Variant report

Variant	rs12026006
Chromosome Location	chr1:79704569-79704570
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	chr1:79702123..79704938-chr10:125479865..125482682,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10158555	0.94[ASN][1000 genomes]
rs10489649	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10874029	0.94[ASN][1000 genomes]
rs11162657	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12024442	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12024774	0.94[ASN][1000 genomes]
rs12024949	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12025007	1.00[ASN][1000 genomes]
rs12025109	0.94[ASN][1000 genomes]
rs12025146	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12025643	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12026857	1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12026909	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12026964	0.97[ASN][1000 genomes]
rs12026969	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12027492	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12027821	0.94[ASN][1000 genomes]
rs12028115	1.00[ASN][1000 genomes]
rs12028685	1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12031186	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12032517	0.94[ASN][1000 genomes]
rs12033889	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12034005	0.94[ASN][1000 genomes]
rs12035431	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12036705	0.94[ASN][1000 genomes]
rs12038491	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12039243	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12039920	1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12040033	1.00[AMR][1000 genomes]
rs12044503	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12046684	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12046976	1.00[ASN][1000 genomes]
rs12048398	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12049507	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12077125	0.94[ASN][1000 genomes]
rs12088382	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1331715	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1412140	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28370400	0.94[ASN][1000 genomes]
rs5003964	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72941396	1.00[ASN][1000 genomes]
rs72943004	0.89[ASN][1000 genomes]
rs72943084	0.94[ASN][1000 genomes]
rs72943085	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491784	chr1:79146141-79853482	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv830326	chr1:79573379-79735667	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv871182	chr1:79614989-79822735	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv999471	chr1:79650363-79774433	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv870657	chr1:79701220-79890774	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 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	chr1:79698400-79705000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:79702200-79705000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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