Variant report

Variant	rs7109773
Chromosome Location	chr11:9591153-9591154
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	NFIC	chr11:9590709-9591166	HepG2	liver:	n/a	n/a
2	FOXA2	chr11:9590584-9591330	A549	lung:	n/a	n/a
3	FOXA2	chr11:9590724-9591167	HepG2	liver:	n/a	n/a
4	FOXA1	chr11:9590802-9591204	T-47D	breast:	n/a	n/a
5	POLR2A	chr11:9589813-9591762	IMR90	lung:	n/a	n/a
6	FOXA1	chr11:9590351-9591206	HepG2	liver:	n/a	n/a
7	REST	chr11:9590796-9591170	PFSK-1	brain:	n/a	n/a
8	HNF4G	chr11:9590725-9591219	HepG2	liver:	n/a	chr11:9590937-9590952
9	FOXA1	chr11:9590337-9591187	HepG2	liver:	n/a	n/a
10	CEBPB	chr11:9590673-9591300	A549	lung:	n/a	n/a
11	MAZ	chr11:9590565-9591158	HepG2	liver:	n/a	n/a
12	GATA3	chr11:9590030-9591256	MCF-7	breast:	n/a	n/a
13	GATA3	chr11:9590213-9591251	MCF-7	breast:	n/a	n/a
14	REST	chr11:9590377-9591246	A549	lung:	n/a	n/a
15	EP300	chr11:9590434-9591159	HepG2	liver:	n/a	chr11:9590789-9590803 chr11:9590587-9590601
16	TCF12	chr11:9590215-9591358	A549	lung:	n/a	n/a
17	FOXA2	chr11:9590774-9591253	A549	lung:	n/a	n/a
18	ELF1	chr11:9590828-9591166	HepG2	liver:	n/a	n/a
19	RCOR1	chr11:9590412-9591185	HepG2	liver:	n/a	n/a
20	MYC	chr11:9590228-9591162	MCF10A-Er-Src	breast:	n/a	n/a
21	RFX5	chr11:9589769-9591208	SK-N-SH	brain:	n/a	chr11:9590549-9590564 chr11:9590552-9590561 chr11:9590547-9590563 chr11:9590550-9590564 chr11:9590548-9590562 chr11:9590381-9590395
22	JUND	chr11:9590841-9591239	A549	lung:	n/a	n/a
23	POLR2A	chr11:9590545-9591453	HepG2	liver:	n/a	n/a
24	CEBPB	chr11:9590314-9591196	MCF-7	breast:	n/a	n/a
25	SP1	chr11:9590810-9591183	H1-hESC	embryonic stem cell:	n/a	n/a
26	NR3C1	chr11:9590315-9591246	A549	lung:	n/a	chr11:9590650-9590664 chr11:9590649-9590665 chr11:9590499-9590514 chr11:9590649-9590665 chr11:9590650-9590664 chr11:9590649-9590665 chr11:9590646-9590667 chr11:9590649-9590665
27	GATA3	chr11:9590859-9591156	T-47D	breast:	n/a	n/a
28	EP300	chr11:9590328-9591303	A549	lung:	n/a	chr11:9590789-9590803 chr11:9590587-9590601
29	POLR2A	chr11:9590480-9591237	PFSK-1	brain:	n/a	n/a
30	MYBL2	chr11:9590419-9591346	HepG2	liver:	n/a	n/a
31	POLR2A	chr11:9590305-9591203	PANC-1	pancreas:	n/a	n/a
32	CEBPB	chr11:9590747-9591169	HepG2	liver:	n/a	n/a
33	MAX	chr11:9590310-9591349	HepG2	liver:	n/a	n/a
34	EP300	chr11:9590695-9591250	HepG2	liver:	n/a	chr11:9590789-9590803
35	NFIC	chr11:9590463-9591262	HepG2	liver:	n/a	n/a
36	POLR2A	chr11:9589767-9592014	MCF10A-Er-Src	breast:	n/a	n/a
37	MAX	chr11:9590265-9591287	A549	lung:	n/a	n/a
38	TBP	chr11:9590278-9591551	HepG2	liver:	n/a	n/a
39	KAP1	chr11:9589850-9591225	U2OS	brain:	n/a	n/a
40	JUND	chr11:9590750-9591159	HepG2	liver:	n/a	n/a
41	EP300	chr11:9590687-9591220	A549	lung:	n/a	chr11:9590789-9590803
42	POLR2A	chr11:9590334-9591199	PANC-1	pancreas:	n/a	n/a
43	SP1	chr11:9590718-9591195	H1-hESC	embryonic stem cell:	n/a	n/a
44	POLR2A	chr11:9590214-9591724	HepG2	liver:	n/a	n/a
45	REST	chr11:9590630-9591209	HepG2	liver:	n/a	n/a
46	SP1	chr11:9590257-9591450	A549	lung:	n/a	n/a
47	TAF1	chr11:9590424-9591178	H1-hESC	embryonic stem cell:	n/a	n/a
48	POLR2A	chr11:9590497-9591153	PFSK-1	brain:	n/a	n/a
49	FOSL2	chr11:9590517-9591245	A549	lung:	n/a	n/a
50	MAX	chr11:9590335-9591237	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:9589863..9592978-chr11:9632988..9635615,3	K562	blood:
2	chr11:9590419..9592271-chr2:43454961..43457275,2	MCF-7	breast:
3	chr11:9589366..9592285-chr11:9609804..9612652,2	MCF-7	breast:
4	chr11:9482098..9486375-chr11:9587030..9591762,7	K562	blood:
5	chr11:9589955..9591769-chr11:9771252..9773790,2	MCF-7	breast:
6	chr11:9587790..9592116-chr11:9635065..9637852,3	MCF-7	breast:
7	chr11:9480903..9485608-chr11:9587733..9592274,8	MCF-7	breast:

Variant related genes	Relation type
WEE1	TF binding region
ENSG00000234936	Chromatin interaction
ENSG00000166478	Chromatin interaction
ENSG00000268403	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10770040	0.99[EUR][1000 genomes]
rs10840260	0.86[EUR][1000 genomes]
rs10840261	0.90[EUR][1000 genomes]
rs11042422	0.86[EUR][1000 genomes]
rs16906887	0.82[AFR][1000 genomes]
rs1988828	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2313087	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2872220	0.82[AFR][1000 genomes]
rs4910479	0.87[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs60132682	0.85[AFR][1000 genomes]
rs7108372	0.86[EUR][1000 genomes]
rs7115385	0.89[EUR][1000 genomes]
rs7480266	0.86[EUR][1000 genomes]
rs7929469	0.90[EUR][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	nsv427882	chr11:9431600-9626580	Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
2	nsv553467	chr11:9518551-9648721	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9584200-9594400	Enhancers	Stomach Mucosa	stomach
2	chr11:9584200-9594400	Weak transcription	Spleen	Spleen
3	chr11:9585200-9593600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr11:9585200-9594400	Weak transcription	Esophagus	oesophagus
5	chr11:9585200-9594400	Weak transcription	Lung	lung
6	chr11:9586000-9591600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr11:9586400-9594200	Enhancers	Fetal Intestine Small	intestine
8	chr11:9586600-9591800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr11:9586600-9594000	Enhancers	Placenta	Placenta
10	chr11:9586600-9594200	Enhancers	Fetal Intestine Large	intestine
11	chr11:9588000-9594400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr11:9588000-9594400	Weak transcription	Gastric	stomach
13	chr11:9588200-9591200	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr11:9588600-9591200	Weak transcription	Psoas Muscle	Psoas
15	chr11:9588600-9593800	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr11:9588600-9594000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr11:9589600-9591600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr11:9589600-9591800	Enhancers	H1 Cell Line	embryonic stem cell
19	chr11:9589600-9591800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr11:9589600-9591800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr11:9589600-9591800	Enhancers	Fetal Stomach	stomach
22	chr11:9589600-9594200	Enhancers	Primary B cells from cord blood	blood
23	chr11:9589800-9591200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr11:9589800-9591200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
25	chr11:9589800-9591200	Enhancers	Adipose Nuclei	Adipose
26	chr11:9589800-9591200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
27	chr11:9589800-9591600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
28	chr11:9589800-9591600	Enhancers	Colon Smooth Muscle	Colon
29	chr11:9589800-9591600	Flanking Active TSS	HepG2	liver
30	chr11:9589800-9591800	Enhancers	HSMMtube	muscle
31	chr11:9589800-9593000	Enhancers	iPS-15b Cell Line	embryonic stem cell
32	chr11:9589800-9594200	Enhancers	Primary B cells from peripheral blood	blood
33	chr11:9590000-9591200	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr11:9590000-9591200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr11:9590000-9591200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr11:9590000-9591400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
37	chr11:9590000-9591600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr11:9590000-9591600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
39	chr11:9590000-9591600	Enhancers	Primary hematopoietic stem cells	blood
40	chr11:9590000-9591600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
41	chr11:9590000-9594200	Weak transcription	Fetal Brain Male	brain
42	chr11:9590000-9594200	Weak transcription	Ovary	ovary
43	chr11:9590200-9591200	Enhancers	Primary hematopoietic stem cells short term culture	blood
44	chr11:9590200-9591200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
45	chr11:9590200-9591200	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr11:9590200-9591200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr11:9590200-9591400	Flanking Active TSS	Stomach Smooth Muscle	stomach
48	chr11:9590200-9591600	Enhancers	Primary T cells from cord blood	blood
49	chr11:9590200-9591600	Flanking Active TSS	A549	lung
50	chr11:9590200-9591600	Enhancers	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links