Variant report

Variant	rs11142775
Chromosome Location	chr9:73895975-73895976
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10081739	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10117928	0.84[ASN][1000 genomes]
rs10125889	0.84[ASN][1000 genomes]
rs1027722	0.80[ASN][1000 genomes]
rs10429473	0.97[ASN][1000 genomes]
rs10429502	0.97[ASN][1000 genomes]
rs10512008	0.91[ASN][1000 genomes]
rs10746866	0.89[ASN][1000 genomes]
rs10746870	0.90[ASN][1000 genomes]
rs10780998	0.85[ASN][1000 genomes]
rs10781000	0.89[ASN][1000 genomes]
rs10781003	0.90[ASN][1000 genomes]
rs10781007	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10781008	0.92[ASN][1000 genomes]
rs10781009	0.92[ASN][1000 genomes]
rs10868971	0.80[ASN][1000 genomes]
rs10868981	0.84[ASN][1000 genomes]
rs10868982	0.84[ASN][1000 genomes]
rs10868983	0.84[ASN][1000 genomes]
rs10868992	0.89[ASN][1000 genomes]
rs10868996	0.89[ASN][1000 genomes]
rs10868998	0.90[ASN][1000 genomes]
rs10869007	0.91[ASN][1000 genomes]
rs10869008	0.92[ASN][1000 genomes]
rs10869009	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11142735	0.84[ASN][1000 genomes]
rs11142746	0.85[ASN][1000 genomes]
rs11142748	0.89[ASN][1000 genomes]
rs11142756	0.89[ASN][1000 genomes]
rs11142767	0.92[ASN][1000 genomes]
rs11142768	0.92[ASN][1000 genomes]
rs11142770	0.94[ASN][1000 genomes]
rs11142776	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11790079	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12337266	0.86[ASN][1000 genomes]
rs12338261	0.91[ASN][1000 genomes]
rs12346443	0.84[ASN][1000 genomes]
rs12346966	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12351136	0.92[ASN][1000 genomes]
rs13287797	0.89[ASN][1000 genomes]
rs1354459	0.89[ASN][1000 genomes]
rs1411165	0.80[ASN][1000 genomes]
rs1504387	0.91[ASN][1000 genomes]
rs1504394	0.84[ASN][1000 genomes]
rs1504396	0.84[ASN][1000 genomes]
rs1504397	0.84[ASN][1000 genomes]
rs1580911	0.89[ASN][1000 genomes]
rs1604854	0.85[ASN][1000 genomes]
rs17056652	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2062863	0.97[ASN][1000 genomes]
rs2062864	0.97[ASN][1000 genomes]
rs2174305	0.84[ASN][1000 genomes]
rs2174306	0.84[ASN][1000 genomes]
rs2309841	0.84[ASN][1000 genomes]
rs2309908	0.89[ASN][1000 genomes]
rs2860097	0.92[ASN][1000 genomes]
rs4745071	0.84[ASN][1000 genomes]
rs4745073	0.84[ASN][1000 genomes]
rs4745074	0.84[ASN][1000 genomes]
rs4745075	0.85[ASN][1000 genomes]
rs62543438	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6560185	0.80[ASN][1000 genomes]
rs6560186	0.80[ASN][1000 genomes]
rs6560191	0.85[ASN][1000 genomes]
rs6560192	0.90[ASN][1000 genomes]
rs6560193	0.97[ASN][1000 genomes]
rs6560194	0.97[ASN][1000 genomes]
rs7022575	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7024365	0.89[ASN][1000 genomes]
rs7024634	0.89[ASN][1000 genomes]
rs7029914	0.80[ASN][1000 genomes]
rs7034708	0.88[ASN][1000 genomes]
rs7035778	0.85[ASN][1000 genomes]
rs7035975	0.88[ASN][1000 genomes]
rs7037178	0.97[ASN][1000 genomes]
rs7044209	0.97[ASN][1000 genomes]
rs7049121	0.84[ASN][1000 genomes]
rs719858	0.91[ASN][1000 genomes]
rs7849553	0.82[ASN][1000 genomes]
rs7850256	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7850409	0.84[ASN][1000 genomes]
rs7850909	0.80[ASN][1000 genomes]
rs7851045	0.80[ASN][1000 genomes]
rs7852254	0.88[ASN][1000 genomes]
rs7861071	0.85[ASN][1000 genomes]
rs7863093	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7870937	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035505	chr9:73709852-73934353	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv893442	chr9:73778502-74115344	Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv893443	chr9:73859086-74008905	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv916062	chr9:73861614-74246247	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv614605	chr9:73887092-73915883	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11142775	FAM108B1	cis	parietal	SCAN
rs11142775	DDX59	trans	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:73887200-73900200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr9:73893000-73896400	Enhancers	HepG2	liver
3	chr9:73895200-73900200	Weak transcription	Liver	Liver

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