Variant report

Variant	rs1420864
Chromosome Location	chr5:103417386-103417387
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	chr5:103416241..103417960-chr5:103419579..103421622,2	MCF-7	breast:

Extended variants
information (count: 91 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs11960207	0.94[ASN][1000 genomes]
rs12520119	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12522020	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12653636	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1289165	0.91[ASN][1000 genomes]
rs1289166	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1289169	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1289170	0.85[ASN][1000 genomes]
rs1289171	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1289172	1.00[CHB][hapmap];0.82[JPT][hapmap];0.89[ASN][1000 genomes]
rs1289181	0.81[ASN][1000 genomes]
rs1289185	0.92[ASN][1000 genomes]
rs1289188	0.98[ASN][1000 genomes]
rs1289210	0.98[ASN][1000 genomes]
rs1289212	0.98[ASN][1000 genomes]
rs1289214	0.98[ASN][1000 genomes]
rs1289218	0.93[ASN][1000 genomes]
rs1289219	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1289223	0.84[EUR][1000 genomes]
rs1289228	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1289230	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1296452	0.91[ASN][1000 genomes]
rs13190616	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs1362697	0.87[ASN][1000 genomes]
rs1420865	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1420866	0.84[ASN][1000 genomes]
rs1420867	0.84[ASN][1000 genomes]
rs1592631	0.82[ASN][1000 genomes]
rs1592634	0.89[ASN][1000 genomes]
rs1882562	0.84[ASN][1000 genomes]
rs1882563	0.84[ASN][1000 genomes]
rs1882564	0.84[ASN][1000 genomes]
rs1882565	0.84[ASN][1000 genomes]
rs1882566	0.84[ASN][1000 genomes]
rs1882567	0.84[ASN][1000 genomes]
rs1895020	0.83[ASN][1000 genomes]
rs1895021	0.84[ASN][1000 genomes]
rs1922494	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1922505	0.84[ASN][1000 genomes]
rs1922506	0.84[ASN][1000 genomes]
rs1981768	0.84[ASN][1000 genomes]
rs1981769	0.84[ASN][1000 genomes]
rs1981770	0.84[ASN][1000 genomes]
rs1990749	0.84[ASN][1000 genomes]
rs2111430	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2111431	1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs2111432	0.94[ASN][1000 genomes]
rs2403366	0.80[ASN][1000 genomes]
rs2542083	0.84[ASN][1000 genomes]
rs2542084	0.84[ASN][1000 genomes]
rs2542085	0.84[ASN][1000 genomes]
rs2542086	0.84[ASN][1000 genomes]
rs2542087	0.84[ASN][1000 genomes]
rs2542088	0.84[ASN][1000 genomes]
rs2707382	0.89[ASN][1000 genomes]
rs2707404	0.84[ASN][1000 genomes]
rs2707405	0.83[ASN][1000 genomes]
rs2707406	0.84[ASN][1000 genomes]
rs2707407	0.84[ASN][1000 genomes]
rs2707408	0.83[ASN][1000 genomes]
rs2707409	0.83[ASN][1000 genomes]
rs2707410	0.84[ASN][1000 genomes]
rs2707411	0.84[ASN][1000 genomes]
rs2707412	0.84[ASN][1000 genomes]
rs2952550	0.84[ASN][1000 genomes]
rs2952551	0.84[ASN][1000 genomes]
rs4496683	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4703024	0.94[ASN][1000 genomes]
rs4703281	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4703282	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4703287	0.84[ASN][1000 genomes]
rs4703288	0.83[ASN][1000 genomes]
rs4703289	0.84[ASN][1000 genomes]
rs62361872	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62363598	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6596559	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6596560	0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6887182	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7732790	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[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	nsv1025859	chr5:102744479-103710290	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv537833	chr5:102744479-103710290	Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv882524	chr5:103237745-104019292	Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1027818	chr5:103318123-103445127	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1019939	chr5:103380722-103770101	Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv537836	chr5:103380722-103770101	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv1033278	chr5:103383207-103773361	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv882526	chr5:103390664-103478518	Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv462330	chr5:103406680-103533884	Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv599201	chr5:103406680-103533884	Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv462331	chr5:103408356-103472789	Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv599202	chr5:103408356-103472789	Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	5 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	chr5:103416000-103417600	Active TSS	K562	blood
2	chr5:103416800-103419200	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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