Variant report

Variant	rs1152639
Chromosome Location	chr11:64915042-64915043
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:98)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:98 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:64915011-64915222	Hela-S3	cervix:	n/a	n/a
2	POLR2A	chr11:64914991-64915175	GM12891	blood:	n/a	n/a
3	SP1	chr11:64914988-64915192	HepG2	liver:	n/a	n/a
4	HEY1	chr11:64914994-64915186	HepG2	liver:	n/a	n/a
5	YY1	chr11:64914858-64915148	HepG2	liver:	n/a	n/a
6	POLR2A	chr11:64914995-64915253	SK-N-MC	brain:	n/a	n/a
7	PAX5	chr11:64914996-64915174	GM12878	blood:	n/a	n/a
8	RXRA	chr11:64914975-64915239	GM12878	blood:	n/a	n/a
9	POU2F2	chr11:64914960-64915199	GM12891	blood:	n/a	n/a
10	HEY1	chr11:64914984-64915252	K562	blood:	n/a	n/a
11	POLR2A	chr11:64915040-64915129	A549	lung:	n/a	n/a
12	TCF12	chr11:64915003-64915249	GM12878	blood:	n/a	n/a
13	YY1	chr11:64914799-64915264	H1-hESC	embryonic stem cell:	n/a	n/a
14	POLR2A	chr11:64914845-64915216	SK-N-MC	brain:	n/a	n/a
15	TRIM28	chr11:64914962-64915208	K562	blood:	n/a	n/a
16	POLR2A	chr11:64915027-64915140	GM12878	blood:	n/a	n/a
17	FOSL2	chr11:64915001-64915167	HepG2	liver:	n/a	n/a
18	SP1	chr11:64914978-64915296	GM12878	blood:	n/a	n/a
19	POLR2A	chr11:64914930-64915173	Hela-S3	cervix:	n/a	n/a
20	POLR2A	chr11:64914856-64915195	GM12891	blood:	n/a	n/a
21	POLR2A	chr11:64914934-64915170	GM12878	blood:	n/a	n/a
22	NR3C1	chr11:64914922-64915174	A549	lung:	n/a	n/a
23	RXRA	chr11:64914952-64915167	HepG2	liver:	n/a	n/a
24	SIN3AK20	chr11:64915015-64915163	HepG2	liver:	n/a	n/a
25	POLR2A	chr11:64914935-64915235	H1-hESC	embryonic stem cell:	n/a	n/a
26	BCL11A	chr11:64914958-64915286	GM12878	blood:	n/a	n/a
27	POLR2A	chr11:64914977-64915187	GM12891	blood:	n/a	n/a
28	EP300	chr11:64914969-64915225	GM12878	blood:	n/a	n/a
29	SIX5	chr11:64914984-64915165	K562	blood:	n/a	n/a
30	JUND	chr11:64915019-64915151	HepG2	liver:	n/a	n/a
31	POLR2A	chr11:64915006-64915152	HepG2	liver:	n/a	n/a
32	YY1	chr11:64914926-64915058	K562	blood:	n/a	n/a
33	POLR2A	chr11:64914841-64915202	GM12878	blood:	n/a	n/a
34	POLR2A	chr11:64915031-64915125	A549	lung:	n/a	n/a
35	POLR2A	chr11:64915031-64915135	HepG2	liver:	n/a	n/a
36	POLR2A	chr11:64914967-64915139	SK-N-SH	brain:	n/a	n/a
37	POLR2A	chr11:64915012-64915149	H1-hESC	embryonic stem cell:	n/a	n/a
38	POLR2A	chr11:64914946-64915213	GM12892	blood:	n/a	n/a
39	POLR2A	chr11:64915009-64915168	H1-hESC	embryonic stem cell:	n/a	n/a
40	POLR2A	chr11:64915011-64915157	GM12891	blood:	n/a	n/a
41	TRIM28	chr11:64914903-64915275	K562	blood:	n/a	n/a
42	POU2F2	chr11:64915031-64915177	GM12878	blood:	n/a	n/a
43	POLR2A	chr11:64914966-64915253	SK-N-SH	brain:	n/a	n/a
44	POLR2A	chr11:64915019-64915145	HepG2	liver:	n/a	n/a
45	YY1	chr11:64914834-64915112	GM12892	blood:	n/a	n/a
46	POLR2A	chr11:64915026-64915142	GM12878	blood:	n/a	n/a
47	ZBTB33	chr11:64914979-64915191	GM12878	blood:	n/a	n/a
48	TCF3	chr11:64914934-64915178	GM12878	blood:	n/a	n/a
49	YY1	chr11:64914844-64915104	K562	blood:	n/a	n/a
50	POLR2A	chr11:64914889-64915223	U87	brain:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:64912371..64919818-chr11:64945990..64951836,8	MCF-7	breast:
2	chr11:64914527..64916755-chr11:64940789..64942960,2	MCF-7	breast:
3	chr11:64912189..64921319-chr11:64935429..64940801,16	K562	blood:
4	chr11:64899644..64904758-chr11:64914742..64920010,11	K562	blood:
5	chr11:64914691..64915245-chr3:73160043..73160628,2	HCT-116	colon:

No data

Variant related genes	Relation type
HIGD1AP10	TF binding region
RNU2-23P	TF binding region
ENSG00000162298	Chromatin interaction
ENSG00000254614	Chromatin interaction
ENSG00000255200	Chromatin interaction
ENSG00000014216	Chromatin interaction
ENSG00000223247	Chromatin interaction
ENSG00000204710	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs1195969	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1196043	0.96[CEU][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap]
rs1196044	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1196045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1206196	0.96[CEU][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap]
rs1706936	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1706937	0.96[CEU][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap]
rs2957879	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2957880	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv526181	chr11:64638041-65257329	Flanking Active TSS Enhancers Strong transcription Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1539 gene(s)	inside rSNPs	diseases
2	nsv897713	chr11:64915042-65000719	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs1152639	RAB1B	cis	parietal	SCAN
rs1152639	SDHAF2	cis	parietal	SCAN
rs1152639	SCGB1D4	cis	parietal	SCAN
rs1152639	FADS1	cis	parietal	SCAN
rs1152639	C11orf2	cis	parietal	SCAN
rs1152639	VWCE	cis	cerebellum	SCAN
rs1152639	SNORD31	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:64903600-64917400	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr11:64913600-64917400	Weak transcription	Esophagus	oesophagus
3	chr11:64914200-64918200	Weak transcription	HepG2	liver
4	chr11:64914600-64916400	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr11:64914600-64917400	Weak transcription	Pancreas	Pancrea
6	chr11:64915000-64917200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr11:64915000-64917400	Weak transcription	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links