Variant report

Variant	rs12366226
Chromosome Location	chr11:76998595-76998596
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	TCF12	chr11:76998097-76999449	SK-N-SH	brain:	n/a	chr11:76998884-76998891
2	PBX3	chr11:76998592-76999289	SK-N-SH	brain:	n/a	n/a
3	FOSL1	chr11:76998579-76999171	HCT-116	colon:	n/a	chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
4	NFIC	chr11:76998460-76999349	SK-N-SH	brain:	n/a	n/a
5	TEAD4	chr11:76998581-76999213	SK-N-SH	brain:	n/a	n/a
6	FOSL2	chr11:76998519-76999251	SK-N-SH	brain:	n/a	chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
7	FOSL2	chr11:76998594-76999087	A549	lung:	n/a	chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
8	EP300	chr11:76998585-76999101	SK-N-SH_RA	brain:	n/a	n/a
9	EP300	chr11:76998457-76999393	SK-N-SH	brain:	n/a	n/a
10	STAT3	chr11:76998594-76998969	MCF10A-Er-Src	breast:	n/a	n/a
11	JUND	chr11:76998558-76999257	SK-N-SH	brain:	n/a	chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
12	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
13	PBX3	chr11:76998474-76999205	SK-N-SH	brain:	n/a	n/a
14	JUND	chr11:76998488-76999270	SK-N-SH	brain:	n/a	chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998869-76998879 chr11:76998870-76998878
15	TCF12	chr11:76998213-76999424	SK-N-SH	brain:	n/a	chr11:76998884-76998891
16	GATA3	chr11:76998544-76999355	SK-N-SH	brain:	n/a	chr11:76998871-76998880
17	RXRA	chr11:76998558-76999273	SK-N-SH	brain:	n/a	n/a
18	GATA3	chr11:76998385-76999387	SK-N-SH	brain:	n/a	chr11:76998871-76998880

Variant related genes	Relation type
GDPD4	TF binding region

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10466709	0.95[AFR][1000 genomes]
rs10466737	1.00[CEU][hapmap];0.86[YRI][hapmap]
rs11237132	1.00[CEU][hapmap]
rs11237170	1.00[CEU][hapmap]
rs12273430	1.00[CEU][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs12287077	0.81[MKK][hapmap]
rs12288454	0.93[AFR][1000 genomes]
rs12292189	1.00[CEU][hapmap]
rs12294882	1.00[CEU][hapmap]
rs12295132	1.00[CEU][hapmap]
rs12295581	1.00[CEU][hapmap]
rs12361485	1.00[CEU][hapmap];0.85[LWK][hapmap]
rs12364463	1.00[CEU][hapmap]
rs4483609	1.00[CEU][hapmap];0.85[MKK][hapmap]
rs7101380	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs7119661	1.00[CEU][hapmap]
rs7130372	1.00[CEU][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs73499559	0.93[AFR][1000 genomes]
rs7951232	1.00[CEU][hapmap];0.80[AFR][1000 genomes]
rs7952049	1.00[CEU][hapmap]

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:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:76994400-76998600	Weak transcription	HSMMtube	muscle
2	chr11:76996800-77000200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr11:76997400-77000200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr11:76997600-76999600	Enhancers	NHLF	lung
5	chr11:76998000-76999400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr11:76998000-76999400	Enhancers	NH-A	brain
7	chr11:76998000-76999400	Enhancers	Osteobl	bone
8	chr11:76998200-76999600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr11:76998200-76999600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr11:76998200-76999600	Enhancers	Hela-S3	cervix
11	chr11:76998200-76999600	Enhancers	HMEC	breast
12	chr11:76998200-76999600	Enhancers	HSMM	muscle
13	chr11:76998200-76999600	Enhancers	NHEK	skin
14	chr11:76998400-76998800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
15	chr11:76998400-76998800	Flanking Active TSS	NHDF-Ad	bronchial
16	chr11:76998400-76999200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
17	chr11:76998400-76999200	Enhancers	A549	lung
18	chr11:76998400-76999400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr11:76998400-76999400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links