Variant report

Variant	rs13318781
Chromosome Location	chr3:160886065-160886066
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160815777..160819768-chr3:160885068..160889447,5	MCF-7	breast:
2	chr3:160876047..160878704-chr3:160883637..160886578,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169255	Chromatin interaction

Extended variants
information (count: 89 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs12488037	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12488318	0.82[AMR][1000 genomes]
rs12488621	0.81[TSI][hapmap]
rs12488878	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs12494844	0.85[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.85[JPT][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13319969	0.91[CHD][hapmap];0.92[JPT][hapmap];0.82[MEX][hapmap];0.88[TSI][hapmap];0.84[AMR][1000 genomes]
rs13320863	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1471440	0.94[CHB][hapmap]
rs1599380	0.91[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1599382	0.82[CEU][hapmap]
rs1599391	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs163138	0.93[CHB][hapmap]
rs1947685	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1947686	0.92[JPT][hapmap]
rs1970834	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2061580	0.82[CEU][hapmap]
rs2231252	0.91[CHD][hapmap];0.85[JPT][hapmap];0.91[TSI][hapmap]
rs2279106	0.81[TSI][hapmap]
rs336544	0.94[CHB][hapmap];0.88[CHD][hapmap]
rs336545	0.94[CHB][hapmap];0.88[CHD][hapmap]
rs336546	0.94[CHB][hapmap];0.88[CHD][hapmap]
rs336564	0.94[CHB][hapmap];0.82[CHD][hapmap]
rs336565	0.94[CHB][hapmap]
rs336566	0.94[CHB][hapmap]
rs336574	0.94[CHB][hapmap];0.88[CHD][hapmap]
rs336576	0.94[CHB][hapmap]
rs336587	0.93[CHB][hapmap]
rs336588	0.94[CHB][hapmap]
rs336592	0.94[CHB][hapmap];0.82[CHD][hapmap]
rs35152606	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs35446590	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs36105583	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4270539	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4429651	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4443220	0.85[JPT][hapmap]
rs4465984	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs4487256	0.94[CHB][hapmap];0.82[ASN][1000 genomes]
rs4490410	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62278031	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62278055	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62279860	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs62279861	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs62279862	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6441353	0.85[JPT][hapmap]
rs6763838	0.81[TSI][hapmap]
rs6795977	0.85[CHD][hapmap];0.85[JPT][hapmap];0.91[TSI][hapmap]
rs6799805	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs731363	0.94[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73160351	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73160362	0.82[ASN][1000 genomes]
rs7429731	0.81[TSI][hapmap]
rs7622060	0.82[CHB][hapmap];0.83[JPT][hapmap]
rs7634115	0.85[AMR][1000 genomes]
rs7649954	0.81[TSI][hapmap]
rs778651	0.82[CEU][hapmap]
rs778652	0.82[CEU][hapmap]
rs778655	0.86[CEU][hapmap]
rs898676	0.82[CEU][hapmap]
rs898683	0.81[TSI][hapmap]
rs898684	0.81[TSI][hapmap]
rs9290067	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9290068	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9290072	0.94[CHB][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs978933	0.94[CHB][hapmap];0.88[CHD][hapmap]
rs9810737	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9811833	0.94[CHB][hapmap];0.88[CHD][hapmap]
rs9812083	0.94[CHB][hapmap]
rs9817747	0.86[ASN][1000 genomes]
rs9818516	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9824308	0.85[CHD][hapmap];0.85[JPT][hapmap];0.90[TSI][hapmap]
rs9824501	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9825118	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9827833	0.94[CHB][hapmap];0.82[AMR][1000 genomes]
rs9828189	0.94[CHB][hapmap];0.88[CHD][hapmap]
rs9828205	0.93[EUR][1000 genomes]
rs9828231	0.82[CHB][hapmap];0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9831725	0.89[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9836074	0.95[EUR][1000 genomes]
rs9836094	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9839404	0.94[CHB][hapmap]
rs9842281	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9846316	0.93[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs9857946	0.91[ASN][1000 genomes]
rs9858399	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9861850	0.90[TSI][hapmap]
rs9862258	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9876553	0.87[CHB][hapmap];0.88[CHD][hapmap];0.80[ASN][1000 genomes]
rs9878365	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs13318781	DNMT1	trans	lymphoblastoid	RTeQTL
rs13318781	B3GALNT1	cis	Artery Tibial	GTEx

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160881000-160886400	Weak transcription	Fetal Heart	heart
2	chr3:160883200-160888600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:160883200-160889000	Weak transcription	Ovary	ovary

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