Variant report

Variant	rs2577533
Chromosome Location	chr5:128299914-128299915
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr5:128299761-128299961	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:128299750..128303179-chr5:128428591..128431385,3	MCF-7	breast:

Variant related genes	Relation type
SLC27A6	TF binding region
ENSG00000066583	Chromatin interaction

Extended variants
information (count: 140 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:137)

rs_ID	r²[population]
rs11241987	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11740215	1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11743171	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1181983	0.86[TSI][hapmap]
rs12189398	0.83[ASN][1000 genomes]
rs12518184	0.83[ASN][1000 genomes]
rs13166325	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13169590	0.86[ASN][1000 genomes]
rs13190393	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1421890	0.94[ASN][1000 genomes]
rs17616784	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17616974	1.00[CHB][hapmap];0.91[GIH][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17616991	1.00[CHB][hapmap];0.91[GIH][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17678874	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1898543	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1898544	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1898549	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526196	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526201	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526202	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526209	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526210	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526211	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526212	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526213	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526214	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526225	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2526239	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2526240	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526241	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526243	0.86[ASW][hapmap];0.84[CEU][hapmap];1.00[CHB][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2526245	0.81[ASW][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.86[MKK][hapmap];0.94[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs2526246	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2526247	0.81[ASW][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.86[MKK][hapmap];0.94[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs2526248	1.00[CHB][hapmap];0.86[GIH][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2526249	1.00[CHB][hapmap];0.91[GIH][hapmap];0.93[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2526251	1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2526253	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2526257	1.00[CHB][hapmap];0.91[GIH][hapmap];0.93[TSI][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2545015	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2577399	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577402	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577403	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577423	0.80[EUR][1000 genomes]
rs2577426	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2577428	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2577429	1.00[CHB][hapmap];0.91[GIH][hapmap];0.93[TSI][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2577430	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2577432	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2577433	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2577435	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2577436	1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2577437	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2577438	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2577439	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2577440	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2577442	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2577443	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2577445	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577446	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577477	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2577504	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577506	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577507	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577508	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577509	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577510	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577511	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577512	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577513	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577514	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577528	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577529	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2577530	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577534	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577535	0.82[CHB][hapmap];1.00[JPT][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577536	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2577537	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2577538	1.00[JPT][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2577539	0.88[JPT][hapmap]
rs2577540	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.86[MKK][hapmap];0.94[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs2577541	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2577542	1.00[CHB][hapmap];0.91[GIH][hapmap];0.93[TSI][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2577543	1.00[CHB][hapmap];0.89[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2577544	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2577545	1.00[CHB][hapmap];0.91[GIH][hapmap];0.93[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2577546	1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2577547	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2577555	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577556	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577560	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577561	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577562	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3094874	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3098299	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3098300	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34075274	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34299037	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34683252	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34813132	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34831887	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35044703	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35386300	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35388070	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35590597	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs35696888	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35767068	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35779465	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35869181	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs36139771	0.87[AMR][1000 genomes]
rs36147677	0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs36149993	0.85[AMR][1000 genomes]
rs36155285	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs36157890	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs36171961	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs36175029	0.85[AMR][1000 genomes]
rs36188905	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs36191603	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs36192190	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs36192465	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62391271	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62391272	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62391297	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62399671	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62399676	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62399681	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62399682	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62399683	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62399685	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs67198161	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6861986	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6881009	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6881032	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71587998	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs71587999	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs71592877	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7349831	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882839	chr5:128205828-128390167	Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv882840	chr5:128205828-128428962	Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv830485	chr5:128298622-128480492	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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