Variant report

Variant	rs4743140
Chromosome Location	chr9:100641621-100641622
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:100641121..100643077-chr9:100648221..100651818,3	MCF-7	breast:
2	chr9:100640910..100642797-chr9:100817755..100820599,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000095380	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10046805	0.80[AFR][1000 genomes]
rs10113907	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10119795	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10818239	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11999801	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12003789	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12238579	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12347191	0.81[AFR][1000 genomes]
rs13300874	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13301569	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1443434	0.81[AFR][1000 genomes]
rs1443435	0.81[AFR][1000 genomes]
rs1561958	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1561959	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3758249	0.80[AFR][1000 genomes]
rs4460498	0.81[AFR][1000 genomes]
rs6478450	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6586	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67449879	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7020644	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7033315	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7357707	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7853349	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7870125	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs874004	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs894673	0.80[AFR][1000 genomes]
rs907577	0.80[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893611	chr9:100561055-100739888	Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs4743140	FOXE1	cis	Esophagus Mucosa	GTEx
rs4743140	C9orf156	cis	Skin Sun Exposed Lower leg	GTEx
rs4743140	C9orf156	cis	Esophagus Muscularis	GTEx
rs4743140	C9orf156	cis	Thyroid	GTEx

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100637600-100658000	Weak transcription	Gastric	stomach
2	chr9:100637800-100652800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:100638000-100642800	Weak transcription	Right Atrium	heart
4	chr9:100640200-100642200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr9:100640200-100642200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr9:100640200-100642400	Weak transcription	Osteobl	bone
7	chr9:100640600-100642200	Weak transcription	NHLF	lung
8	chr9:100640600-100642400	Weak transcription	Adipose Nuclei	Adipose

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