genomes]
rs57273256	1.00[EUR][1000 genomes]
rs57454139	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs59155861	0.89[EUR][1000 genomes]
rs59297590	1.00[EUR][1000 genomes]
rs59486247	0.81[EUR][1000 genomes]
rs59513810	0.97[EUR][1000 genomes]
rs59960345	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60408242	1.00[EUR][1000 genomes]
rs61950074	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs61950078	0.86[EUR][1000 genomes]
rs61950079	1.00[EUR][1000 genomes]
rs61950086	1.00[EUR][1000 genomes]
rs61950134	1.00[AFR][1000 genomes]
rs61950504	0.97[EUR][1000 genomes]
rs61950522	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs6561705	0.95[EUR][1000 genomes]
rs6561706	1.00[EUR][1000 genomes]
rs6561707	1.00[EUR][1000 genomes]
rs71437891	0.82[ASN][1000 genomes]
rs7320513	1.00[EUR][1000 genomes]
rs7325509	0.92[EUR][1000 genomes]
rs74086489	0.97[EUR][1000 genomes]
rs7998204	1.00[EUR][1000 genomes]
rs7998385	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs912053	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9563134	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9563136	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9563137	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9563138	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9563145	0.81[CHD][hapmap];1.00[TSI][hapmap]
rs9563146	1.00[AFR][1000 genomes]
rs9563147	1.00[AFR][1000 genomes]
rs9568814	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9568815	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9568816	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9568817	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9568820	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9568821	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9568822	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9568823	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9568824	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9568825	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9568827	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568828	1.00[CEU][hapmap];0.95[JPT][hapmap]
rs9568834	1.00[AFR][1000 genomes]
rs995821	0.86[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	nsv1050969	chr13:53665927-54064861	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17054812	IL13	trans	lymphoblastoid	seeQTL

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:53719400-53725800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr13:53719400-53725800	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr13:53719600-53723600	Weak transcription	Brain Germinal Matrix	brain

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