Variant report

Variant	rs10967509
Chromosome Location	chr9:26746922-26746923
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	CUX1	chr9:26746522-26747017	GM12878	blood:	n/a	n/a
2	FOSL2	chr9:26746584-26746993	HepG2	liver:	n/a	chr9:26746797-26746808
3	E2F4	chr9:26746824-26747033	MCF10A-Er-Src	breast:	n/a	n/a
4	JUND	chr9:26746581-26747129	HCT-116	colon:	n/a	chr9:26746798-26746809
5	TBP	chr9:26746379-26747048	GM12878	blood:	n/a	n/a
6	NFYB	chr9:26746772-26747109	GM12878	blood:	n/a	n/a
7	ARID3A	chr9:26746655-26746928	HepG2	liver:	n/a	n/a
8	SP1	chr9:26746555-26747122	H1-hESC	embryonic stem cell:	n/a	n/a
9	STAT3	chr9:26746616-26747050	MCF10A-Er-Src	breast:	n/a	chr9:26746866-26746877 chr9:26746862-26746882
10	EP300	chr9:26746626-26747039	H1-hESC	embryonic stem cell:	n/a	n/a
11	FOSL2	chr9:26746516-26747026	A549	lung:	n/a	chr9:26746797-26746808
12	WRNIP1	chr9:26746719-26746954	GM12878	blood:	n/a	n/a
13	JUN	chr9:26746676-26746984	H1-hESC	embryonic stem cell:	n/a	n/a
14	JUND	chr9:26746583-26747039	H1-hESC	embryonic stem cell:	n/a	chr9:26746798-26746809
15	FOXA1	chr9:26746671-26747044	T-47D	breast:	n/a	n/a
16	FOSL2	chr9:26746671-26747101	MCF-7	breast:	n/a	chr9:26746797-26746808
17	FOS	chr9:26746626-26746992	MCF10A-Er-Src	breast:	n/a	chr9:26746798-26746809
18	MAFF	chr9:26746626-26746981	HepG2	liver:	n/a	chr9:26746798-26746816
19	SP1	chr9:26746409-26747161	HCT-116	colon:	n/a	n/a
20	FOXA1	chr9:26746534-26747032	HepG2	liver:	n/a	n/a
21	ZNF143	chr9:26746770-26747029	GM12878	blood:	n/a	n/a
22	TEAD4	chr9:26746616-26747032	H1-hESC	embryonic stem cell:	n/a	n/a
23	FOSL1	chr9:26746450-26747146	HCT-116	colon:	n/a	n/a
24	JUND	chr9:26746624-26746993	K562	blood:	n/a	chr9:26746798-26746809
25	SP1	chr9:26746595-26747186	H1-hESC	embryonic stem cell:	n/a	n/a
26	FOXA2	chr9:26746635-26746988	HepG2	liver:	n/a	n/a
27	ATF2	chr9:26746311-26747148	GM12878	blood:	n/a	n/a
28	BHLHE40	chr9:26746185-26747145	GM12878	blood:	n/a	n/a
29	MAX	chr9:26746681-26747001	H1-hESC	embryonic stem cell:	n/a	n/a
30	NFIC	chr9:26746551-26747009	HepG2	liver:	n/a	n/a
31	HNF4A	chr9:26746648-26746960	HepG2	liver:	n/a	n/a
32	NFIC	chr9:26746266-26747095	GM12878	blood:	n/a	n/a
33	CHD2	chr9:26746691-26747084	H1-hESC	embryonic stem cell:	n/a	n/a
34	FOXA2	chr9:26746708-26746983	A549	lung:	n/a	n/a
35	FOXA1	chr9:26746526-26747111	HepG2	liver:	n/a	n/a
36	FOXA1	chr9:26746678-26747004	HepG2	liver:	n/a	n/a
37	MXI1	chr9:26746751-26747076	GM12878	blood:	n/a	n/a
38	EP300	chr9:26746242-26747094	GM12878	blood:	n/a	chr9:26746491-26746505
39	ZNF384	chr9:26746922-26747195	GM12878	blood:	n/a	n/a
40	CEBPB	chr9:26746742-26746968	MCF-7	breast:	n/a	n/a
41	MAFK	chr9:26746630-26746958	K562	blood:	n/a	chr9:26746799-26746814
42	RUNX3	chr9:26746338-26747167	GM12878	blood:	n/a	n/a
43	POLR2A	chr9:26746870-26747435	MCF10A-Er-Src	breast:	n/a	n/a
44	MAFK	chr9:26746650-26746982	HepG2	liver:	n/a	chr9:26746799-26746814
45	POLR2A	chr9:26746849-26747627	MCF10A-Er-Src	breast:	n/a	n/a
46	STAT3	chr9:26746322-26747064	GM12878	blood:	n/a	chr9:26746866-26746877 chr9:26746862-26746882
47	FOXA1	chr9:26746616-26747012	HepG2	liver:	n/a	n/a
48	SP1	chr9:26746511-26747145	HCT-116	colon:	n/a	n/a
49	MAFK	chr9:26746667-26746971	HepG2	liver:	n/a	chr9:26746799-26746814
50	FOS	chr9:26746612-26747013	MCF10A-Er-Src	breast:	n/a	chr9:26746798-26746809

Variant related genes	Relation type
ENSG00000254261	TF binding region

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10812455	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10967489	0.92[EUR][1000 genomes]
rs13291139	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17693460	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs765888	1.00[JPT][hapmap];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv995049	chr9:26162115-26760535	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv892854	chr9:26326100-26749094	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv892858	chr9:26609613-26783463	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1026827	chr9:26693515-26904699	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv892860	chr9:26704385-26789940	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv892861	chr9:26707333-26789940	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv466332	chr9:26709294-26783463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv613941	chr9:26709294-26783463	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv613942	chr9:26722736-26789975	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv466333	chr9:26728455-26789975	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv613943	chr9:26728455-26789975	Flanking Bivalent TSS/Enh Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	nsv1033113	chr9:26737203-26793584	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
13	nsv1032172	chr9:26742409-26789626	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:26740000-26754400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr9:26743400-26748600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:26743800-26748400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr9:26743800-26748600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr9:26744200-26748200	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr9:26744200-26754400	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr9:26745600-26747000	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr9:26745600-26749200	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr9:26745800-26747000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr9:26745800-26747200	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr9:26745800-26748600	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr9:26745800-26749400	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr9:26746200-26747200	Enhancers	A549	lung
14	chr9:26746200-26747200	Flanking Active TSS	GM12878-XiMat	blood
15	chr9:26746400-26747000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr9:26746600-26747000	Enhancers	HUVEC	blood vessel
17	chr9:26746800-26747000	Enhancers	HepG2	liver
18	chr9:26746800-26747200	Active TSS	ES-I3 Cell Line	embryonic stem cell
19	chr9:26746800-26747200	Enhancers	HMEC	breast
20	chr9:26746800-26749200	Enhancers	iPS-20b Cell Line	embryonic stem cell

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