Variant report

Variant	rs1573298
Chromosome Location	chr6:30116160-30116161
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:30108193..30110590-chr6:30115816..30118414,2	K562	blood:

Extended variants
information (count: 131 )
Associated
traits (count: 13 )

rSNPs within LD-proxies of this variant (count:131)

rs_ID	r²[population]
rs1042338	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1076229	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10947053	0.82[ASN][1000 genomes]
rs13194768	0.81[EUR][1000 genomes]
rs1419671	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1419672	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1419673	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1541324	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1573297	0.89[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1573299	0.89[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2239530	0.81[EUR][1000 genomes]
rs2284163	0.82[ASN][1000 genomes]
rs2285795	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2285796	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2508030	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2508031	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2517653	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2517655	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28400887	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2857433	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2857435	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2857436	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2857438	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2857439	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2857440	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2857458	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3132124	0.82[ASN][1000 genomes]
rs3815079	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3815080	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3815082	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3815084	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3815085	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3815086	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3888580	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4392759	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4713293	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4959011	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4959012	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4959041	0.82[ASN][1000 genomes]
rs4959044	0.89[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs757259	0.89[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs757261	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs757262	0.89[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs757263	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs757264	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7843	0.81[EUR][1000 genomes]
rs9261424	0.82[ASN][1000 genomes]
rs9261431	0.82[ASN][1000 genomes]
rs9261433	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9261438	0.82[ASN][1000 genomes]
rs9261439	0.82[ASN][1000 genomes]
rs9261440	0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261442	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9261443	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261444	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9261445	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9261446	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9261448	0.88[EUR][1000 genomes]
rs9261449	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9261450	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261451	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261453	0.85[AFR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261454	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261455	0.85[AFR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261456	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261457	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261458	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261459	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261461	0.91[AFR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261462	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261463	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261465	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261466	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261467	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261468	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261470	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261471	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261472	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261473	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261479	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261480	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261481	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261482	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261483	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261484	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9261485	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261486	0.82[AFR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261488	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261489	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261490	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261491	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261492	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261493	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261495	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261496	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261497	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261498	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261499	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261500	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261501	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261502	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261503	0.85[AFR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261504	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261505	0.85[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261507	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261508	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261509	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261511	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261512	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261513	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261514	0.89[AFR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261516	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9261517	0.89[AFR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261518	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261519	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261521	0.83[AFR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9261522	0.83[AFR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9261523	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261524	0.89[AFR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261525	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261526	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261527	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261528	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261529	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261530	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261531	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261532	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261533	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261535	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs929156	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs957765	0.81[EUR][1000 genomes]

mRNA abundance (count:13)

SNP	Gene	Cis/trans	Tissue	Source
rs1573298	NDUFS1	trans	multi-tissue	Pritchard
rs1573298	KIT	trans	multi-tissue	Pritchard
rs1573298	HIST1H2BN	cis	parietal	SCAN
rs1573298	HLA-A	cis	multi-tissue	Pritchard
rs1573298	ZKSCAN3	cis	cerebellum	SCAN
rs1573298	HLA-H	cis	multi-tissue	Pritchard
rs1573298	HCG4	cis	multi-tissue	Pritchard
rs1573298	HIST1H2AM	cis	parietal	SCAN
rs1573298	HIST1H2AI	cis	parietal	SCAN
rs1573298	HLA-G	cis	multi-tissue	Pritchard
rs1573298	BTN2A1	cis	cerebellum	SCAN
rs1573298	TFG	trans	multi-tissue	Pritchard
rs1573298	HLA-A	cis	brain	seeQTL

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30112800-30119200	Strong transcription	Placenta	Placenta
2	chr6:30112800-30120800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:30113000-30119600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr6:30113800-30118600	Weak transcription	Fetal Intestine Large	intestine
5	chr6:30115400-30117800	Weak transcription	Primary hematopoietic stem cells	blood
6	chr6:30115600-30116400	Genic enhancers	Fetal Intestine Small	intestine
7	chr6:30115600-30117200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr6:30116000-30121800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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