Variant report

Variant	rs427409
Chromosome Location	chr13:93847351-93847352
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:93847246..93849434-chr13:93878377..93880915,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000183098	Chromatin interaction

Extended variants
information (count: 99 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs1413066	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1413067	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16948474	0.85[AFR][1000 genomes]
rs1760330	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1810933	0.83[AFR][1000 genomes]
rs1855269	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1855274	0.84[AFR][1000 genomes]
rs1855275	0.84[AFR][1000 genomes]
rs223307	0.84[AFR][1000 genomes]
rs2388917	0.83[AFR][1000 genomes]
rs2780374	0.84[AFR][1000 genomes]
rs2780381	0.84[AFR][1000 genomes]
rs2780382	0.85[AFR][1000 genomes]
rs2781035	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2781051	0.83[AFR][1000 genomes]
rs2781052	0.82[AFR][1000 genomes]
rs319518	0.85[AFR][1000 genomes]
rs319520	0.86[AFR][1000 genomes]
rs319521	0.88[AFR][1000 genomes]
rs320070	0.84[AFR][1000 genomes]
rs320071	0.84[AFR][1000 genomes]
rs320072	0.84[AFR][1000 genomes]
rs320076	0.85[AFR][1000 genomes]
rs320078	0.85[AFR][1000 genomes]
rs320079	0.85[AFR][1000 genomes]
rs320080	0.85[AFR][1000 genomes]
rs320081	0.84[AFR][1000 genomes]
rs364631	0.84[AFR][1000 genomes]
rs366378	0.83[AFR][1000 genomes]
rs367924	0.84[AFR][1000 genomes]
rs368555	0.84[AFR][1000 genomes]
rs371381	0.83[AFR][1000 genomes]
rs372160	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs374389	0.84[AFR][1000 genomes]
rs376830	0.84[AFR][1000 genomes]
rs376851	0.84[AFR][1000 genomes]
rs380416	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs380786	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs381662	0.84[AFR][1000 genomes]
rs385054	0.84[AFR][1000 genomes]
rs387992	0.84[AFR][1000 genomes]
rs389587	0.86[AFR][1000 genomes]
rs390904	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs394973	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs404483	0.84[AFR][1000 genomes]
rs412938	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs415326	0.84[AFR][1000 genomes]
rs417537	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs417815	0.84[AFR][1000 genomes]
rs418948	0.84[AFR][1000 genomes]
rs420913	0.84[AFR][1000 genomes]
rs421381	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs421861	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs424491	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs425257	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs425955	0.84[AFR][1000 genomes]
rs426342	0.84[AFR][1000 genomes]
rs426397	0.84[AFR][1000 genomes]
rs426787	0.84[AFR][1000 genomes]
rs427399	0.97[AFR][1000 genomes]
rs427503	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs428015	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4300492	0.81[AFR][1000 genomes]
rs431476	0.82[AFR][1000 genomes]
rs432632	0.84[AFR][1000 genomes]
rs432800	0.84[AFR][1000 genomes]
rs433129	0.84[AFR][1000 genomes]
rs433135	0.84[AFR][1000 genomes]
rs437435	0.84[AFR][1000 genomes]
rs437913	0.82[AFR][1000 genomes]
rs438139	0.84[AFR][1000 genomes]
rs439216	0.84[AFR][1000 genomes]
rs443603	0.91[AFR][1000 genomes]
rs444365	1.00[AFR][1000 genomes]
rs450509	0.84[AFR][1000 genomes]
rs450732	0.84[AFR][1000 genomes]
rs451048	0.86[AFR][1000 genomes]
rs454092	0.84[AFR][1000 genomes]
rs475566	0.83[AFR][1000 genomes]
rs489911	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs489934	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs521884	0.84[AFR][1000 genomes]
rs549385	0.85[AFR][1000 genomes]
rs7330458	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs914865	0.83[AFR][1000 genomes]
rs914866	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869070	chr13:93347616-94286933	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv832682	chr13:93700861-93874801	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv900912	chr13:93800114-93853929	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv900913	chr13:93814026-93853929	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv900914	chr13:93814026-93858612	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv900915	chr13:93814026-93861348	Enhancers Weak transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv900916	chr13:93814026-93869041	Active TSS Enhancers Flanking Active TSS Weak transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv456076	chr13:93816293-93853929	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv562748	chr13:93816293-93853929	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv900917	chr13:93816293-93858612	Enhancers Weak transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv900918	chr13:93816293-93861348	Enhancers Weak transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	nsv1053035	chr13:93842576-94229732	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
13	nsv541880	chr13:93842576-94229732	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 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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