Variant report

Variant	rs11680317
Chromosome Location	chr2:10159583-10159584
allele	C/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	FOS	chr2:10159162-10159700	MCF10A-Er-Src	breast:	n/a	n/a
2	FOXA1	chr2:10159301-10159727	HepG2	liver:	n/a	n/a
3	EP300	chr2:10159404-10159629	HepG2	liver:	n/a	chr2:10159447-10159455
4	MYC	chr2:10159246-10159687	MCF10A-Er-Src	breast:	n/a	n/a
5	E2F4	chr2:10159237-10159602	MCF10A-Er-Src	breast:	n/a	n/a
6	FOXA1	chr2:10159195-10159652	HepG2	liver:	n/a	n/a
7	CEBPB	chr2:10159339-10159708	HepG2	liver:	n/a	chr2:10159443-10159460 chr2:10159564-10159575 chr2:10159540-10159557
8	STAT3	chr2:10159083-10159693	MCF10A-Er-Src	breast:	n/a	chr2:10159396-10159407 chr2:10159360-10159371
9	JUN	chr2:10159433-10159633	HepG2	liver:	n/a	n/a
10	CEBPB	chr2:10159273-10159710	K562	blood:	n/a	chr2:10159443-10159460 chr2:10159564-10159575 chr2:10159540-10159557
11	MAX	chr2:10159392-10159592	HepG2	liver:	n/a	n/a
12	CEBPB	chr2:10159357-10159745	HepG2	liver:	n/a	chr2:10159443-10159460 chr2:10159564-10159575 chr2:10159540-10159557
13	CEBPB	chr2:10159285-10159735	IMR90	lung:	n/a	chr2:10159443-10159460 chr2:10159564-10159575 chr2:10159540-10159557
14	STAT3	chr2:10158912-10159701	MCF10A-Er-Src	breast:	n/a	chr2:10159396-10159407 chr2:10159046-10159054 chr2:10159360-10159371
15	CEBPD	chr2:10159431-10159704	HepG2	liver:	n/a	n/a
16	MYC	chr2:10159112-10159717	MCF10A-Er-Src	breast:	n/a	n/a
17	FOXA2	chr2:10159324-10159585	HepG2	liver:	n/a	n/a
18	FOS	chr2:10159133-10159687	MCF10A-Er-Src	breast:	n/a	n/a
19	MAX	chr2:10159562-10160418	K562	blood:	n/a	chr2:10160315-10160326 chr2:10160314-10160329 chr2:10159974-10159981 chr2:10160314-10160327 chr2:10160315-10160324 chr2:10160316-10160326 chr2:10160315-10160326 chr2:10160316-10160326 chr2:10160315-10160325 chr2:10160316-10160325
20	STAT3	chr2:10158984-10159807	MCF10A-Er-Src	breast:	n/a	chr2:10159396-10159407 chr2:10159046-10159054 chr2:10159360-10159371
21	CEBPD	chr2:10159390-10159605	HepG2	liver:	n/a	n/a
22	FOXA1	chr2:10159182-10159661	HepG2	liver:	n/a	n/a
23	CEBPB	chr2:10159324-10159636	HepG2	liver:	n/a	chr2:10159443-10159460 chr2:10159564-10159575 chr2:10159540-10159557
24	POLR2A	chr2:10159266-10159726	MCF10A-Er-Src	breast:	n/a	n/a
25	MAFK	chr2:10159573-10159587	HepG2	liver:	n/a	n/a
26	ARID3A	chr2:10159310-10159621	HepG2	liver:	n/a	n/a
27	CHD2	chr2:10159536-10159672	HepG2	liver:	n/a	n/a
28	POLR2A	chr2:10159372-10159602	MCF10A-Er-Src	breast:	n/a	n/a
29	FOS	chr2:10159215-10159679	MCF10A-Er-Src	breast:	n/a	n/a
30	CEBPB	chr2:10159242-10159813	HepG2	liver:	n/a	chr2:10159443-10159460 chr2:10159564-10159575 chr2:10159540-10159557
31	SMC3	chr2:10159379-10159692	HepG2	liver:	n/a	n/a
32	STAT3	chr2:10158921-10159791	MCF10A-Er-Src	breast:	n/a	chr2:10159396-10159407 chr2:10159046-10159054 chr2:10159360-10159371
33	JUND	chr2:10159383-10159714	HepG2	liver:	n/a	n/a
34	CEBPB	chr2:10159355-10159770	A549	lung:	n/a	chr2:10159443-10159460 chr2:10159564-10159575 chr2:10159540-10159557
35	RXRA	chr2:10159231-10159646	HepG2	liver:	n/a	chr2:10159467-10159481
36	CEBPB	chr2:10159360-10159708	Hela-S3	cervix:	n/a	chr2:10159443-10159460 chr2:10159564-10159575 chr2:10159540-10159557
37	CEBPB	chr2:10159383-10159726	A549	lung:	n/a	chr2:10159443-10159460 chr2:10159564-10159575 chr2:10159540-10159557
38	FOXA1	chr2:10159130-10159615	HepG2	liver:	n/a	n/a
39	FOS	chr2:10159073-10159687	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr2:10159180..10160819-chr2:10275177..10277719,2	K562	blood:
2	chr2:10158217..10160856-chr2:10163800..10165547,2	K562	blood:
3	chr2:10159162..10163514-chr2:10181699..10184437,5	MCF-7	breast:
4	chr2:10158527..10161012-chr2:10168048..10171028,3	K562	blood:
5	chr2:10159210..10161560-chr2:10162271..10163980,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260476	TF binding region
ENSG00000172059	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs11681901	1.00[AFR][1000 genomes]
rs11682938	1.00[AFR][1000 genomes]
rs11686761	1.00[AFR][1000 genomes]
rs11691157	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1011125	chr2:9996740-10293803	Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
2	nsv1011689	chr2:10023891-10293803	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
3	nsv997334	chr2:10080327-10189279	Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	nsv828297	chr2:10109299-10236332	Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
5	nsv1007965	chr2:10154960-10276125	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
6	nsv1014790	chr2:10156968-10274855	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
7	nsv999019	chr2:10157762-10273232	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:10141600-10160200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr2:10156200-10160200	Enhancers	Adipose Nuclei	Adipose
3	chr2:10156200-10160400	Enhancers	Liver	Liver
4	chr2:10158200-10161000	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr2:10158400-10160000	Enhancers	Ovary	ovary
6	chr2:10158600-10160200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr2:10158800-10160000	Enhancers	Pancreas	Pancrea
8	chr2:10159000-10160000	Bivalent Enhancer	HepG2	liver
9	chr2:10159200-10159600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr2:10159200-10159600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr2:10159200-10159800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr2:10159200-10160000	Enhancers	HMEC	breast
13	chr2:10159200-10160000	Enhancers	NHEK	skin
14	chr2:10159200-10160400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
15	chr2:10159200-10160800	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr2:10159200-10163400	Enhancers	Placenta	Placenta
17	chr2:10159400-10159600	Bivalent Enhancer	NHDF-Ad	bronchial
18	chr2:10159400-10159800	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr2:10159400-10159800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr2:10159400-10159800	Enhancers	Skeletal Muscle Male	skeletal muscle
21	chr2:10159400-10160000	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr2:10159400-10160000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr2:10159400-10160000	Enhancers	Esophagus	oesophagus
24	chr2:10159400-10160200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
25	chr2:10159400-10160200	Enhancers	Spleen	Spleen
26	chr2:10159400-10160400	Enhancers	Gastric	stomach
27	chr2:10159400-10160400	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr2:10159400-10160800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr2:10159400-10161000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links