Variant report

Variant	rs7783489
Chromosome Location	chr7:7594208-7594209
allele	G/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	STAT3	chr7:7592945-7594529	MCF10A-Er-Src	breast:	n/a	chr7:7593995-7594003
2	TCF7L2	chr7:7593576-7595058	HEK293	kidney:	n/a	chr7:7594662-7594678 chr7:7594662-7594678
3	KAP1	chr7:7593215-7595132	HEK293	kidney:	n/a	n/a
4	STAT3	chr7:7593674-7594536	MCF10A-Er-Src	breast:	n/a	chr7:7593995-7594003
5	NFIC	chr7:7594203-7594783	ECC-1	luminal epithelium:	n/a	n/a
6	MYC	chr7:7593732-7594298	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:7588099..7594648-chr7:7604621..7611487,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000272732	TF binding region
ENSG00000272894	Chromatin interaction
ENSG00000164654	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10486183	0.93[YRI][hapmap];0.98[AFR][1000 genomes]
rs17151551	0.92[AFR][1000 genomes]
rs17168444	0.92[AFR][1000 genomes]
rs17168526	1.00[ASW][hapmap];0.95[LWK][hapmap];0.85[MKK][hapmap];0.85[YRI][hapmap];0.92[AFR][1000 genomes]
rs58901081	0.98[AFR][1000 genomes]
rs60654515	1.00[AFR][1000 genomes]
rs6956575	0.98[AFR][1000 genomes]
rs6969871	0.82[AFR][1000 genomes]
rs7782178	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7791080	1.00[AFR][1000 genomes]
rs7796098	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7805479	0.96[MKK][hapmap];0.81[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949293	chr7:6990891-7711883	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
2	nsv1019498	chr7:7053923-7668373	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
3	nsv538721	chr7:7053923-7668373	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
4	nsv1026758	chr7:7187491-8075259	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
5	nsv887470	chr7:7310023-7655094	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
6	nsv887472	chr7:7405069-7680697	Active TSS Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
7	nsv606042	chr7:7427535-7876466	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
8	nsv887473	chr7:7497676-7604913	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	nsv1027872	chr7:7516124-7600842	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	nsv1024107	chr7:7516124-7601638	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
11	nsv887474	chr7:7519603-7679644	Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
12	nsv887475	chr7:7519603-7679644	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
13	nsv887476	chr7:7519603-7680697	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
14	nsv887477	chr7:7531819-7810122	Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
15	nsv1032670	chr7:7535515-8017077	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
16	nsv8043	chr7:7589195-7862802	Flanking Active TSS Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:7581800-7595800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr7:7589400-7605800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr7:7589800-7596000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr7:7589800-7596000	Weak transcription	Aorta	Aorta
5	chr7:7589800-7596000	Weak transcription	Placenta	Placenta
6	chr7:7589800-7596600	Weak transcription	Gastric	stomach
7	chr7:7590000-7595000	Weak transcription	Brain Hippocampus Middle	brain
8	chr7:7590000-7606000	Weak transcription	Brain Substantia Nigra	brain
9	chr7:7590000-7606200	Weak transcription	Ovary	ovary
10	chr7:7590200-7605800	Weak transcription	Brain Anterior Caudate	brain
11	chr7:7590200-7605800	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr7:7591800-7594800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr7:7592000-7596400	Weak transcription	Lung	lung
14	chr7:7592200-7594600	Enhancers	HSMM	muscle
15	chr7:7592400-7599200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr7:7592600-7594400	Weak transcription	Psoas Muscle	Psoas
17	chr7:7593000-7594600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr7:7593200-7594600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr7:7593200-7594600	Enhancers	NH-A	brain
20	chr7:7593400-7594600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr7:7593400-7594600	Enhancers	HSMMtube	muscle
22	chr7:7593600-7595200	Enhancers	Fetal Muscle Leg	muscle
23	chr7:7593600-7595200	Enhancers	Pancreas	Pancrea
24	chr7:7593800-7595000	Enhancers	Liver	Liver
25	chr7:7593800-7595200	Enhancers	Osteobl	bone
26	chr7:7593800-7595400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr7:7593800-7595400	Enhancers	NHDF-Ad	bronchial
28	chr7:7593800-7606000	Weak transcription	Right Atrium	heart
29	chr7:7594000-7594400	Weak transcription	Brain Germinal Matrix	brain
30	chr7:7594000-7595200	Enhancers	Cortex derived primary cultured neurospheres	brain
31	chr7:7594000-7595200	Enhancers	Skeletal Muscle Male	skeletal muscle
32	chr7:7594200-7594400	Enhancers	Pancreatic Islets	Pancreatic Islet
33	chr7:7594200-7594600	Active TSS	Skeletal Muscle Female	skeletal muscle
34	chr7:7594200-7595200	Flanking Active TSS	Muscle Satellite Cultured Cells	--

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