Variant report

Variant	rs6453778
Chromosome Location	chr6:75444828-75444829
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	TCF12	chr6:75444817-75445435	ECC-1	luminal epithelium:	n/a	n/a

Variant related genes	Relation type
ENSG00000272243	TF binding region

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs2485456	0.83[AFR][1000 genomes]
rs2485457	0.83[AFR][1000 genomes]
rs2485458	0.84[AFR][1000 genomes]
rs2485459	0.84[AFR][1000 genomes]
rs2485460	0.82[AFR][1000 genomes]
rs2485461	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2502454	0.81[AFR][1000 genomes]
rs2502455	0.84[AFR][1000 genomes]
rs2502457	0.84[AFR][1000 genomes]
rs2502458	0.84[AFR][1000 genomes]
rs2502460	0.84[AFR][1000 genomes]
rs2502461	0.83[AFR][1000 genomes]
rs2502462	0.83[AFR][1000 genomes]
rs35487489	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4259223	0.84[AFR][1000 genomes]
rs4283850	0.84[AFR][1000 genomes]
rs4312939	0.84[AFR][1000 genomes]
rs4321797	0.84[AFR][1000 genomes]
rs4368781	0.84[AFR][1000 genomes]
rs4513745	0.84[AFR][1000 genomes]
rs4516911	0.84[AFR][1000 genomes]
rs4523053	0.84[AFR][1000 genomes]
rs4576212	0.84[AFR][1000 genomes]
rs62438801	0.84[AFR][1000 genomes]
rs62438802	0.84[AFR][1000 genomes]
rs62438804	0.84[AFR][1000 genomes]
rs62438805	0.81[AFR][1000 genomes]
rs6453773	0.84[AFR][1000 genomes]
rs6453774	0.84[AFR][1000 genomes]
rs6453775	0.84[AFR][1000 genomes]
rs6453776	0.84[AFR][1000 genomes]
rs6930821	0.84[AFR][1000 genomes]
rs7749977	0.84[AFR][1000 genomes]
rs7769692	0.84[AFR][1000 genomes]
rs9360843	0.84[AFR][1000 genomes]
rs9360844	0.84[AFR][1000 genomes]
rs9360845	0.84[AFR][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	nsv520746	chr6:75211546-75691814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv917283	chr6:75234428-75641440	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv830694	chr6:75245483-75446282	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv830695	chr6:75409656-75583115	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv603759	chr6:75432861-75461657	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv886169	chr6:75432861-75610722	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:75440400-75446000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr6:75440800-75445600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr6:75440800-75445600	Enhancers	NHDF-Ad	bronchial
4	chr6:75442200-75445000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:75443400-75445800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr6:75443600-75445600	Enhancers	Colon Smooth Muscle	Colon
7	chr6:75443600-75445600	Enhancers	Osteobl	bone
8	chr6:75443600-75446000	Enhancers	NHLF	lung
9	chr6:75444200-75445000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:75444600-75445600	Enhancers	Muscle Satellite Cultured Cells	--
11	chr6:75444600-75445800	Enhancers	Hela-S3	cervix
12	chr6:75444800-75445000	Enhancers	HSMMtube	muscle
13	chr6:75444800-75445200	Enhancers	HMEC	breast

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