Variant report

Variant	rs11239430
Chromosome Location	chr10:45798374-45798375
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 98 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs10159580	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10508894	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10793613	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10900195	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10900200	0.85[MEX][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10900209	1.00[ASN][1000 genomes]
rs11239398	1.00[ASN][1000 genomes]
rs11239402	1.00[YRI][hapmap];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11239409	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239417	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239420	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239422	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239423	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239424	0.94[EUR][1000 genomes]
rs11239427	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239428	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239429	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239432	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239434	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239435	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239436	1.00[YRI][hapmap]
rs11239437	1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239452	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11239480	1.00[ASN][1000 genomes]
rs11239482	1.00[ASN][1000 genomes]
rs11239496	1.00[ASN][1000 genomes]
rs11239501	1.00[ASN][1000 genomes]
rs11239506	1.00[ASN][1000 genomes]
rs11239512	1.00[ASN][1000 genomes]
rs11239515	1.00[ASN][1000 genomes]
rs11239516	1.00[ASN][1000 genomes]
rs11239517	1.00[ASN][1000 genomes]
rs11239519	1.00[ASN][1000 genomes]
rs11239520	1.00[ASN][1000 genomes]
rs11239523	0.85[MEX][hapmap]
rs11511611	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11522530	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11522531	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11522532	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11523406	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11523407	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11523864	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11523866	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12146275	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12250005	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12256027	1.00[ASN][1000 genomes]
rs12268890	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12355274	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12357069	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12358110	1.00[ASN][1000 genomes]
rs12358817	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12359547	1.00[ASN][1000 genomes]
rs12359672	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1529828	1.00[ASN][1000 genomes]
rs1529829	1.00[ASN][1000 genomes]
rs17157583	1.00[ASN][1000 genomes]
rs17157619	1.00[ASN][1000 genomes]
rs17443340	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17444064	1.00[ASN][1000 genomes]
rs17520779	0.91[CEU][hapmap];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17521948	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1815626	1.00[ASN][1000 genomes]
rs1968475	1.00[ASN][1000 genomes]
rs28485654	1.00[ASN][1000 genomes]
rs28570111	0.81[EUR][1000 genomes]
rs28688874	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2871740	1.00[ASN][1000 genomes]
rs41526545	1.00[ASN][1000 genomes]
rs55963543	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6593484	1.00[ASN][1000 genomes]
rs7085353	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7098434	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7098888	1.00[ASN][1000 genomes]
rs72784518	1.00[ASN][1000 genomes]
rs72784536	0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72784538	0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72784571	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72784580	0.81[AFR][1000 genomes]
rs72786508	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72788095	1.00[ASN][1000 genomes]
rs72788096	1.00[ASN][1000 genomes]
rs72788101	1.00[ASN][1000 genomes]
rs72788102	1.00[ASN][1000 genomes]
rs72789705	1.00[ASN][1000 genomes]
rs72789735	1.00[ASN][1000 genomes]
rs748126	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs748127	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7898796	1.00[ASN][1000 genomes]
rs7907779	1.00[ASN][1000 genomes]
rs9664826	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9731035	1.00[ASN][1000 genomes]
rs9733175	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9733422	1.00[ASN][1000 genomes]
rs9733444	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2750897	chr10:45550145-45820136	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	nsv895105	chr10:45636867-45928822	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
3	nsv430166	chr10:45668894-46148794	Bivalent Enhancer Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv993428	chr10:45742877-46224333	Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs11239430	ALOX5	Cis_1M	lymphoblastoid	RTeQTL
rs11239430	ALOX5	cis	parietal	SCAN
rs11239430	ALOX5	cis	cerebellum	SCAN
rs11239430	OR13A1	cis	lung	GTEx
rs11239430	ALOX5	cis	lymphoblastoid	seeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:45796000-45798600	Weak transcription	Thymus	Thymus
2	chr10:45796600-45799000	Weak transcription	Spleen	Spleen
3	chr10:45797800-45799200	Enhancers	K562	blood
4	chr10:45798000-45798600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr10:45798000-45798600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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