Variant report

Variant	rs4959012
Chromosome Location	chr6:30114845-30114846
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:30110146..30111985-chr6:30113491..30115046,2	K562	blood:
2	chr6:30107127..30109634-chr6:30113826..30115474,2	MCF-7	breast:

Extended variants
information (count: 135 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:135)

rs_ID	r²[population]
rs1042338	0.84[EUR][1000 genomes]
rs1076229	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10947053	0.92[ASN][1000 genomes]
rs13194768	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1419671	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1419672	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1419673	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1541324	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1573297	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1573298	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1573299	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17194607	0.82[EUR][1000 genomes]
rs2239530	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2284163	0.92[ASN][1000 genomes]
rs2285795	0.86[EUR][1000 genomes]
rs2285796	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2508030	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2508031	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2517653	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2517655	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28400887	0.86[ASN][1000 genomes]
rs2857433	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2857435	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2857436	0.90[ASN][1000 genomes]
rs2857438	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2857439	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2857440	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2857458	0.90[ASN][1000 genomes]
rs3132124	0.81[ASN][1000 genomes]
rs3778622	0.83[EUR][1000 genomes]
rs3815079	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3815080	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3815082	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3815084	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3815085	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3815086	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3888580	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4392759	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711211	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs4713293	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4959011	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4959041	0.92[ASN][1000 genomes]
rs4959044	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs757259	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs757261	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs757262	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs757263	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs757264	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7843	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9261424	0.92[ASN][1000 genomes]
rs9261431	0.92[ASN][1000 genomes]
rs9261433	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261438	0.92[ASN][1000 genomes]
rs9261439	0.92[ASN][1000 genomes]
rs9261440	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261442	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261443	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261444	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261445	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261446	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261448	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261449	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261450	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261451	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261453	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261454	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261455	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261456	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261457	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261458	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261459	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261461	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261462	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261463	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261465	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261466	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261467	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261468	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261470	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261471	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261472	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261473	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261479	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261480	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261481	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261482	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261483	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261484	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261485	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261486	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261488	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261489	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261490	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261491	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261492	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261493	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261495	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261496	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261497	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261498	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261499	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261500	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261501	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261502	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261503	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261504	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261505	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261507	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261508	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261509	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261511	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261512	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9261513	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261514	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9261516	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9261517	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261518	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261519	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261521	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9261522	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9261523	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261524	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261525	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261526	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261527	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261528	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261529	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261530	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261531	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261532	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261533	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261535	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs929156	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9380159	0.80[EUR][1000 genomes]
rs957765	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4959012	HLA-A	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:10 , 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	chr6:30114400-30115000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:30114600-30115000	Strong transcription	Duodenum Mucosa	Duodenum
7	chr6:30114600-30115600	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr6:30114600-30115800	Enhancers	Spleen	Spleen
9	chr6:30114800-30115000	Enhancers	Colonic Mucosa	Colon
10	chr6:30114800-30115000	Strong transcription	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links