Variant report

Variant	rs57897222
Chromosome Location	chr11:72884017-72884018
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	HDAC2	chr11:72883970-72884724	HepG2	liver:	n/a	chr11:72884109-72884118
2	HNF4A	chr11:72884013-72884637	HepG2	liver:	n/a	chr11:72884253-72884268 chr11:72884253-72884268 chr11:72884254-72884262 chr11:72884253-72884268
3	TEAD4	chr11:72883843-72884891	HepG2	liver:	n/a	n/a
4	HNF4G	chr11:72884015-72884674	HepG2	liver:	n/a	chr11:72884253-72884268 chr11:72884253-72884268 chr11:72884254-72884262
5	MYBL2	chr11:72884016-72884727	HepG2	liver:	n/a	n/a
6	SP1	chr11:72883978-72884694	HepG2	liver:	n/a	n/a
7	EP300	chr11:72884006-72884708	HepG2	liver:	n/a	n/a
8	FOXA2	chr11:72883944-72884667	HepG2	liver:	n/a	n/a
9	EP300	chr11:72883956-72884816	HepG2	liver:	n/a	n/a
10	HNF4G	chr11:72883969-72884508	HepG2	liver:	n/a	chr11:72884253-72884268 chr11:72884253-72884268 chr11:72884254-72884262

No.	Distal block	Cell Line	Cell type
1	chr11:72874691..72878123-chr11:72880193..72884667,5	K562	blood:
2	chr11:72879570..72884410-chr11:72886325..72888856,4	K562	blood:
3	chr11:72875399..72877502-chr11:72883167..72886106,3	K562	blood:
4	chr11:72523956..72526343-chr11:72883970..72886191,3	MCF-7	breast:
5	chr11:72882800..72886354-chr11:72892390..72894906,3	K562	blood:
6	chr11:72879011..72882115-chr11:72882510..72884809,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000256568	TF binding region
ENSG00000256568	Chromatin interaction
ENSG00000168010	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs55876904	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57741648	1.00[AMR][1000 genomes]
rs59483797	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7109731	1.00[AMR][1000 genomes]
rs73536965	1.00[AMR][1000 genomes]
rs73536991	1.00[AMR][1000 genomes]
rs7931533	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7931557	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7935982	1.00[AMR][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	nsv1053737	chr11:72838564-72956847	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv386	chr11:72849097-72893807	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv832208	chr11:72876184-73091003	Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	54 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:72875400-72884800	Weak transcription	Adipose Nuclei	Adipose
2	chr11:72876800-72886800	Weak transcription	Primary B cells from cord blood	blood
3	chr11:72879000-72887000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr11:72879200-72886800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr11:72879400-72884800	Weak transcription	HUVEC	blood vessel
6	chr11:72880400-72885400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr11:72880400-72889800	Enhancers	Primary B cells from peripheral blood	blood
8	chr11:72880600-72889600	Enhancers	GM12878-XiMat	blood
9	chr11:72881000-72885000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr11:72881400-72884200	Weak transcription	Lung	lung
11	chr11:72881400-72884200	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr11:72881400-72884800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr11:72881400-72885000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr11:72881400-72888800	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr11:72881600-72884800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr11:72882200-72884600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr11:72882200-72884800	Weak transcription	Placenta	Placenta
18	chr11:72882200-72886600	Enhancers	Fetal Heart	heart
19	chr11:72882800-72884200	Weak transcription	Psoas Muscle	Psoas
20	chr11:72882800-72884400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr11:72882800-72884800	Enhancers	Fetal Intestine Small	intestine
22	chr11:72883000-72884200	Weak transcription	Fetal Muscle Trunk	muscle
23	chr11:72883000-72884600	Weak transcription	Osteobl	bone
24	chr11:72883000-72888000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr11:72883200-72885000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr11:72883200-72885200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr11:72883200-72886800	Weak transcription	HSMM	muscle
28	chr11:72883200-72888400	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr11:72883400-72886400	Enhancers	Spleen	Spleen
30	chr11:72883600-72884800	Enhancers	Fetal Intestine Large	intestine
31	chr11:72883600-72885400	Flanking Active TSS	HepG2	liver
32	chr11:72883600-72886000	Enhancers	Right Ventricle	heart
33	chr11:72883600-72889200	Enhancers	Left Ventricle	heart
34	chr11:72883600-72889600	Enhancers	Right Atrium	heart
35	chr11:72883600-72890000	Enhancers	Skeletal Muscle Male	skeletal muscle
36	chr11:72883800-72887800	Weak transcription	Colonic Mucosa	Colon
37	chr11:72883800-72889200	Enhancers	Fetal Muscle Leg	muscle
38	chr11:72883800-72889600	Enhancers	Ovary	ovary
39	chr11:72884000-72885000	Enhancers	HSMMtube	muscle
40	chr11:72884000-72887600	Enhancers	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links