Variant report

Variant	rs1733950
Chromosome Location	chr8:90062517-90062518
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 16 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10087014	0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11991355	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1240027	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1240044	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1240056	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1240057	0.87[EUR][1000 genomes]
rs1240063	0.86[EUR][1000 genomes]
rs1240070	0.86[EUR][1000 genomes]
rs1240072	0.86[EUR][1000 genomes]
rs1240080	0.86[EUR][1000 genomes]
rs1240081	0.86[EUR][1000 genomes]
rs1240138	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1240139	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1262791	0.86[EUR][1000 genomes]
rs13266220	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1586140	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1681451	0.86[EUR][1000 genomes]
rs16889783	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16890578	0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1733895	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1733896	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1733918	0.84[EUR][1000 genomes]
rs1733951	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1733960	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1922311	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2923309	0.83[EUR][1000 genomes]
rs318327	0.83[EUR][1000 genomes]
rs34051706	0.98[ASN][1000 genomes]
rs384160	0.81[EUR][1000 genomes]
rs427521	0.86[EUR][1000 genomes]
rs4507810	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4961112	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62532180	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6469748	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6981731	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6996186	0.94[EUR][1000 genomes]
rs7016298	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7841364	0.94[EUR][1000 genomes]
rs980020	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 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	nsv1032038	chr8:89735634-90068849	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	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
6	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
7	nsv1031054	chr8:89922522-90102748	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv1016268	chr8:89927580-90104483	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv539670	chr8:89927580-90104483	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv891177	chr8:89941889-90166429	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv611718	chr8:90019419-90074757	Enhancers Weak transcription Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv982090	chr8:90023438-90094324	Enhancers Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:16)

SNP	Gene	Cis/trans	Tissue	Source
rs1733950	FOSB	trans	brain	seeQTL
rs1733950	ZNF331	trans	brain	seeQTL
rs1733950	BTG2	trans	brain	seeQTL
rs1733950	FOS	trans	brain	seeQTL
rs1733950	ARC	trans	brain	seeQTL
rs1733950	CCL4	trans	brain	seeQTL
rs1733950	EGR2	trans	brain	seeQTL
rs1733950	EGR4	trans	brain	seeQTL
rs1733950	NPAS4	trans	brain	seeQTL
rs1733950	GADD45G	trans	brain	seeQTL
rs1733950	PTGS2	trans	brain	seeQTL
rs1733950	SLC25A25	trans	brain	seeQTL
rs1733950	CCL3L1	trans	brain	seeQTL
rs1733950	RGS2	trans	brain	seeQTL
rs1733950	CCL3	trans	brain	seeQTL
rs1733950	EGR1	trans	brain	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:90060200-90083200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr8:90062400-90062800	Enhancers	Spleen	Spleen

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