Variant report

Variant	rs1670459
Chromosome Location	chr11:76998753-76998754
allele	C/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	TCF12	chr11:76998097-76999449	SK-N-SH	brain:	n/a	chr11:76998884-76998891
2	STAT3	chr11:76998716-76998999	MCF10A-Er-Src	breast:	n/a	n/a
3	SIN3AK20	chr11:76998669-76999091	SK-N-SH	brain:	n/a	n/a
4	PBX3	chr11:76998592-76999289	SK-N-SH	brain:	n/a	n/a
5	CEBPB	chr11:76998636-76999047	Hela-S3	cervix:	n/a	n/a
6	FOS	chr11:76998643-76999066	MCF10A-Er-Src	breast:	n/a	chr11:76998868-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
7	CEBPB	chr11:76998609-76999044	IMR90	lung:	n/a	n/a
8	FOSL1	chr11:76998579-76999171	HCT-116	colon:	n/a	chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
9	POLR2A	chr11:76998742-76998942	MCF10A-Er-Src	breast:	n/a	n/a
10	FOS	chr11:76998682-76998972	HUVEC	blood vessel:	n/a	chr11:76998868-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
11	NFIC	chr11:76998460-76999349	SK-N-SH	brain:	n/a	n/a
12	TBP	chr11:76998670-76999004	Hela-S3	cervix:	n/a	n/a
13	MAFK	chr11:76998603-76998949	IMR90	lung:	n/a	n/a
14	MAX	chr11:76998655-76999180	SK-N-SH	brain:	n/a	n/a
15	MYC	chr11:76998664-76999068	MCF10A-Er-Src	breast:	n/a	n/a
16	TEAD4	chr11:76998581-76999213	SK-N-SH	brain:	n/a	n/a
17	FOSL2	chr11:76998519-76999251	SK-N-SH	brain:	n/a	chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
18	MAX	chr11:76998694-76999157	SK-N-SH	brain:	n/a	n/a
19	E2F4	chr11:76998744-76999009	MCF10A-Er-Src	breast:	n/a	n/a
20	MAFK	chr11:76998701-76998913	Hela-S3	cervix:	n/a	n/a
21	TAF1	chr11:76998658-76999029	PFSK-1	brain:	n/a	n/a
22	POLR2A	chr11:76998691-76999079	PFSK-1	brain:	n/a	n/a
23	EP300	chr11:76998628-76999125	SK-N-SH_RA	brain:	n/a	n/a
24	FOSL2	chr11:76998594-76999087	A549	lung:	n/a	chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
25	EP300	chr11:76998585-76999101	SK-N-SH_RA	brain:	n/a	n/a
26	EP300	chr11:76998457-76999393	SK-N-SH	brain:	n/a	n/a
27	STAT3	chr11:76998594-76998969	MCF10A-Er-Src	breast:	n/a	n/a
28	FOS	chr11:76998668-76999067	MCF10A-Er-Src	breast:	n/a	chr11:76998868-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
29	YY1	chr11:76998682-76999172	SK-N-SH	brain:	n/a	n/a
30	JUND	chr11:76998558-76999257	SK-N-SH	brain:	n/a	chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
31	FOS	chr11:76998565-76999070	MCF10A-Er-Src	breast:	n/a	chr11:76998868-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
32	MYC	chr11:76998665-76999009	MCF10A-Er-Src	breast:	n/a	n/a
33	REST	chr11:76998621-76998948	PFSK-1	brain:	n/a	n/a
34	PBX3	chr11:76998474-76999205	SK-N-SH	brain:	n/a	n/a
35	NFIC	chr11:76998614-76999189	SK-N-SH	brain:	n/a	n/a
36	JUND	chr11:76998488-76999270	SK-N-SH	brain:	n/a	chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
37	TCF12	chr11:76998213-76999424	SK-N-SH	brain:	n/a	chr11:76998884-76998891
38	GATA3	chr11:76998544-76999355	SK-N-SH	brain:	n/a	chr11:76998871-76998880
39	STAT3	chr11:76998624-76998988	MCF10A-Er-Src	breast:	n/a	n/a
40	POLR2A	chr11:76998599-76999115	SK-N-SH	brain:	n/a	n/a
41	RXRA	chr11:76998558-76999273	SK-N-SH	brain:	n/a	n/a
42	GATA3	chr11:76998385-76999387	SK-N-SH	brain:	n/a	chr11:76998871-76998880
43	STAT3	chr11:76998662-76998999	MCF10A-Er-Src	breast:	n/a	n/a
44	RAD21	chr11:76998698-76998995	SK-N-SH_RA	brain:	n/a	n/a
45	RAD21	chr11:76998706-76998986	SK-N-SH_RA	brain:	n/a	n/a
46	POLR2A	chr11:76998692-76999015	SK-N-SH	brain:	n/a	n/a
47	FOS	chr11:76998609-76999108	MCF10A-Er-Src	breast:	n/a	chr11:76998868-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
48	FOSL2	chr11:76998617-76999078	SK-N-SH	brain:	n/a	chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878

Variant related genes	Relation type
GDPD4	TF binding region

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10793246	0.83[CEU][hapmap];0.81[EUR][1000 genomes]
rs10899364	0.84[CEU][hapmap]
rs10899365	0.83[CEU][hapmap]
rs10899368	0.81[EUR][1000 genomes]
rs10899369	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs10899379	0.86[CHB][hapmap];0.87[JPT][hapmap]
rs11237145	0.80[CEU][hapmap]
rs11237147	0.83[CEU][hapmap];0.81[EUR][1000 genomes]
rs11237154	0.81[EUR][1000 genomes]
rs12274255	0.88[CEU][hapmap]
rs12287216	0.88[CEU][hapmap]
rs12287680	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs12418037	0.81[JPT][hapmap]
rs1540217	0.82[EUR][1000 genomes]
rs1613357	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs1618188	0.83[CEU][hapmap];0.82[EUR][1000 genomes]
rs1620915	0.82[EUR][1000 genomes]
rs1621624	0.82[EUR][1000 genomes]
rs1628438	0.81[EUR][1000 genomes]
rs1670451	0.83[CEU][hapmap];0.88[EUR][1000 genomes]
rs1670452	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs1670453	0.83[CEU][hapmap];0.82[EUR][1000 genomes]
rs1670454	0.80[EUR][1000 genomes]
rs1670457	0.84[EUR][1000 genomes]
rs1670460	0.80[CEU][hapmap];0.82[EUR][1000 genomes]
rs1793466	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs1793467	0.81[EUR][1000 genomes]
rs1793469	0.81[EUR][1000 genomes]
rs1793470	0.81[EUR][1000 genomes]
rs1793476	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1793483	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1793488	0.81[EUR][1000 genomes]
rs1894214	0.83[CEU][hapmap];0.87[EUR][1000 genomes]
rs1894215	0.88[EUR][1000 genomes]
rs1946004	0.83[EUR][1000 genomes]
rs1946005	0.83[CEU][hapmap];0.82[EUR][1000 genomes]
rs2007466	0.80[ASN][1000 genomes]
rs2602465	0.89[CHB][hapmap];0.95[JPT][hapmap]
rs2602472	0.95[CHB][hapmap];0.87[JPT][hapmap]
rs2725812	0.86[JPT][hapmap]
rs2725819	0.83[EUR][1000 genomes]
rs2729762	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs2844333	0.95[CHB][hapmap];0.96[JPT][hapmap]
rs2853096	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs3015989	0.82[JPT][hapmap]
rs3015993	0.82[JPT][hapmap]
rs34420077	0.80[ASN][1000 genomes]
rs4433591	0.83[ASN][1000 genomes]
rs476925	0.91[JPT][hapmap]
rs4945162	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs4945166	0.95[JPT][hapmap]
rs495889	0.82[JPT][hapmap]
rs514191	0.91[JPT][hapmap]
rs57129983	0.80[ASN][1000 genomes]
rs575662	0.91[JPT][hapmap]
rs599437	0.91[JPT][hapmap]
rs6592713	0.81[EUR][1000 genomes]
rs674652	0.82[JPT][hapmap]
rs688212	0.91[JPT][hapmap]
rs7104166	0.83[CEU][hapmap];0.81[EUR][1000 genomes]
rs7104295	0.84[CEU][hapmap];0.81[EUR][1000 genomes]
rs7118869	0.91[JPT][hapmap]
rs7121483	0.83[CEU][hapmap];0.81[EUR][1000 genomes]
rs7928731	0.81[ASN][1000 genomes]
rs7938075	0.84[CEU][hapmap];0.81[EUR][1000 genomes]
rs7945635	0.81[EUR][1000 genomes]
rs883223	0.81[JPT][hapmap]
rs9634031	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534515	chr11:76900813-77035769	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv1048360	chr11:76900813-77387933	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv541089	chr11:76900813-77387933	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv1049603	chr11:76900813-77520411	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv541090	chr11:76900813-77520411	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	esv3424135	chr11:76961603-77277087	Strong transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:76996800-77000200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr11:76997400-77000200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr11:76997600-76999600	Enhancers	NHLF	lung
4	chr11:76998000-76999400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr11:76998000-76999400	Enhancers	NH-A	brain
6	chr11:76998000-76999400	Enhancers	Osteobl	bone
7	chr11:76998200-76999600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr11:76998200-76999600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr11:76998200-76999600	Enhancers	Hela-S3	cervix
10	chr11:76998200-76999600	Enhancers	HMEC	breast
11	chr11:76998200-76999600	Enhancers	HSMM	muscle
12	chr11:76998200-76999600	Enhancers	NHEK	skin
13	chr11:76998400-76998800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
14	chr11:76998400-76998800	Flanking Active TSS	NHDF-Ad	bronchial
15	chr11:76998400-76999200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr11:76998400-76999200	Enhancers	A549	lung
17	chr11:76998400-76999400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr11:76998400-76999400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr11:76998600-76999200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr11:76998600-76999400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr11:76998600-76999600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr11:76998600-76999600	Enhancers	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links