Variant report

Variant	rs3133358
Chromosome Location	chr11:106889443-106889444
allele	A/G
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	REST	chr11:106889279-106890255	PFSK-1	brain:	n/a	chr11:106889936-106889945 chr11:106889762-106889772 chr11:106889843-106889850 chr11:106889419-106889432 chr11:106890013-106890026
2	USF1	chr11:106889200-106889580	H1-hESC	embryonic stem cell:	n/a	chr11:106889323-106889334
3	REST	chr11:106889263-106890354	A549	lung:	n/a	chr11:106889936-106889945 chr11:106889762-106889772 chr11:106889843-106889850 chr11:106889419-106889432 chr11:106890013-106890026
4	MAX	chr11:106889113-106889579	A549	lung:	n/a	chr11:106889325-106889334
5	MYC	chr11:106889442-106890098	H1-hESC	embryonic stem cell:	n/a	n/a
6	SIN3A	chr11:106889202-106890183	H1-hESC	embryonic stem cell:	n/a	chr11:106889545-106889556 chr11:106890013-106890026 chr11:106889938-106889946 chr11:106889762-106889771
7	MAX	chr11:106889061-106889581	A549	lung:	n/a	chr11:106889325-106889334
8	MXI1	chr11:106889376-106890470	IMR90	lung:	n/a	n/a
9	POLR2A	chr11:106888212-106889566	H1-neurons	neurons:	n/a	n/a
10	REST	chr11:106889301-106890384	ECC-1	luminal epithelium:	n/a	chr11:106889936-106889945 chr11:106889762-106889772 chr11:106889843-106889850 chr11:106889419-106889432 chr11:106890013-106890026
11	E2F6	chr11:106888240-106890254	H1-hESC	embryonic stem cell:	n/a	chr11:106889737-106889754 chr11:106889740-106889751 chr11:106889739-106889748 chr11:106890065-106890082 chr11:106889737-106889754 chr11:106889740-106889751 chr11:106889740-106889747 chr11:106889740-106889751 chr11:106889739-106889750 chr11:106889740-106889751 chr11:106889737-106889754 chr11:106889740-106889751 chr11:106890072-106890079
12	CTBP2	chr11:106889372-106890317	H1-hESC	embryonic stem cell:	n/a	n/a
13	E2F6	chr11:106889025-106890427	H1-hESC	embryonic stem cell:	n/a	chr11:106889737-106889754 chr11:106889740-106889751 chr11:106889739-106889748 chr11:106890065-106890082 chr11:106889737-106889754 chr11:106889740-106889751 chr11:106889740-106889747 chr11:106889740-106889751 chr11:106889739-106889750 chr11:106889740-106889751 chr11:106889737-106889754 chr11:106889740-106889751 chr11:106890072-106890079
14	E2F6	chr11:106889233-106889582	A549	lung:	n/a	n/a
15	USF1	chr11:106889170-106889461	SK-N-SH_RA	brain:	n/a	chr11:106889323-106889334
16	CHD2	chr11:106889075-106889456	H1-hESC	embryonic stem cell:	n/a	chr11:106889149-106889159
17	USF1	chr11:106889186-106889446	H1-hESC	embryonic stem cell:	n/a	chr11:106889323-106889334
18	MAX	chr11:106889190-106890261	H1-hESC	embryonic stem cell:	n/a	chr11:106889325-106889334
19	TBP	chr11:106889319-106889520	H1-hESC	embryonic stem cell:	n/a	n/a
20	REST	chr11:106889146-106890650	HL-60	blood:	n/a	chr11:106889936-106889945 chr11:106889762-106889772 chr11:106889843-106889850 chr11:106889419-106889432 chr11:106890013-106890026
21	REST	chr11:106889257-106889523	PANC-1	pancreas:	n/a	chr11:106889419-106889432
22	E2F6	chr11:106889273-106889539	A549	lung:	n/a	n/a
23	USF1	chr11:106889211-106889510	SK-N-SH_RA	brain:	n/a	chr11:106889323-106889334
24	REST	chr11:106888979-106890443	PFSK-1	brain:	n/a	chr11:106889936-106889945 chr11:106889762-106889772 chr11:106889140-106889153 chr11:106889843-106889850 chr11:106889419-106889432 chr11:106890013-106890026
25	POLR2A	chr11:106888884-106890125	H1-hESC	embryonic stem cell:	n/a	n/a
26	REST	chr11:106887923-106890438	H1-neurons	neurons:	n/a	chr11:106889936-106889945 chr11:106889762-106889772 chr11:106888405-106888418 chr11:106889140-106889153 chr11:106888173-106888186 chr11:106888782-106888795 chr11:106889843-106889850 chr11:106889419-106889432 chr11:106890013-106890026
27	POLR2A	chr11:106889052-106889449	H1-hESC	embryonic stem cell:	n/a	n/a
28	REST	chr11:106889291-106890560	ECC-1	luminal epithelium:	n/a	chr11:106889936-106889945 chr11:106889762-106889772 chr11:106889843-106889850 chr11:106889419-106889432 chr11:106890013-106890026
29	USF2	chr11:106889195-106889487	H1-hESC	embryonic stem cell:	n/a	n/a
30	REST	chr11:106889332-106890494	PANC-1	pancreas:	n/a	chr11:106889936-106889945 chr11:106889762-106889772 chr11:106889843-106889850 chr11:106889419-106889432 chr11:106890013-106890026
31	TAF1	chr11:106888961-106889557	H1-neurons	neurons:	n/a	n/a
32	MAX	chr11:106888945-106890290	SK-N-SH	brain:	n/a	chr11:106889325-106889334
33	USF1	chr11:106889130-106889552	SK-N-SH	brain:	n/a	chr11:106889323-106889334 chr11:106889151-106889167
34	POLR2A	chr11:106888197-106889632	H1-neurons	neurons:	n/a	n/a
35	MAX	chr11:106889036-106890158	SK-N-SH	brain:	n/a	chr11:106889325-106889334
36	REST	chr11:106888117-106890482	PFSK-1	brain:	n/a	chr11:106889936-106889945 chr11:106889762-106889772 chr11:106888405-106888418 chr11:106889140-106889153 chr11:106888173-106888186 chr11:106888782-106888795 chr11:106889843-106889850 chr11:106889419-106889432 chr11:106890013-106890026
37	REST	chr11:106889264-106890517	PANC-1	pancreas:	n/a	chr11:106889936-106889945 chr11:106889762-106889772 chr11:106889843-106889850 chr11:106889419-106889432 chr11:106890013-106890026
38	REST	chr11:106889170-106890563	SK-N-SH	brain:	n/a	chr11:106889936-106889945 chr11:106889762-106889772 chr11:106889843-106889850 chr11:106889419-106889432 chr11:106890013-106890026
39	MAX	chr11:106889032-106890271	H1-hESC	embryonic stem cell:	n/a	chr11:106889325-106889334
40	REST	chr11:106889331-106890519	PANC-1	pancreas:	n/a	chr11:106889936-106889945 chr11:106889762-106889772 chr11:106889843-106889850 chr11:106889419-106889432 chr11:106890013-106890026
41	MAX	chr11:106888560-106890153	ECC-1	luminal epithelium:	n/a	chr11:106889325-106889334
42	MAX	chr11:106888951-106890267	H1-hESC	embryonic stem cell:	n/a	chr11:106889325-106889334

Variant related genes	Relation type
GUCY1A2	TF binding region

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

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1378530	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1455589	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1840570	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2445096	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2445097	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2445104	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2445114	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2462410	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2462411	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3107973	0.88[EUR][1000 genomes]
rs3109394	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3133357	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs897442	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531938	chr11:106760733-107156814	Enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	esv3378270	chr11:106887267-106890115	Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers ZNF genes & repeats Weak transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv3390031	chr11:106887567-106891165	Bivalent/Poised TSS Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:106885800-106890000	Active TSS	Brain Anterior Caudate	brain
2	chr11:106886400-106889600	Bivalent/Poised TSS	Left Ventricle	heart
3	chr11:106886400-106890000	Active TSS	Brain Hippocampus Middle	brain
4	chr11:106886400-106890000	Active TSS	Brain Inferior Temporal Lobe	brain
5	chr11:106886400-106890000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
6	chr11:106886800-106890000	Active TSS	Brain Angular Gyrus	brain
7	chr11:106887400-106890400	Active TSS	Brain Substantia Nigra	brain
8	chr11:106887800-106889600	Active TSS	H9 Cell Line	embryonic stem cell
9	chr11:106887800-106889600	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
10	chr11:106887800-106889600	Active TSS	Fetal Brain Female	brain
11	chr11:106887800-106890000	Active TSS	Ovary	ovary
12	chr11:106887800-106890400	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
13	chr11:106888000-106889600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr11:106888200-106889600	Active TSS	Pancreatic Islets	Pancreatic Islet
15	chr11:106888200-106890000	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr11:106888200-106890000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr11:106888200-106890000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr11:106888200-106890000	Active TSS	Brain Cingulate Gyrus	brain
19	chr11:106888200-106890200	Active TSS	Right Atrium	heart
20	chr11:106888200-106890600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr11:106888400-106889600	Weak transcription	Fetal Heart	heart
22	chr11:106888400-106890000	Bivalent/Poised TSS	Colon Smooth Muscle	Colon
23	chr11:106888400-106890000	Active TSS	Fetal Lung	lung
24	chr11:106888600-106890600	Active TSS	Psoas Muscle	Psoas
25	chr11:106888800-106890200	ZNF genes & repeats	Spleen	Spleen
26	chr11:106889000-106890000	Bivalent/Poised TSS	A549	lung
27	chr11:106889000-106890400	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr11:106889200-106889600	Active TSS	Primary hematopoietic stem cells	blood
29	chr11:106889200-106889600	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr11:106889200-106889600	Bivalent Enhancer	Esophagus	oesophagus
31	chr11:106889200-106889600	Flanking Active TSS	Right Ventricle	heart
32	chr11:106889200-106889600	Bivalent Enhancer	HSMM	muscle
33	chr11:106889200-106889800	Flanking Active TSS	Lung	lung
34	chr11:106889200-106890200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr11:106889200-106890200	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr11:106889200-106890200	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr11:106889200-106890200	Flanking Bivalent TSS/Enh	HepG2	liver
38	chr11:106889400-106889600	Flanking Bivalent TSS/Enh	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
39	chr11:106889400-106889600	Flanking Bivalent TSS/Enh	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr11:106889400-106889600	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr11:106889400-106889600	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
42	chr11:106889400-106889600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr11:106889400-106889600	Bivalent Enhancer	Primary T regulatory cells fromperipheralblood	blood
44	chr11:106889400-106889600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr11:106889400-106889600	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
46	chr11:106889400-106889600	Flanking Active TSS	Aorta	Aorta
47	chr11:106889400-106889600	Flanking Active TSS	Liver	Liver
48	chr11:106889400-106889600	Bivalent/Poised TSS	Colonic Mucosa	Colon
49	chr11:106889400-106889600	Enhancers	Fetal Brain Male	brain
50	chr11:106889400-106889600	Flanking Active TSS	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links