Variant report

Variant	rs296659
Chromosome Location	chr9:93711546-93711547
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:93682204..93686521-chr9:93708730..93712212,6	MCF-7	breast:
2	chr9:93709203..93711650-chr9:94185234..94187517,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165030	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1041381	1.00[CEU][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1330682	1.00[CEU][hapmap]
rs1460828	0.85[MEX][hapmap]
rs158683	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1675292	1.00[EUR][1000 genomes]
rs1675293	1.00[EUR][1000 genomes]
rs1675294	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs1675295	1.00[EUR][1000 genomes]
rs1675296	1.00[EUR][1000 genomes]
rs1675297	1.00[CEU][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1675298	1.00[EUR][1000 genomes]
rs1675302	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1675303	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1675305	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1675306	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1675307	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs169743	1.00[CEU][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1755982	1.00[EUR][1000 genomes]
rs1755983	1.00[EUR][1000 genomes]
rs184114	1.00[EUR][1000 genomes]
rs190029	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2774255	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs291746	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs291747	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs291749	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs291752	1.00[EUR][1000 genomes]
rs291754	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs291755	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs291757	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs291758	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs291759	1.00[CEU][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs291761	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs291763	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs296653	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs296654	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs296656	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs296658	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs296660	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs296662	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs296670	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs296674	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs296675	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs296678	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs296685	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs296687	0.91[EUR][1000 genomes]
rs296689	0.91[EUR][1000 genomes]
rs296692	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes]
rs296694	0.82[EUR][1000 genomes]
rs296697	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs296704	0.91[EUR][1000 genomes]
rs296705	0.91[EUR][1000 genomes]
rs296707	0.82[EUR][1000 genomes]
rs296712	0.82[EUR][1000 genomes]
rs296720	0.82[EUR][1000 genomes]
rs296723	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs296727	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs364622	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes]
rs376648	0.91[EUR][1000 genomes]
rs390574	0.91[EUR][1000 genomes]
rs426365	0.91[EUR][1000 genomes]
rs7035409	0.85[MEX][hapmap]
rs7047670	0.85[MEX][hapmap]
rs7859976	0.85[MEX][hapmap]

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	nsv1046989	chr9:93353987-93800416	Transcr. at gene 5' and 3' Weak transcription Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv893568	chr9:93539879-93774385	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:93709400-93711600	Enhancers	Rectal Mucosa Donor 31	rectum
2	chr9:93711000-93712000	Weak transcription	Esophagus	oesophagus

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