Variant report

Variant	rs13298720
Chromosome Location	chr9:79261825-79261826
allele	A/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	chr9:79261626-79261826	MCF10A-Er-Src	breast:	n/a	n/a
2	NFIC	chr9:79260785-79261840	ECC-1	luminal epithelium:	n/a	chr9:79261449-79261466 chr9:79261450-79261466

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:79255042..79257003-chr9:79260887..79262943,2	K562	blood:
2	chr9:79260136..79261869-chr9:79266939..79269421,2	MCF-7	breast:

Variant related genes	Relation type
PRUNE2	TF binding region
ENSG00000106772	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

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	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893479	chr9:78971253-79275226	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv949417	chr9:79078703-79282589	Strong transcription Genic enhancers Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv1040363	chr9:79246366-79711737	Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	esv3345842	chr9:79260247-79263783	Weak transcription Genic enhancers Strong transcription Enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79225400-79265600	Weak transcription	Fetal Muscle Leg	muscle
2	chr9:79249600-79265400	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr9:79249600-79265600	Weak transcription	NHDF-Ad	bronchial
4	chr9:79249600-79265600	Weak transcription	NHLF	lung
5	chr9:79252600-79278000	Weak transcription	Gastric	stomach
6	chr9:79254000-79263000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr9:79255800-79265800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr9:79258000-79262600	Weak transcription	Duodenum Mucosa	Duodenum
9	chr9:79258000-79265600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr9:79258000-79270000	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr9:79258200-79265600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr9:79258200-79265600	Weak transcription	Adipose Nuclei	Adipose
13	chr9:79258200-79265800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr9:79258200-79267800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr9:79259000-79262600	Weak transcription	Brain Anterior Caudate	brain
16	chr9:79259000-79269200	Weak transcription	Brain Substantia Nigra	brain
17	chr9:79259000-79278000	Weak transcription	Spleen	Spleen
18	chr9:79259200-79262400	Weak transcription	Fetal Stomach	stomach
19	chr9:79259200-79265600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr9:79259200-79265600	Weak transcription	Rectal Smooth Muscle	rectum
21	chr9:79259400-79264800	Weak transcription	Primary hematopoietic stem cells	blood
22	chr9:79259400-79264800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr9:79259400-79265200	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr9:79259400-79265600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr9:79259400-79265600	Weak transcription	Primary monocytes fromperipheralblood	blood
26	chr9:79259800-79262600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr9:79259800-79263200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr9:79259800-79263400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr9:79259800-79264800	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr9:79259800-79264800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr9:79259800-79265600	Weak transcription	Primary B cells from cord blood	blood
32	chr9:79259800-79265600	Weak transcription	Stomach Mucosa	stomach
33	chr9:79260000-79262600	Weak transcription	Colon Smooth Muscle	Colon
34	chr9:79260000-79263000	Weak transcription	Brain Cingulate Gyrus	brain
35	chr9:79260000-79265400	Weak transcription	Primary neutrophils fromperipheralblood	blood
36	chr9:79260000-79282400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr9:79260200-79265400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr9:79260200-79265400	Weak transcription	Duodenum Smooth Muscle	Duodenum
39	chr9:79260200-79265600	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr9:79260200-79266200	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr9:79260400-79265600	Weak transcription	Small Intestine	intestine
42	chr9:79261000-79265800	Weak transcription	Ovary	ovary
43	chr9:79261400-79262000	Strong transcription	Fetal Thymus	thymus
44	chr9:79261400-79262800	Weak transcription	Fetal Intestine Large	intestine
45	chr9:79261600-79262000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr9:79261600-79262000	Strong transcription	HSMM	muscle
47	chr9:79261600-79262600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr9:79261600-79262600	Weak transcription	Brain Angular Gyrus	brain
49	chr9:79261600-79262600	Weak transcription	Brain Hippocampus Middle	brain
50	chr9:79261600-79262600	Weak transcription	Brain Inferior Temporal Lobe	brain

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