Variant report

Variant	rs4580827
Chromosome Location	chr6:74373679-74373680
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:74362605..74365737-chr6:74371847..74375318,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000119899	Chromatin interaction

Extended variants
information (count: 169 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:160)

rs_ID	r²[population]
rs12177538	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16883973	0.94[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs16883979	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1691341	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1691342	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1691349	0.87[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1691352	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1691353	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1703461	0.96[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1703464	0.89[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1703465	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1703466	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1741886	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1741888	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1741893	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1741894	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1741895	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1741899	0.96[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1741900	0.83[AMR][1000 genomes]
rs1808000	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1848523	0.87[AMR][1000 genomes]
rs1874231	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1972073	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs364734	0.83[AMR][1000 genomes]
rs3757108	0.94[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4079357	0.89[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4302643	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4708072	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4708073	0.98[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs472294	0.94[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs472300	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs473078	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs473921	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs474661	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs476838	0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs477820	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs478503	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs485349	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs487490	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs490454	0.96[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs493068	0.96[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs494807	0.94[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs494841	0.96[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs5007648	0.96[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs5007649	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs5007650	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs5007651	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs5007652	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs504477	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs506157	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs506262	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs518566	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs520589	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs525041	0.82[EUR][1000 genomes]
rs525044	0.82[EUR][1000 genomes]
rs527606	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs534211	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs540197	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs543642	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs555151	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs555286	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs555840	0.93[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs555957	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs556147	0.83[AMR][1000 genomes]
rs558641	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs558839	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs559843	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs562557	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs564364	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs567200	0.96[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs567727	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs568422	0.91[AMR][1000 genomes]
rs570050	0.87[AMR][1000 genomes]
rs572147	0.91[AMR][1000 genomes]
rs57315094	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs580531	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs583149	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58417654	0.96[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs584571	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58783392	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs588852	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs592752	0.87[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs595884	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs596414	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs598121	0.94[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs60551677	0.89[AMR][1000 genomes]
rs606742	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs606793	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs607132	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs607667	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs608557	0.91[AMR][1000 genomes]
rs609439	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs609790	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs609829	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs610260	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs611580	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs622967	0.96[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs623310	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs624632	0.93[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs625086	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs625512	0.93[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs635752	0.83[AMR][1000 genomes]
rs636166	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs636605	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs639256	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6453684	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs651981	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs653781	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs656748	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs657212	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs663199	0.82[AMR][1000 genomes]
rs664920	0.89[AMR][1000 genomes]
rs664950	0.83[AMR][1000 genomes]
rs673176	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs673511	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs674482	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs674938	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs674988	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs674989	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs676704	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs677073	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs678054	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs680391	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs683265	0.82[AMR][1000 genomes]
rs685491	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs686317	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs687210	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6930178	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6930465	0.94[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6940526	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6940706	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6940886	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs71542212	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73454523	0.91[AMR][1000 genomes]
rs766708	0.89[AMR][1000 genomes]
rs7739206	0.96[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7747069	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7758825	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7759157	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7764560	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7764768	0.93[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7764983	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs903515	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9293932	0.96[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9293933	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9442940	0.94[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9446947	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9446949	0.93[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9446952	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9446953	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9446954	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9446955	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9446957	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9446958	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9446960	0.82[AMR][1000 genomes]
rs9446961	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9446962	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9446964	0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9446966	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9446973	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3410973	chr6:73716033-74419545	Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv886158	chr6:74126084-74436825	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	179 gene(s)	inside rSNPs	diseases
3	nsv1027968	chr6:74155378-74521923	Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
4	nsv538305	chr6:74155378-74521923	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
5	nsv1017716	chr6:74173173-74401162	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	170 gene(s)	inside rSNPs	diseases
6	nsv1023250	chr6:74189642-74605976	Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases
7	nsv538306	chr6:74189642-74605976	Strong transcription Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases
8	nsv1029927	chr6:74300496-74424355	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
9	nsv1027691	chr6:74302980-74417450	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4580827	MTO1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:74365000-74374800	Weak transcription	HUVEC	blood vessel
2	chr6:74365200-74375000	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr6:74365400-74373800	Weak transcription	Fetal Intestine Small	intestine
4	chr6:74365600-74375600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr6:74367200-74374600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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