Variant report

Variant	rs1240087
Chromosome Location	chr8:90113946-90113947
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10955937	0.88[EUR][1000 genomes]
rs1240027	0.89[ASN][1000 genomes]
rs1240044	0.90[ASN][1000 genomes]
rs1240056	0.85[ASN][1000 genomes]
rs1240057	0.85[ASN][1000 genomes]
rs1240063	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1240070	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1240072	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1240080	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1240081	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1240086	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1262791	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1586140	0.90[ASN][1000 genomes]
rs1681451	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1733918	0.96[ASN][1000 genomes]
rs384160	0.84[AMR][1000 genomes]
rs427521	0.84[AMR][1000 genomes]
rs6996186	0.87[ASN][1000 genomes]
rs7841364	0.93[ASN][1000 genomes]
rs980020	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023176	chr8:89707267-90154549	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1015363	chr8:89707267-90158090	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1022619	chr8:89709240-90137813	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv465735	chr8:89760311-90729507	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
5	nsv611714	chr8:89760311-90729507	Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
6	nsv891177	chr8:89941889-90166429	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1024956	chr8:90104423-90459539	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
8	nsv539671	chr8:90104423-90459539	Active TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs1240087	CCL3	trans	brain	seeQTL
rs1240087	PTGS2	trans	brain	seeQTL
rs1240087	NPAS4	trans	brain	seeQTL
rs1240087	GADD45G	trans	brain	seeQTL
rs1240087	EGR4	trans	brain	seeQTL
rs1240087	CCL4	trans	brain	seeQTL
rs1240087	EGR2	trans	brain	seeQTL
rs1240087	FOSB	trans	brain	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:90111800-90114200	Enhancers	Hela-S3	cervix
2	chr8:90113200-90114000	Enhancers	A549	lung

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