Variant report

Variant	rs2460047
Chromosome Location	chr11:93678936-93678937
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	chr1:145200270..145202766-chr11:93677416..93679121,2	K562	blood:

Variant related genes	Relation type
ENSG00000272709	Chromatin interaction

Extended variants
information (count: 90 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs1032934	1.00[CEU][hapmap];0.84[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1032935	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10501811	0.95[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10501813	0.88[EUR][1000 genomes]
rs11020587	1.00[CEU][hapmap];0.84[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1113700	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11825709	0.88[EUR][1000 genomes]
rs12270580	0.88[EUR][1000 genomes]
rs1401184	1.00[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs1518560	0.81[JPT][hapmap]
rs1589166	0.88[EUR][1000 genomes]
rs1605292	0.96[ASN][1000 genomes]
rs1605293	0.96[ASN][1000 genomes]
rs1607401	0.88[EUR][1000 genomes]
rs1850656	0.81[JPT][hapmap]
rs1894165	0.88[EUR][1000 genomes]
rs2019595	0.92[ASN][1000 genomes]
rs2102857	0.88[EUR][1000 genomes]
rs2176563	0.88[EUR][1000 genomes]
rs2203793	1.00[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs2213110	0.88[EUR][1000 genomes]
rs2460053	0.82[EUR][1000 genomes]
rs2460065	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2460070	0.88[EUR][1000 genomes]
rs2462733	1.00[CEU][hapmap];0.88[GIH][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs2462735	1.00[CEU][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes]
rs2462756	0.82[EUR][1000 genomes]
rs2462758	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2462759	0.81[JPT][hapmap]
rs2462760	0.88[EUR][1000 genomes]
rs2511411	0.88[EUR][1000 genomes]
rs4590831	0.86[ASN][1000 genomes]
rs56938392	0.88[EUR][1000 genomes]
rs57214110	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57367718	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57586533	0.88[EUR][1000 genomes]
rs59013509	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59689949	0.88[EUR][1000 genomes]
rs59793398	0.88[EUR][1000 genomes]
rs60539088	0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61463513	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6483278	0.88[EUR][1000 genomes]
rs66480929	0.88[EUR][1000 genomes]
rs66514329	0.88[EUR][1000 genomes]
rs66523751	0.88[EUR][1000 genomes]
rs66538341	0.81[EUR][1000 genomes]
rs66650995	0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66918645	0.88[EUR][1000 genomes]
rs66977226	0.88[EUR][1000 genomes]
rs67001808	0.82[EUR][1000 genomes]
rs67243356	0.81[EUR][1000 genomes]
rs67412659	0.88[EUR][1000 genomes]
rs67689846	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67926172	0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67988338	0.88[EUR][1000 genomes]
rs68019383	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7102891	0.86[ASN][1000 genomes]
rs72962832	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72962854	0.98[ASN][1000 genomes]
rs72964631	0.88[EUR][1000 genomes]
rs72964645	0.88[EUR][1000 genomes]
rs72964666	0.88[EUR][1000 genomes]
rs73564799	0.88[EUR][1000 genomes]
rs7932631	0.86[ASN][1000 genomes]
rs908754	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs978777	0.88[EUR][1000 genomes]
rs9787791	0.88[EUR][1000 genomes]
rs978950	0.86[ASN][1000 genomes]
rs978952	0.80[ASN][1000 genomes]
rs989088	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv508650	chr11:93609010-93713576	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	esv1796911	chr11:93642877-93688134	Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv1049467	chr11:93651025-93778717	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv442	chr11:93665117-93717973	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	esv1792094	chr11:93670388-93688541	Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv1800503	chr11:93670388-93688541	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv1802331	chr11:93670388-93688541	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	esv1802534	chr11:93670388-93688541	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	esv1802586	chr11:93670388-93688541	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	esv1802849	chr11:93670388-93688541	Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	esv1798558	chr11:93671838-93688514	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	esv1796190	chr11:93676224-93688541	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	esv1796455	chr11:93676224-93688541	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	esv1799544	chr11:93676224-93688541	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	esv1802919	chr11:93676224-93688541	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	esv2757466	chr11:93676224-93714950	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	esv2759854	chr11:93676224-93714950	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
18	esv3464553	chr11:93678867-93681690	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
19	esv2434183	chr11:93678878-93682441	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
20	esv3486754	chr11:93678923-93682329	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs2460047	PTGS2	trans	brain	seeQTL
rs2460047	ECEL1	trans	brain	seeQTL
rs2460047	SERTAD2	trans	brain	seeQTL
rs2460047	EGR2	trans	brain	seeQTL

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:93678400-93679000	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr11:93678400-93679200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr11:93678400-93679200	Enhancers	HMEC	breast
4	chr11:93678600-93679000	Enhancers	Muscle Satellite Cultured Cells	--
5	chr11:93678600-93679000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr11:93678600-93679000	Flanking Active TSS	HSMMtube	muscle
7	chr11:93678600-93679000	Bivalent Enhancer	Osteobl	bone
8	chr11:93678600-93679200	Bivalent Enhancer	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr11:93678600-93679200	Enhancers	NHEK	skin
10	chr11:93678800-93679000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr11:93678800-93679000	Enhancers	NH-A	brain
12	chr11:93678800-93679200	Bivalent Enhancer	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr11:93678800-93679200	Enhancers	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links