Variant report

Variant	rs9261450
Chromosome Location	chr6:30097818-30097819
allele	A/G
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:30096297..30098577-chr6:30292705..30294693,2	MCF-7	breast:
2	chr6:30033618..30036318-chr6:30097659..30102068,3	MCF-7	breast:
3	chr6:30044585..30046967-chr6:30097709..30100269,2	MCF-7	breast:
4	chr6:30070867..30073416-chr6:30097029..30099845,2	K562	blood:
5	chr6:30070301..30072986-chr6:30097734..30100221,43	MCF-7	breast:
6	chr6:30093045..30094849-chr6:30097589..30099576,2	MCF-7	breast:
7	chr6:30070791..30073416-chr6:30095644..30098529,2	K562	blood:
8	chr6:30097580..30101195-chr6:30103058..30105479,3	MCF-7	breast:
9	chr6:30091019..30094481-chr6:30095201..30099363,3	K562	blood:
10	chr6:30090894..30093149-chr6:30095550..30098193,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000204599	Chromatin interaction
ENSG00000231226	Chromatin interaction
ENSG00000204619	Chromatin interaction
ENSG00000204614	Chromatin interaction
ENSG00000204616	Chromatin interaction
ENSG00000231074	Chromatin interaction
ENSG00000270604	Chromatin interaction

Extended variants
information (count: 131 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:130)

rs_ID	r²[population]
rs1042338	0.87[EUR][1000 genomes]
rs1076229	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10947053	0.94[ASN][1000 genomes]
rs13194768	0.82[EUR][1000 genomes]
rs1419671	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1419672	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1419673	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1541324	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1573297	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1573298	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1573299	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2239530	0.82[EUR][1000 genomes]
rs2284163	0.94[ASN][1000 genomes]
rs2285795	0.92[EUR][1000 genomes]
rs2285796	0.80[AFR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2508030	0.80[AFR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2508031	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2517653	0.80[AFR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2517655	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28400887	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2857433	0.80[AFR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2857435	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2857436	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2857438	0.82[AFR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2857439	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2857440	0.82[AFR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2857458	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3815079	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3815080	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3815082	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3815084	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3815085	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3815086	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3888580	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4392759	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4713293	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4959011	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4959012	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4959041	0.94[ASN][1000 genomes]
rs4959044	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs757259	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs757261	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs757262	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs757263	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs757264	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7843	0.82[EUR][1000 genomes]
rs9261424	0.94[ASN][1000 genomes]
rs9261431	0.94[ASN][1000 genomes]
rs9261433	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261438	0.94[ASN][1000 genomes]
rs9261439	0.94[ASN][1000 genomes]
rs9261440	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9261442	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261443	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9261444	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261445	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261446	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9261448	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261449	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9261451	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261453	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9261454	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261455	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9261456	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261457	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261458	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261459	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261461	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261462	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261463	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261465	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261466	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261467	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261468	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261470	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261471	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261472	0.82[AFR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261473	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261479	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261480	0.82[AFR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9261481	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9261482	0.82[AFR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261483	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261484	0.81[AFR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9261485	0.82[AFR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261486	0.82[AFR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261488	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261489	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261490	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261491	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261492	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261493	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261495	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261496	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261497	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261498	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261499	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261500	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261501	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261502	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261503	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261504	0.84[AFR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9261505	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261507	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261508	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261509	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261511	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261512	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261513	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9261514	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261516	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261517	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261518	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261519	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261521	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261522	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261523	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261524	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261525	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9261526	0.80[AFR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261527	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261528	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9261529	0.80[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261530	0.80[AFR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261531	0.80[AFR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261532	0.80[AFR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261533	0.80[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261535	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs929156	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs957765	0.82[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv884056	chr6:30089623-30097818	Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs9261450	HIST1H2BN	cis	parietal	SCAN
rs9261450	BTN2A1	cis	cerebellum	SCAN
rs9261450	HLA-A	Cis_1M	lymphoblastoid	RTeQTL
rs9261450	HIST1H2AI	cis	parietal	SCAN
rs9261450	ZKSCAN3	cis	cerebellum	SCAN
rs9261450	HIST1H2AM	cis	parietal	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30096200-30100400	Enhancers	Fetal Intestine Large	intestine
2	chr6:30096600-30098400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr6:30097000-30098600	Enhancers	HepG2	liver
4	chr6:30097000-30100400	Enhancers	Fetal Intestine Small	intestine
5	chr6:30097200-30098600	Enhancers	A549	lung
6	chr6:30097200-30099000	Flanking Active TSS	Hela-S3	cervix
7	chr6:30097200-30099200	Enhancers	Duodenum Mucosa	Duodenum
8	chr6:30097200-30099200	Enhancers	Stomach Mucosa	stomach
9	chr6:30097400-30099000	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
10	chr6:30097600-30098000	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:30097600-30098000	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 31	rectum
12	chr6:30097600-30098200	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
13	chr6:30097600-30098600	Bivalent Enhancer	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:30097600-30098800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr6:30097600-30099000	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
16	chr6:30097800-30098000	Bivalent Enhancer	HSMM	muscle
17	chr6:30097800-30098200	Bivalent/Poised TSS	Colonic Mucosa	Colon
18	chr6:30097800-30098400	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum

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