Variant report

Variant	rs12874939
Chromosome Location	chr13:53694705-53694706
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 110 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs10507575	0.82[CEU][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs12860364	0.82[CEU][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs12865218	0.97[EUR][1000 genomes]
rs12867491	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12868253	0.92[EUR][1000 genomes]
rs12869523	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12870777	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12871248	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12876105	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12876387	0.97[EUR][1000 genomes]
rs12876786	0.97[EUR][1000 genomes]
rs12877178	0.97[EUR][1000 genomes]
rs12877599	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12877758	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12877912	0.97[EUR][1000 genomes]
rs1343608	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1343609	0.93[ASN][1000 genomes]
rs17053814	0.85[CHD][hapmap];0.90[TSI][hapmap]
rs17053844	0.85[CHD][hapmap];0.90[JPT][hapmap]
rs17053849	0.85[CHD][hapmap];0.90[JPT][hapmap]
rs17054812	1.00[EUR][1000 genomes]
rs17054937	0.97[EUR][1000 genomes]
rs1909651	0.86[EUR][1000 genomes]
rs2027574	0.93[ASN][1000 genomes]
rs2275840	0.85[CHD][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap]
rs2476028	0.93[ASN][1000 genomes]
rs2491125	0.93[ASN][1000 genomes]
rs2759688	1.00[ASN][1000 genomes]
rs2759690	0.93[ASN][1000 genomes]
rs2799344	0.85[EUR][1000 genomes]
rs2799345	0.85[EUR][1000 genomes]
rs2806957	0.82[CEU][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs2806988	0.91[ASN][1000 genomes]
rs2806995	0.93[ASN][1000 genomes]
rs2806996	0.93[ASN][1000 genomes]
rs2807000	0.93[ASN][1000 genomes]
rs34030659	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34031649	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34059997	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34163916	0.97[EUR][1000 genomes]
rs34201111	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][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];1.00[ASN][1000 genomes]
rs34557321	0.97[EUR][1000 genomes]
rs34610752	0.83[EUR][1000 genomes]
rs34642277	0.97[EUR][1000 genomes]
rs34687272	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34708622	0.97[EUR][1000 genomes]
rs34756826	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34820311	0.86[EUR][1000 genomes]
rs34902019	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35003538	0.97[EUR][1000 genomes]
rs35007240	0.97[EUR][1000 genomes]
rs35114755	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35226075	0.97[EUR][1000 genomes]
rs35340650	0.97[EUR][1000 genomes]
rs35575822	0.97[EUR][1000 genomes]
rs35625606	0.97[EUR][1000 genomes]
rs35628629	0.94[EUR][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]
rs36044845	0.83[EUR][1000 genomes]
rs55972529	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57273256	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57454139	0.97[EUR][1000 genomes]
rs59155861	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59297590	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59486247	0.81[EUR][1000 genomes]
rs59513810	0.97[EUR][1000 genomes]
rs59960345	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60408242	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61950074	0.97[EUR][1000 genomes]
rs61950078	0.86[EUR][1000 genomes]
rs61950079	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61950086	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61950504	0.97[EUR][1000 genomes]
rs61950522	0.97[EUR][1000 genomes]
rs6561705	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561706	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6561707	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7320513	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7325509	0.92[EUR][1000 genomes]
rs74086489	0.97[EUR][1000 genomes]
rs7998204	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7998385	0.92[EUR][1000 genomes]
rs912053	0.92[EUR][1000 genomes]
rs9563134	0.92[EUR][1000 genomes]
rs9563136	0.97[EUR][1000 genomes]
rs9563137	0.97[EUR][1000 genomes]
rs9563138	0.97[EUR][1000 genomes]
rs9563145	1.00[TSI][hapmap]
rs9568814	0.97[EUR][1000 genomes]
rs9568815	0.97[EUR][1000 genomes]
rs9568816	0.97[EUR][1000 genomes]
rs9568817	0.97[EUR][1000 genomes]
rs9568820	0.97[EUR][1000 genomes]
rs9568821	0.97[EUR][1000 genomes]
rs9568822	0.97[EUR][1000 genomes]
rs9568823	0.97[EUR][1000 genomes]
rs9568824	0.97[EUR][1000 genomes]
rs9568825	0.97[EUR][1000 genomes]
rs9568827	0.92[EUR][1000 genomes]
rs9568828	1.00[CEU][hapmap]
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
rs12874939	IL13	trans	lymphoblastoid	seeQTL

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:53681800-53695000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr13:53691000-53694800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr13:53694200-53695600	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr13:53694400-53696800	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr13:53694600-53695400	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr13:53694600-53696400	Enhancers	H1 Cell Line	embryonic stem cell

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