Variant report

Variant	rs9409718
Chromosome Location	chr9:97066625-97066626
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs12338655	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16912862	0.82[ASN][1000 genomes]
rs1971396	0.85[EUR][1000 genomes]
rs2479601	0.93[CEU][hapmap]
rs2479602	0.92[CEU][hapmap]
rs3118753	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3118754	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3118756	0.92[CEU][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3118761	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3118762	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3118765	0.82[AMR][1000 genomes]
rs3131901	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3131902	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3131904	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3131910	0.96[CEU][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4744346	0.92[CEU][hapmap]
rs59717415	0.86[ASN][1000 genomes]
rs6479533	0.81[ASN][1000 genomes]
rs6479534	0.81[ASN][1000 genomes]
rs688165	0.92[CEU][hapmap]
rs7031496	0.93[CEU][hapmap]
rs7041842	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7848227	0.92[CEU][hapmap]
rs7857240	0.82[ASN][1000 genomes]
rs9409511	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9409512	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9409513	0.96[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9409514	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9409759	0.92[CEU][hapmap]
rs9695176	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9696843	0.85[EUR][1000 genomes];0.81[ASN][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	nsv893592	chr9:96973995-97295269	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1046906	chr9:96999227-97239809	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	esv2761545	chr9:97025298-97356950	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv1041195	chr9:97054795-97402378	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9409718	RP11-307E17.8	cis	Esophagus Muscularis	GTEx

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97039400-97067600	Weak transcription	Brain Cingulate Gyrus	brain
2	chr9:97042600-97068400	Weak transcription	Fetal Brain Female	brain
3	chr9:97055600-97067800	Weak transcription	HepG2	liver
4	chr9:97055600-97068000	Weak transcription	Pancreas	Pancrea
5	chr9:97063600-97068200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr9:97064200-97067600	Weak transcription	Primary T cells from cord blood	blood
7	chr9:97064200-97068000	Weak transcription	Adipose Nuclei	Adipose
8	chr9:97064800-97067400	Weak transcription	Primary B cells from cord blood	blood
9	chr9:97066200-97067000	Enhancers	Fetal Brain Male	brain
10	chr9:97066400-97067000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr9:97066600-97067200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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