Variant report

Variant	rs2781300
Chromosome Location	chr13:89895755-89895756
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	chr13:89889445..89891378-chr13:89894578..89897231,2	MCF-7	breast:

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10459312	0.85[ASN][1000 genomes]
rs10459313	0.85[ASN][1000 genomes]
rs11843359	0.85[ASN][1000 genomes]
rs1330943	0.86[CHB][hapmap];0.86[CHD][hapmap];0.91[JPT][hapmap]
rs1412091	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1412092	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1412093	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1413464	0.95[ASN][1000 genomes]
rs1413465	0.93[ASN][1000 genomes]
rs1577150	0.88[ASN][1000 genomes]
rs178345	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1888743	0.83[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1931486	0.90[ASN][1000 genomes]
rs1981087	0.88[ASN][1000 genomes]
rs2120871	0.91[ASN][1000 genomes]
rs2134802	0.83[ASN][1000 genomes]
rs2166199	0.95[ASN][1000 genomes]
rs2348563	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs314527	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs314533	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs314537	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs314538	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs314539	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs314543	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs314545	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs314546	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs314547	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs314548	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs314549	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs314554	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs314560	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs314566	0.97[ASN][1000 genomes]
rs314569	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs314571	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs314577	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs366604	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs375273	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3803211	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap]
rs387330	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs411403	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs415859	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs421843	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs430857	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs454137	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6492421	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7320177	0.85[ASN][1000 genomes]
rs7323034	0.83[ASN][1000 genomes]
rs7335501	0.91[ASN][1000 genomes]
rs7335516	0.84[ASN][1000 genomes]
rs9301544	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9301546	0.90[ASN][1000 genomes]
rs9515542	0.86[ASN][1000 genomes]
rs9515543	0.88[ASN][1000 genomes]
rs9522473	0.87[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9555857	0.84[ASN][1000 genomes]
rs9555858	0.85[ASN][1000 genomes]
rs9560248	0.83[ASN][1000 genomes]
rs9560249	0.83[ASN][1000 genomes]
rs9560250	0.83[ASN][1000 genomes]
rs9560251	0.85[ASN][1000 genomes]
rs9560261	0.82[AMR][1000 genomes]
rs9560295	0.81[CHB][hapmap];0.86[CHD][hapmap];0.91[JPT][hapmap]
rs9588553	0.83[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9588556	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900821	chr13:89302824-89941209	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv915862	chr13:89408920-90118030	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1040210	chr13:89584630-90156186	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv1048574	chr13:89650680-90232894	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv900844	chr13:89721607-89944833	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv832675	chr13:89772410-89926955	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv900851	chr13:89797903-89941209	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv900852	chr13:89817399-89908281	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv900854	chr13:89824076-89898500	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv900855	chr13:89824076-89908281	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv900856	chr13:89824076-89922393	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
12	nsv900857	chr13:89824076-89934019	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	7 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	chr13:89885000-89902400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr13:89895400-89896000	Enhancers	iPS-20b Cell Line	embryonic stem cell

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