Variant report

Variant	rs11999696
Chromosome Location	chr9:21367195-21367196
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10114175	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10114286	0.81[EUR][1000 genomes]
rs10114825	1.00[CEU][hapmap]
rs10121687	0.84[EUR][1000 genomes]
rs12000461	0.89[EUR][1000 genomes]
rs12002231	0.81[EUR][1000 genomes]
rs12006448	1.00[CEU][hapmap]
rs12336789	0.97[EUR][1000 genomes]
rs12337907	1.00[CEU][hapmap]
rs12340196	0.84[EUR][1000 genomes]
rs12340718	0.97[EUR][1000 genomes]
rs1330321	0.81[EUR][1000 genomes]
rs17334047	0.97[EUR][1000 genomes]
rs28383780	1.00[EUR][1000 genomes]
rs28383791	0.81[EUR][1000 genomes]
rs28383792	0.81[EUR][1000 genomes]
rs35000944	1.00[EUR][1000 genomes]
rs35101870	0.97[EUR][1000 genomes]
rs35353365	0.97[EUR][1000 genomes]
rs3919593	1.00[CEU][hapmap]
rs41270127	0.94[EUR][1000 genomes]
rs41270129	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs41270131	0.94[EUR][1000 genomes]
rs41270133	0.94[EUR][1000 genomes]
rs41270135	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6475532	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs7037805	0.81[EUR][1000 genomes]
rs72691656	0.86[EUR][1000 genomes]
rs72691682	0.81[EUR][1000 genomes]
rs72691685	0.81[EUR][1000 genomes]
rs72691699	0.81[EUR][1000 genomes]
rs72691700	0.81[EUR][1000 genomes]
rs72691701	0.81[EUR][1000 genomes]
rs72693703	0.81[EUR][1000 genomes]
rs72693705	0.81[EUR][1000 genomes]
rs72695780	0.89[EUR][1000 genomes]
rs72695784	0.89[EUR][1000 genomes]
rs72695785	0.89[EUR][1000 genomes]
rs72695788	0.89[EUR][1000 genomes]
rs72695795	0.89[EUR][1000 genomes]
rs72695797	0.89[EUR][1000 genomes]
rs72695798	0.89[EUR][1000 genomes]
rs72695801	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72697305	0.94[EUR][1000 genomes]
rs72697307	0.94[EUR][1000 genomes]
rs72697311	0.94[EUR][1000 genomes]
rs72697312	0.94[EUR][1000 genomes]
rs72697313	0.94[EUR][1000 genomes]
rs72697314	0.94[EUR][1000 genomes]
rs72697315	0.94[EUR][1000 genomes]
rs72697317	0.94[EUR][1000 genomes]
rs72697321	0.97[EUR][1000 genomes]
rs72697322	0.97[EUR][1000 genomes]
rs72697324	0.97[EUR][1000 genomes]
rs72697326	0.97[EUR][1000 genomes]
rs72697327	0.97[EUR][1000 genomes]
rs72699197	0.97[EUR][1000 genomes]
rs72699198	0.97[EUR][1000 genomes]
rs72699199	0.97[EUR][1000 genomes]
rs72699200	0.97[EUR][1000 genomes]
rs72699201	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72699202	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701303	0.97[EUR][1000 genomes]
rs72701305	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701306	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701307	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701308	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701309	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701311	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701312	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701313	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701314	0.97[EUR][1000 genomes]
rs72701315	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701316	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701317	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701318	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701319	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701320	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72701321	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72701344	0.84[EUR][1000 genomes]
rs72701345	0.84[EUR][1000 genomes]
rs72701355	0.81[EUR][1000 genomes]
rs72701357	0.81[EUR][1000 genomes]
rs7862030	1.00[CEU][hapmap];0.85[YRI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7863385	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs7865334	0.89[EUR][1000 genomes]
rs9333355	1.00[CEU][hapmap]
rs9333356	1.00[CEU][hapmap];0.97[EUR][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	nsv892724	chr9:20690244-21517302	Genic enhancers Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases
2	nsv892736	chr9:21327141-21391698	Flanking Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Genic enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	nsv892737	chr9:21352862-21408824	Bivalent/Poised TSS Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	esv2752289	chr9:21361957-21499624	Weak transcription Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11999696	KLHL9	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21366600-21367200	Bivalent Enhancer	Primary B cells from cord blood	blood
2	chr9:21367000-21367200	Enhancers	GM12878-XiMat	blood

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