Variant report

Variant	rs28541268
Chromosome Location	chr9:107953845-107953846
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:24)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:24 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EP300	chr9:107953841-107954568	HepG2	liver:	n/a	n/a
2	TCF12	chr9:107953710-107954694	A549	lung:	n/a	n/a
3	BCL3	chr9:107953770-107954476	A549	lung:	n/a	n/a
4	SP1	chr9:107953737-107954484	A549	lung:	n/a	n/a
5	MYC	chr9:107953708-107954479	NB4	blood:	n/a	n/a
6	MAX	chr9:107953720-107954463	NB4	blood:	n/a	n/a
7	CEBPB	chr9:107953723-107954582	A549	lung:	n/a	chr9:107954242-107954253
8	REST	chr9:107953817-107954524	A549	lung:	n/a	n/a
9	HNF4A	chr9:107953800-107954447	HepG2	liver:	n/a	chr9:107954226-107954241
10	POLR2A	chr9:107953626-107954566	HL-60	blood:	n/a	n/a
11	TCF12	chr9:107953840-107954419	A549	lung:	n/a	n/a
12	GATA3	chr9:107953707-107954656	A549	lung:	n/a	n/a
13	SP1	chr9:107953579-107954578	A549	lung:	n/a	n/a
14	USF1	chr9:107953806-107954326	A549	lung:	n/a	n/a
15	MYBL2	chr9:107953748-107954446	HepG2	liver:	n/a	n/a
16	MAX	chr9:107953725-107954570	A549	lung:	n/a	n/a
17	RUNX3	chr9:107953832-107954516	GM12878	blood:	n/a	n/a
18	FOSL2	chr9:107953807-107954548	A549	lung:	n/a	n/a
19	TEAD4	chr9:107953749-107954483	HepG2	liver:	n/a	n/a
20	CEBPB	chr9:107953755-107954455	A549	lung:	n/a	chr9:107954242-107954253
21	HNF4A	chr9:107953790-107954518	HepG2	liver:	n/a	chr9:107954226-107954241
22	EP300	chr9:107953771-107954550	A549	lung:	n/a	n/a
23	ARID3A	chr9:107953817-107954397	HepG2	liver:	n/a	n/a
24	EP300	chr9:107953709-107954622	A549	lung:	n/a	n/a

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:107949926..107956747-chr9:108004908..108009966,10	MCF-7	breast:
2	chr9:107953178..107956116-chr9:107958984..107960617,2	MCF-7	breast:
3	chr9:107951628..107955432-chr9:108005280..108008809,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000238208	TF binding region
ENSG00000070214	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10521072	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10991570	1.00[AFR][1000 genomes]
rs10991572	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10991573	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10991575	0.89[EUR][1000 genomes]
rs10991577	1.00[AFR][1000 genomes]
rs10991580	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10991581	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10991582	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12337991	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12337995	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12343550	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12345601	1.00[AFR][1000 genomes]
rs12347331	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12347579	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12348055	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12348359	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12350390	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12352127	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12353489	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs66546819	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs66692440	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs66850568	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67361890	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67751791	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67803665	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67935728	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs68102455	0.93[EUR][1000 genomes]
rs72607136	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73506445	0.81[EUR][1000 genomes]
rs73508509	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7865517	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9886744	0.81[AMR][1000 genomes];0.89[EUR][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	nsv1046935	chr9:107414720-108028061	Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1045108	chr9:107509553-108188550	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv893684	chr9:107893629-108001107	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv831678	chr9:107923522-108112813	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1045079	chr9:107938039-107975595	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv893685	chr9:107940737-108083485	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv1043466	chr9:107950174-108001988	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:107949600-107958200	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr9:107953400-107955600	Enhancers	HepG2	liver
3	chr9:107953600-107954000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr9:107953600-107954000	Enhancers	Spleen	Spleen
5	chr9:107953600-107954200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr9:107953600-107954600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
7	chr9:107953600-107954800	Enhancers	Adipose Nuclei	Adipose
8	chr9:107953600-107954800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
9	chr9:107953600-107955200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr9:107953800-107954200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr9:107953800-107954200	Active TSS	Liver	Liver
12	chr9:107953800-107954400	Flanking Active TSS	A549	lung
13	chr9:107953800-107954600	Enhancers	Osteobl	bone
14	chr9:107953800-107954800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr9:107953800-107955400	Enhancers	GM12878-XiMat	blood

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