Variant report

Variant	rs1076229
Chromosome Location	chr6:30098609-30098610
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:19)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:19 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:30043600..30044186-chr6:30098419..30099060,2	K562	blood:
2	chr6:30033618..30036318-chr6:30097659..30102068,3	MCF-7	breast:
3	chr6:30005064..30005630-chr6:30098498..30099274,2	K562	blood:
4	chr6:30098561..30099505-chr6:30421018..30421961,4	K562	blood:
5	chr6:29673438..29674041-chr6:30098583..30099284,2	MCF-7	breast:
6	chr6:29815484..29816856-chr6:30098503..30099361,8	K562	blood:
7	chr6:30044585..30046967-chr6:30097709..30100269,2	MCF-7	breast:
8	chr6:30070867..30073416-chr6:30097029..30099845,2	K562	blood:
9	chr6:29980840..29981567-chr6:30098510..30099011,2	MCF-7	breast:
10	chr6:30070301..30072986-chr6:30097734..30100221,43	MCF-7	breast:
11	chr6:30093045..30094849-chr6:30097589..30099576,2	MCF-7	breast:
12	chr6:30067195..30070112-chr6:30098151..30100617,2	MCF-7	breast:
13	chr6:29802341..29803261-chr6:30098257..30098816,2	K562	blood:
14	chr6:30097580..30101195-chr6:30103058..30105479,3	MCF-7	breast:
15	chr6:30098581..30099368-chr6:30137398..30138042,2	K562	blood:
16	chr6:30070471..30072023-chr6:30098513..30099477,20	MCF-7	breast:
17	chr6:30091019..30094481-chr6:30095201..30099363,3	K562	blood:
18	chr6:30070180..30072059-chr6:30098450..30099535,14	K562	blood:
19	chr20:13330858..13331683-chr6:30098592..30099414,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000204619	Chromatin interaction
ENSG00000204614	Chromatin interaction
ENSG00000204618	Chromatin interaction
ENSG00000204616	Chromatin interaction
ENSG00000231226	Chromatin interaction

Extended variants
information (count: 133 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:133)

rs_ID	r²[population]
rs1042338	0.83[EUR][1000 genomes]
rs10947053	0.97[ASN][1000 genomes]
rs13194768	0.89[EUR][1000 genomes]
rs1419671	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1419672	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1419673	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1541324	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1573297	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1573298	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1573299	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17194607	0.80[EUR][1000 genomes]
rs2239530	0.89[EUR][1000 genomes]
rs2284163	0.97[ASN][1000 genomes]
rs2285795	0.85[EUR][1000 genomes]
rs2285796	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2508030	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2508031	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2517653	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2517655	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28400887	0.90[ASN][1000 genomes]
rs2857433	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2857435	0.87[AFR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2857436	0.85[ASN][1000 genomes]
rs2857438	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2857439	0.87[AFR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2857440	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2857458	0.85[ASN][1000 genomes]
rs3778622	0.81[EUR][1000 genomes]
rs3815079	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3815080	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3815082	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3815084	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3815085	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3815086	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3888580	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4392759	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4711211	0.81[EUR][1000 genomes]
rs4713293	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4959011	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4959012	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4959041	0.97[ASN][1000 genomes]
rs4959044	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs757259	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs757261	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs757262	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs757263	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs757264	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7843	0.89[EUR][1000 genomes]
rs9261424	0.97[ASN][1000 genomes]
rs9261431	0.97[ASN][1000 genomes]
rs9261433	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9261438	0.97[ASN][1000 genomes]
rs9261439	0.97[ASN][1000 genomes]
rs9261440	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261442	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9261443	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261444	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9261445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9261446	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9261448	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261449	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261450	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9261451	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9261453	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261454	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9261455	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261456	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9261457	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9261458	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9261459	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9261461	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9261462	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261463	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261465	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261466	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261467	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261468	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261470	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261471	0.87[AFR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261472	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261473	0.87[AFR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261479	0.87[AFR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261480	0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261481	0.85[AFR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9261482	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261483	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9261484	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9261485	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261486	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9261488	0.83[AFR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261489	0.83[AFR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261490	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261491	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261492	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261493	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261495	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261496	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261497	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261498	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9261499	0.81[AFR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261500	0.83[AFR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261501	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261502	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261503	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261504	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261505	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261507	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261508	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261509	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261511	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261512	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261513	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9261514	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261516	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261517	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261518	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261519	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261521	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261522	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261523	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261524	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261525	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261526	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261527	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261528	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261529	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261530	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261531	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261532	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261533	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261535	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs929156	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs957765	0.89[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1076229	HLA-A	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30096200-30100400	Enhancers	Fetal Intestine Large	intestine
2	chr6:30097000-30100400	Enhancers	Fetal Intestine Small	intestine
3	chr6:30097200-30099000	Flanking Active TSS	Hela-S3	cervix
4	chr6:30097200-30099200	Enhancers	Duodenum Mucosa	Duodenum
5	chr6:30097200-30099200	Enhancers	Stomach Mucosa	stomach
6	chr6:30097400-30099000	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
7	chr6:30097600-30098800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr6:30097600-30099000	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
9	chr6:30098000-30098800	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
10	chr6:30098000-30099000	Bivalent Enhancer	Duodenum Smooth Muscle	Duodenum
11	chr6:30098200-30098800	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
12	chr6:30098200-30098800	Bivalent Enhancer	GM12878-XiMat	blood
13	chr6:30098200-30099000	Bivalent Enhancer	Placenta	Placenta
14	chr6:30098400-30098800	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
15	chr6:30098400-30098800	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
16	chr6:30098400-30098800	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
17	chr6:30098400-30098800	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
18	chr6:30098400-30098800	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
19	chr6:30098400-30098800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr6:30098400-30098800	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 29	rectum
21	chr6:30098400-30098800	Enhancers	HMEC	breast
22	chr6:30098400-30099000	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
23	chr6:30098400-30099000	Bivalent/Poised TSS	Colonic Mucosa	Colon
24	chr6:30098600-30098800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
25	chr6:30098600-30098800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr6:30098600-30098800	Bivalent Enhancer	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr6:30098600-30098800	Bivalent Enhancer	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr6:30098600-30098800	Bivalent Enhancer	Primary B cells from cord blood	blood
29	chr6:30098600-30098800	Bivalent Enhancer	Primary T cells from cord blood	blood
30	chr6:30098600-30098800	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
31	chr6:30098600-30098800	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
32	chr6:30098600-30098800	Flanking Bivalent TSS/Enh	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr6:30098600-30098800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr6:30098600-30098800	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
35	chr6:30098600-30098800	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr6:30098600-30098800	Bivalent Enhancer	Brain Angular Gyrus	brain
37	chr6:30098600-30098800	Bivalent Enhancer	Brain Cingulate Gyrus	brain
38	chr6:30098600-30098800	Bivalent Enhancer	Fetal Stomach	stomach
39	chr6:30098600-30098800	Flanking Active TSS	A549	lung
40	chr6:30098600-30098800	Flanking Bivalent TSS/Enh	Dnd41	blood
41	chr6:30098600-30098800	Flanking Bivalent TSS/Enh	NHEK	skin
42	chr6:30098600-30099000	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
43	chr6:30098600-30099000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr6:30098600-30099000	Bivalent Enhancer	Primary B cells from peripheral blood	blood
45	chr6:30098600-30099000	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
46	chr6:30098600-30099000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
47	chr6:30098600-30099000	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--
48	chr6:30098600-30099000	Bivalent Enhancer	Primary T regulatory cells fromperipheralblood	blood
49	chr6:30098600-30099000	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
50	chr6:30098600-30099000	Enhancers	Primary T killer memory cells from peripheral blood	blood

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