Variant report

Variant	rs11225340
Chromosome Location	chr11:102474160-102474161
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	EP300	chr11:102473697-102474355	HepG2	liver:	n/a	n/a
2	YY1	chr11:102473741-102474195	SK-N-SH	brain:	n/a	n/a
3	EP300	chr11:102473728-102474196	SK-N-SH_RA	brain:	n/a	n/a
4	FOXA2	chr11:102473735-102474215	HepG2	liver:	n/a	n/a
5	POLR2A	chr11:102473776-102474280	U87	brain:	n/a	n/a
6	PBX3	chr11:102473600-102474313	SK-N-SH	brain:	n/a	n/a
7	ARID3A	chr11:102473645-102474287	HepG2	liver:	n/a	n/a
8	CBX3	chr11:102473652-102474760	HCT-116	colon:	n/a	n/a
9	REST	chr11:102473866-102474310	PANC-1	pancreas:	n/a	chr11:102474124-102474133 chr11:102474127-102474135
10	MAX	chr11:102473550-102474468	HCT-116	colon:	n/a	n/a
11	POLR2A	chr11:102473638-102474289	PANC-1	pancreas:	n/a	n/a
12	TBP	chr11:102473747-102474276	HepG2	liver:	n/a	n/a
13	JUND	chr11:102473559-102474689	HCT-116	colon:	n/a	chr11:102474541-102474551
14	POLR2A	chr11:102473738-102474199	HCT-116	colon:	n/a	n/a
15	SP1	chr11:102473618-102474707	HCT-116	colon:	n/a	n/a
16	BRCA1	chr11:102473995-102474194	HepG2	liver:	n/a	n/a
17	POLR2A	chr11:102473739-102474621	PANC-1	pancreas:	n/a	n/a
18	JUND	chr11:102473600-102474327	SK-N-SH	brain:	n/a	n/a
19	RAD21	chr11:102473853-102474320	HepG2	liver:	n/a	n/a
20	GATA3	chr11:102473516-102474250	SK-N-SH	brain:	n/a	n/a
21	CBX3	chr11:102473589-102474799	HCT-116	colon:	n/a	n/a
22	EP300	chr11:102473623-102474466	HepG2	liver:	n/a	n/a
23	EBF1	chr11:102473819-102474222	GM12878	blood:	n/a	n/a
24	TCF7L2	chr11:102473431-102474330	PANC-1	pancreas:	n/a	chr11:102474027-102474041
25	POLR2A	chr11:102473771-102474251	U87	brain:	n/a	n/a
26	MAX	chr11:102473797-102474232	HepG2	liver:	n/a	n/a
27	REST	chr11:102473878-102474282	SK-N-SH	brain:	n/a	chr11:102474124-102474133 chr11:102474127-102474135
28	TEAD4	chr11:102473650-102474330	SK-N-SH	brain:	n/a	n/a
29	MAX	chr11:102473722-102474184	SK-N-SH	brain:	n/a	n/a
30	TCF12	chr11:102473507-102474377	SK-N-SH	brain:	n/a	chr11:102473938-102473946
31	RFX5	chr11:102473785-102474214	HepG2	liver:	n/a	chr11:102473903-102473918
32	PBX3	chr11:102473685-102474296	SK-N-SH	brain:	n/a	n/a
33	MYBL2	chr11:102473734-102474346	HepG2	liver:	n/a	n/a
34	EP300	chr11:102473580-102474704	SK-N-SH	brain:	n/a	n/a
35	JUND	chr11:102473747-102474223	HepG2	liver:	n/a	n/a
36	FOSL1	chr11:102473559-102474836	HCT-116	colon:	n/a	chr11:102474541-102474551
37	SIN3AK20	chr11:102473703-102474384	HCT-116	colon:	n/a	n/a
38	FOSL2	chr11:102473626-102474245	SK-N-SH	brain:	n/a	n/a
39	YY1	chr11:102473764-102474194	HCT-116	colon:	n/a	n/a
40	TCF12	chr11:102473696-102474352	SK-N-SH	brain:	n/a	chr11:102473938-102473946
41	MXI1	chr11:102473797-102474242	HepG2	liver:	n/a	n/a
42	MAX	chr11:102473625-102474611	HCT-116	colon:	n/a	n/a
43	TEAD4	chr11:102473695-102474298	HCT-116	colon:	n/a	n/a
44	MYBL2	chr11:102473632-102474286	HepG2	liver:	n/a	n/a
45	REST	chr11:102473848-102474224	PFSK-1	brain:	n/a	chr11:102474124-102474133 chr11:102474127-102474135
46	JUND	chr11:102473552-102474789	HCT-116	colon:	n/a	chr11:102474541-102474551
47	GATA3	chr11:102473590-102474319	SK-N-SH	brain:	n/a	n/a
48	REST	chr11:102473826-102474207	PANC-1	pancreas:	n/a	chr11:102474124-102474133 chr11:102474127-102474135
49	TEAD4	chr11:102473686-102474343	HCT-116	colon:	n/a	n/a
50	JUN	chr11:102473751-102474174	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
ENSG00000256916	TF binding region

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11225341	1.00[AMR][1000 genomes]
rs11225342	1.00[AMR][1000 genomes]
rs11825664	1.00[AMR][1000 genomes]
rs12283645	1.00[AMR][1000 genomes]
rs12289419	1.00[AMR][1000 genomes]
rs17098686	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7125086	0.83[AFR][1000 genomes];1.00[AMR][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	esv1815657	chr11:102413582-102490794	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv832252	chr11:102445479-102627879	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:102466800-102474200	Enhancers	HepG2	liver
2	chr11:102469200-102475800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr11:102469200-102476200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr11:102469800-102474400	Weak transcription	Pancreas	Pancrea
5	chr11:102470000-102476000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr11:102470800-102475200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr11:102470800-102476000	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr11:102471000-102474200	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr11:102471000-102476200	Enhancers	HMEC	breast
10	chr11:102471200-102475000	Enhancers	NH-A	brain
11	chr11:102471600-102475600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr11:102471800-102475600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr11:102471800-102475800	Weak transcription	Placenta	Placenta
14	chr11:102472400-102475200	Enhancers	Brain Substantia Nigra	brain
15	chr11:102472600-102475800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr11:102473000-102475000	Enhancers	Brain Cingulate Gyrus	brain
17	chr11:102473000-102475000	Enhancers	Brain Hippocampus Middle	brain
18	chr11:102473000-102475200	Enhancers	HSMMtube	muscle
19	chr11:102473200-102474200	Enhancers	Brain Inferior Temporal Lobe	brain
20	chr11:102473200-102475000	Enhancers	NHDF-Ad	bronchial
21	chr11:102473200-102475800	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr11:102473200-102475800	Enhancers	A549	lung
23	chr11:102473200-102476600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr11:102473600-102474600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr11:102473600-102474600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr11:102473600-102474600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr11:102473600-102475000	Enhancers	Fetal Heart	heart
28	chr11:102473800-102474200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr11:102473800-102474200	Active TSS	Brain Anterior Caudate	brain
30	chr11:102473800-102474200	Enhancers	NHEK	skin
31	chr11:102473800-102474400	Enhancers	Brain Germinal Matrix	brain
32	chr11:102473800-102474400	Flanking Active TSS	Osteobl	bone
33	chr11:102473800-102474600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
34	chr11:102473800-102474600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr11:102473800-102474600	Enhancers	GM12878-XiMat	blood
36	chr11:102473800-102475000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr11:102473800-102475400	Enhancers	Right Atrium	heart
38	chr11:102473800-102476000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr11:102473800-102476000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr11:102473800-102476200	Enhancers	ES-I3 Cell Line	embryonic stem cell
41	chr11:102474000-102474200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
42	chr11:102474000-102474200	Enhancers	Left Ventricle	heart
43	chr11:102474000-102474200	Flanking Active TSS	HSMM	muscle
44	chr11:102474000-102474400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
45	chr11:102474000-102474600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr11:102474000-102474600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr11:102474000-102474600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr11:102474000-102474600	Enhancers	Placenta Amnion	Placenta Amnion
49	chr11:102474000-102474600	Enhancers	NHLF	lung
50	chr11:102474000-102474800	Weak transcription	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links