Variant report

Variant	rs2808363
Chromosome Location	chr9:109998563-109998564
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:109998399..110000270-chr9:110004881..110006442,2	MCF-7	breast:
2	chr9:109997045..109999849-chr9:110000685..110002475,2	K562	blood:
3	chr9:109996343..109999220-chr9:109999435..110002268,3	MCF-7	breast:

Extended variants
information (count: 65 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10113916	0.84[JPT][hapmap]
rs10119641	0.94[JPT][hapmap]
rs10481632	0.83[JPT][hapmap]
rs10521083	0.84[TSI][hapmap]
rs10739236	0.84[MEX][hapmap];0.82[MKK][hapmap];0.96[TSI][hapmap]
rs10759218	0.88[CHB][hapmap];0.85[ASN][1000 genomes]
rs10759219	0.88[CHD][hapmap];0.81[JPT][hapmap]
rs10816471	0.85[ASN][1000 genomes]
rs10816472	0.90[CHB][hapmap];0.91[CHD][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs10816473	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10816474	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10816477	0.89[JPT][hapmap];0.95[MEX][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap];0.89[AMR][1000 genomes]
rs10816480	0.82[AMR][1000 genomes]
rs10816485	0.83[JPT][hapmap]
rs10978764	0.90[CHB][hapmap];0.91[CHD][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs10978765	0.85[ASN][1000 genomes]
rs10978767	1.00[ASW][hapmap];0.94[CEU][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10978769	1.00[ASW][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.92[ASN][1000 genomes]
rs10978770	0.88[CHD][hapmap];0.81[JPT][hapmap]
rs10978775	0.94[JPT][hapmap];0.85[AMR][1000 genomes]
rs10978791	0.84[JPT][hapmap]
rs12342066	0.85[AMR][1000 genomes]
rs12345455	0.94[JPT][hapmap];0.85[MEX][hapmap]
rs12555417	0.82[AMR][1000 genomes]
rs1519049	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1519050	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1519051	0.85[ASN][1000 genomes]
rs1519052	0.85[ASN][1000 genomes]
rs1535766	0.88[CHD][hapmap];0.81[JPT][hapmap]
rs1535767	0.81[ASN][1000 genomes]
rs1805329	0.84[JPT][hapmap]
rs1805334	0.84[TSI][hapmap]
rs2417784	0.82[CHD][hapmap];0.84[JPT][hapmap];0.82[MKK][hapmap];0.96[TSI][hapmap]
rs2680218	0.85[ASN][1000 genomes]
rs2680219	0.85[ASN][1000 genomes]
rs2808362	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2808364	0.85[ASN][1000 genomes]
rs2808365	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28769087	0.82[AMR][1000 genomes]
rs28848858	0.82[AMR][1000 genomes]
rs4278207	0.80[TSI][hapmap]
rs4481670	0.94[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs698475	0.82[CHD][hapmap];0.84[JPT][hapmap];0.84[MEX][hapmap];0.96[TSI][hapmap]
rs7041137	0.89[JPT][hapmap]
rs7847661	0.85[ASN][1000 genomes]
rs7847784	0.88[CHB][hapmap];0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs7848194	0.90[CHB][hapmap];0.89[CHD][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs7852295	0.88[CHD][hapmap];0.81[JPT][hapmap]
rs7861304	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7861645	0.90[CHB][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs7861827	0.85[ASN][1000 genomes]
rs7862103	0.89[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs7866312	0.88[CHD][hapmap];0.81[JPT][hapmap]
rs7866353	0.81[JPT][hapmap]
rs7866797	0.88[CHD][hapmap];0.81[JPT][hapmap]
rs7867544	0.94[CEU][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs817836	0.82[CHD][hapmap];0.84[JPT][hapmap];0.84[MEX][hapmap];0.82[MKK][hapmap];0.96[TSI][hapmap]
rs817840	0.84[JPT][hapmap];0.85[MEX][hapmap];0.82[MKK][hapmap]
rs817841	0.84[JPT][hapmap]
rs942291	0.94[JPT][hapmap];0.85[MEX][hapmap]
rs9969728	0.94[JPT][hapmap];0.84[MEX][hapmap]

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	nsv869351	chr9:109593212-110191170	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv530948	chr9:109760752-110413602	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv831682	chr9:109937181-110075453	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv893698	chr9:109998563-110052660	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2808363	TXN	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:109997400-109999200	Enhancers	Liver	Liver
2	chr9:109998200-109998600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr9:109998200-109998600	Enhancers	Fetal Intestine Small	intestine

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