Variant report

Variant	rs11788360
Chromosome Location	chr9:110247664-110247665
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:20)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:1)

No data

(count:20 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:110247080..110249421-chr9:111323616..111326393,2	MCF-7	breast:
2	chr9:110243041..110245201-chr9:110246252..110249576,3	K562	blood:
3	chr9:110246852..110249468-chr9:110266978..110269904,2	MCF-7	breast:
4	chr9:110246539..110249058-chr9:111030937..111033862,2	MCF-7	breast:
5	chr9:110246480..110248143-chr9:110388562..110390733,2	MCF-7	breast:
6	chr9:110246511..110249498-chr9:111190126..111191677,2	MCF-7	breast:
7	chr9:110246319..110249443-chr9:111522237..111525040,3	MCF-7	breast:
8	chr9:110246498..110248989-chr9:110515168..110518438,3	MCF-7	breast:
9	chr9:110245244..110247953-chr9:110892992..110894889,2	MCF-7	breast:
10	chr9:110246472..110248757-chr9:111030906..111033731,4	MCF-7	breast:
11	chr9:110247496..110249786-chr9:111257923..111260578,2	MCF-7	breast:
12	chr9:110187314..110189202-chr9:110246490..110248123,2	MCF-7	breast:
13	chr9:110245030..110248029-chr9:110915233..110917839,2	MCF-7	breast:
14	chr9:110246045..110248500-chr9:111231689..111233848,2	MCF-7	breast:
15	chr9:110246769..110253919-chr9:110298442..110306182,20	MCF-7	breast:
16	chr9:110246987..110249540-chr9:110886248..110888523,2	MCF-7	breast:
17	chr9:110247156..110249811-chr9:110250115..110251860,2	K562	blood:
18	chr9:110246354..110248073-chr9:110381109..110383476,2	MCF-7	breast:
19	chr9:110247513..110249830-chr9:110339098..110341617,2	MCF-7	breast:
20	chr9:110247289..110249056-chr9:110417408..110419727,2	MCF-7	breast:

No data

(count:1 , 50 per page) page: 1

No.	miRNA target gene	miRNA name	Chromosome Location	mirBase accession
1	KLF4	hsa-miR-25-3p	chr9:110247664-110247685

Variant related genes	Relation type
ENSG00000136826	Chromatin interaction
ENSG00000227350	Chromatin interaction
KLF4	miRNA target site

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10117763	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10816519	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10978813	1.00[CEU][hapmap]
rs10978814	1.00[CEU][hapmap]
rs10978817	1.00[CEU][hapmap]
rs11792359	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11793219	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11794295	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11795298	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12005490	1.00[CEU][hapmap]
rs12335657	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12336189	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12336214	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12340310	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12340462	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12345785	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12351651	1.00[EUR][1000 genomes]
rs12352260	0.94[EUR][1000 genomes]
rs12353064	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34651589	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7024696	1.00[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530948	chr9:109760752-110413602	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110235800-110248400	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr9:110236000-110248400	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr9:110242800-110249000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr9:110243000-110249600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr9:110243200-110247800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr9:110243200-110247800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr9:110243200-110248000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr9:110243200-110248400	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr9:110243200-110248800	Weak transcription	Fetal Lung	lung
10	chr9:110243400-110247800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr9:110243600-110247800	Weak transcription	Primary neutrophils fromperipheralblood	blood
12	chr9:110243600-110247800	Weak transcription	Esophagus	oesophagus
13	chr9:110243600-110248000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr9:110244000-110249200	Weak transcription	A549	lung
15	chr9:110244000-110250400	Weak transcription	HSMMtube	muscle
16	chr9:110244200-110248400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr9:110246000-110249000	Weak transcription	Spleen	Spleen
18	chr9:110246000-110249800	Transcr. at gene 5' and 3'	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr9:110246200-110253800	Active TSS	Right Atrium	heart
20	chr9:110246600-110249000	Weak transcription	Brain Anterior Caudate	brain
21	chr9:110246800-110247800	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr9:110247000-110249000	Active TSS	Fetal Stomach	stomach
23	chr9:110247000-110249600	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr9:110247000-110249800	Transcr. at gene 5' and 3'	Rectal Mucosa Donor 29	rectum
25	chr9:110247000-110249800	Transcr. at gene 5' and 3'	Monocytes-CD14+_RO01746	blood
26	chr9:110247000-110250600	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr9:110247200-110248000	Genic enhancers	Hela-S3	cervix
28	chr9:110247200-110248400	Genic enhancers	HMEC	breast
29	chr9:110247200-110248800	Active TSS	Rectal Smooth Muscle	rectum
30	chr9:110247200-110249000	Active TSS	Colonic Mucosa	Colon
31	chr9:110247200-110249600	Transcr. at gene 5' and 3'	NHEK	skin
32	chr9:110247200-110250000	Transcr. at gene 5' and 3'	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr9:110247200-110250400	Transcr. at gene 5' and 3'	Adipose Nuclei	Adipose
34	chr9:110247200-110250600	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr9:110247200-110250800	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr9:110247200-110254000	Active TSS	Duodenum Smooth Muscle	Duodenum
37	chr9:110247400-110248000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr9:110247400-110248000	Active TSS	Brain Substantia Nigra	brain
39	chr9:110247400-110248000	Strong transcription	Ovary	ovary
40	chr9:110247400-110248200	Transcr. at gene 5' and 3'	Fetal Muscle Leg	muscle
41	chr9:110247400-110248400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
42	chr9:110247400-110248400	Transcr. at gene 5' and 3'	Stomach Mucosa	stomach
43	chr9:110247400-110248600	Genic enhancers	Muscle Satellite Cultured Cells	--
44	chr9:110247400-110249000	Active TSS	Fetal Intestine Small	intestine
45	chr9:110247400-110249200	Active TSS	Pancreatic Islets	Pancreatic Islet
46	chr9:110247400-110249200	Active TSS	Right Ventricle	heart
47	chr9:110247400-110249400	Transcr. at gene 5' and 3'	Fetal Intestine Large	intestine
48	chr9:110247400-110249600	Transcr. at gene 5' and 3'	Placenta Amnion	Placenta Amnion
49	chr9:110247400-110249600	Transcr. at gene 5' and 3'	NHDF-Ad	bronchial
50	chr9:110247400-110249800	Transcr. at gene 5' and 3'	Primary monocytes fromperipheralblood	blood

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