Variant report

Variant	rs9261461
Chromosome Location	chr6:30101950-30101951
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SP1	chr6:30101848-30102797	HepG2	liver:	n/a	n/a
2	RXRA	chr6:30101929-30102513	HepG2	liver:	n/a	chr6:30102192-30102208
3	FOXA1	chr6:30101945-30102526	HepG2	liver:	n/a	n/a
4	MYBL2	chr6:30101763-30102809	HepG2	liver:	n/a	n/a
5	NR2F2	chr6:30101747-30102819	HepG2	liver:	n/a	n/a
6	FOXA1	chr6:30101875-30102656	HepG2	liver:	n/a	n/a
7	EP300	chr6:30101877-30102797	HepG2	liver:	n/a	n/a
8	HDAC2	chr6:30101743-30102543	HepG2	liver:	n/a	n/a
9	TEAD4	chr6:30101719-30102801	HepG2	liver:	n/a	n/a
10	ARID3A	chr6:30101514-30102736	HepG2	liver:	n/a	n/a
11	HDAC2	chr6:30101914-30102753	HepG2	liver:	n/a	n/a
12	FOXA1	chr6:30101794-30102495	HepG2	liver:	n/a	n/a
13	FOXA2	chr6:30101604-30102652	HepG2	liver:	n/a	n/a
14	HNF4G	chr6:30101932-30102693	HepG2	liver:	n/a	chr6:30102197-30102204 chr6:30102345-30102360 chr6:30102192-30102208
15	EP300	chr6:30101809-30102846	HepG2	liver:	n/a	n/a
16	RAD21	chr6:30101940-30102489	HepG2	liver:	n/a	n/a
17	CEBPB	chr6:30101942-30102492	HepG2	liver:	n/a	chr6:30102290-30102303
18	MYBL2	chr6:30101858-30102853	HepG2	liver:	n/a	n/a
19	FOXA1	chr6:30101948-30102682	HepG2	liver:	n/a	n/a
20	NFIC	chr6:30101874-30102750	HepG2	liver:	n/a	n/a
21	MBD4	chr6:30101932-30102679	HepG2	liver:	n/a	n/a
22	CEBPB	chr6:30101508-30102536	HepG2	liver:	n/a	chr6:30102290-30102303
23	NR2F2	chr6:30101944-30102839	HepG2	liver:	n/a	n/a
24	NFIC	chr6:30101897-30102584	HepG2	liver:	n/a	n/a
25	TCF7L2	chr6:30101901-30102387	HepG2	liver:	n/a	n/a
26	HNF4A	chr6:30101942-30102756	HepG2	liver:	n/a	chr6:30102197-30102204 chr6:30102192-30102208 chr6:30102346-30102361

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:30033618..30036318-chr6:30097659..30102068,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000252228	TF binding region
TRIM40	TF binding region
ENSG00000204619	Chromatin interaction

Extended variants
information (count: 131 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1042338	0.85[EUR][1000 genomes]
rs1076229	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10947053	0.82[ASN][1000 genomes]
rs13194768	0.80[EUR][1000 genomes]
rs1419671	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1419672	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1419673	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1541324	0.96[AFR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1573297	0.80[AFR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1573298	0.91[AFR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1573299	0.80[AFR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2239530	0.80[EUR][1000 genomes]
rs2284163	0.82[ASN][1000 genomes]
rs2285795	0.90[EUR][1000 genomes]
rs2285796	0.86[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2508030	0.86[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2508031	0.91[AFR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2517653	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2517655	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28400887	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2857433	0.86[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2857435	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2857436	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2857438	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2857439	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2857440	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2857458	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3132124	0.82[ASN][1000 genomes]
rs3815079	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3815080	0.96[AFR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3815082	0.96[AFR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3815084	0.96[AFR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3815085	0.96[AFR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3815086	0.96[AFR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3888580	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4392759	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4713293	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4959011	0.93[AFR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4959012	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4959041	0.82[ASN][1000 genomes]
rs4959044	0.80[AFR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs757259	0.80[AFR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs757261	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs757262	0.80[AFR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs757263	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs757264	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7843	0.80[EUR][1000 genomes]
rs9261424	0.82[ASN][1000 genomes]
rs9261431	0.82[ASN][1000 genomes]
rs9261433	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9261438	0.82[ASN][1000 genomes]
rs9261439	0.82[ASN][1000 genomes]
rs9261440	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261442	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9261443	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261444	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9261445	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9261446	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9261448	0.90[EUR][1000 genomes]
rs9261449	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9261450	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261451	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261453	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261454	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261455	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261456	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261457	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261458	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261459	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261462	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261463	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261465	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261466	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261467	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261468	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261470	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261471	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261472	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261473	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261479	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261480	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261481	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261482	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261483	0.98[AFR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261484	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9261485	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261486	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261488	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261489	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261490	0.96[AFR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261491	0.96[AFR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261492	0.93[AFR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261493	0.91[AFR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261495	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261496	0.96[AFR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261497	0.91[AFR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261498	0.96[AFR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261499	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261500	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261501	0.96[AFR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261502	0.96[AFR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261503	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261504	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261505	0.84[AFR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261507	0.96[AFR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261508	0.96[AFR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261509	0.96[AFR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261511	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261512	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261513	0.91[AFR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261514	0.80[AFR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261516	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9261517	0.80[AFR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261518	0.91[AFR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261519	0.86[AFR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261521	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9261522	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9261523	0.91[AFR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261524	0.80[AFR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261525	0.91[AFR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261526	0.86[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261527	0.91[AFR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261528	0.91[AFR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261529	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261530	0.86[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261531	0.86[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261532	0.86[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261533	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261535	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs929156	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs957765	0.80[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9261461	HLA-A	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30099000-30103600	Weak transcription	A549	lung
2	chr6:30099400-30103200	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr6:30099400-30103400	Weak transcription	Hela-S3	cervix
4	chr6:30101400-30104000	Enhancers	Fetal Intestine Small	intestine
5	chr6:30101800-30102000	Flanking Active TSS	HepG2	liver
6	chr6:30101800-30105000	Enhancers	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links