Variant report

Variant	rs17201892
Chromosome Location	chr9:18341074-18341075
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10511651	1.00[AFR][1000 genomes]
rs11789735	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11790578	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11792115	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11792893	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11793521	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11999378	0.88[EUR][1000 genomes]
rs1411153	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs17202079	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17202635	0.94[CEU][hapmap];1.00[AFR][1000 genomes]
rs17202704	1.00[AFR][1000 genomes]
rs17791003	0.94[EUR][1000 genomes]
rs17791761	1.00[ASW][hapmap];0.94[CEU][hapmap];1.00[AFR][1000 genomes]
rs17792334	1.00[AFR][1000 genomes]
rs17792405	1.00[AFR][1000 genomes]
rs17792440	1.00[AFR][1000 genomes]
rs2226018	1.00[AFR][1000 genomes]
rs4129608	0.83[EUR][1000 genomes]
rs4351499	0.93[EUR][1000 genomes]
rs4366171	0.90[EUR][1000 genomes]
rs4514085	0.90[EUR][1000 genomes]
rs4629974	0.90[EUR][1000 genomes]
rs55802908	0.90[EUR][1000 genomes]
rs56030218	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs56067157	0.82[EUR][1000 genomes]
rs56139132	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72686842	0.82[EUR][1000 genomes]
rs72686857	0.92[EUR][1000 genomes]
rs7858392	0.83[EUR][1000 genomes]
rs950193	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831522	chr9:18231982-18459492	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv491807	chr9:18243672-19009770	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	esv2764161	chr9:18247433-18443060	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv892684	chr9:18261485-18401585	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv525659	chr9:18288212-19009041	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
6	nsv1019127	chr9:18288271-18996288	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv430001	chr9:18301116-18346392	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv892687	chr9:18303691-18430297	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv525743	chr9:18312578-18359014	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17201892	IFNA14	cis	cerebellum	SCAN
rs17201892	MLLT3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:18333400-18368200	Weak transcription	Aorta	Aorta
2	chr9:18334600-18346600	Weak transcription	Fetal Heart	heart
3	chr9:18334800-18343600	Weak transcription	NHDF-Ad	bronchial
4	chr9:18337400-18347000	Weak transcription	Stomach Smooth Muscle	stomach
5	chr9:18338200-18343200	Weak transcription	Osteobl	bone
6	chr9:18338400-18343200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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