Variant report

Variant	rs7870540
Chromosome Location	chr9:100573925-100573926
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	NFIC	chr9:100573652-100574371	SK-N-SH	brain:	n/a	n/a
2	JUND	chr9:100573895-100574590	SK-N-SH	brain:	n/a	chr9:100574277-100574288 chr9:100574275-100574284 chr9:100574276-100574285 chr9:100574274-100574286
3	TCF12	chr9:100573743-100574427	SK-N-SH	brain:	n/a	n/a
4	FOS	chr9:100573613-100574456	MCF10A-Er-Src	breast:	n/a	chr9:100574277-100574288 chr9:100574274-100574285 chr9:100574275-100574284 chr9:100574276-100574285 chr9:100574274-100574286

Variant related genes	Relation type
ENSG00000236130	TF binding region

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10046805	0.83[ASN][1000 genomes]
rs10739513	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10759960	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10818124	0.91[ASN][1000 genomes]
rs10818133	0.83[ASN][1000 genomes]
rs10983833	0.84[ASN][1000 genomes]
rs10983836	0.80[AFR][1000 genomes]
rs10983853	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs10983855	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs10983871	0.94[ASN][1000 genomes]
rs10983889	0.84[AFR][1000 genomes]
rs10983958	0.81[ASN][1000 genomes]
rs10983959	0.81[ASN][1000 genomes]
rs10983975	0.81[AMR][1000 genomes]
rs1156850	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12341377	0.83[ASN][1000 genomes]
rs12347191	0.83[ASN][1000 genomes]
rs12348304	0.83[ASN][1000 genomes]
rs12348691	0.83[ASN][1000 genomes]
rs1348386	0.81[AMR][1000 genomes]
rs1443434	0.83[ASN][1000 genomes]
rs1443435	0.83[ASN][1000 genomes]
rs1465965	0.81[AMR][1000 genomes]
rs1822416	0.90[AFR][1000 genomes]
rs1867277	0.80[ASN][1000 genomes]
rs1867279	0.81[AMR][1000 genomes]
rs2401638	0.90[AFR][1000 genomes]
rs2401639	0.83[ASN][1000 genomes]
rs3021523	0.81[AMR][1000 genomes]
rs3758248	0.83[ASN][1000 genomes]
rs3758249	0.83[ASN][1000 genomes]
rs3758251	0.81[ASN][1000 genomes]
rs4297160	0.96[ASN][1000 genomes]
rs4460498	0.81[ASN][1000 genomes]
rs4743138	0.81[AMR][1000 genomes]
rs6478423	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6478437	0.83[ASN][1000 genomes]
rs7024345	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7033765	0.96[ASN][1000 genomes]
rs7045138	0.96[ASN][1000 genomes]
rs7046645	0.81[AMR][1000 genomes]
rs7048394	0.84[AMR][1000 genomes]
rs7848950	0.81[AMR][1000 genomes]
rs7849497	0.81[AMR][1000 genomes]
rs7851552	0.83[ASN][1000 genomes]
rs7851660	0.81[ASN][1000 genomes]
rs7859751	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7870795	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7870871	0.86[AMR][1000 genomes]
rs894672	0.81[AMR][1000 genomes]
rs894673	0.83[ASN][1000 genomes]
rs907577	0.83[ASN][1000 genomes]
rs925485	0.81[AMR][1000 genomes]
rs925486	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043753	chr9:100458109-100599265	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	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

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100566600-100574000	Weak transcription	Pancreas	Pancrea
2	chr9:100568800-100575000	Enhancers	HMEC	breast
3	chr9:100568800-100575000	Enhancers	NHEK	skin
4	chr9:100569000-100574800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr9:100569400-100574800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr9:100569400-100575000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr9:100570600-100574200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived

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