Variant report

Variant	rs12345785
Chromosome Location	chr9:110244118-110244119
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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:110242425..110245039-chr9:110248076..110250038,3	K562	blood:
2	chr9:110243056..110245207-chr9:110807141..110809330,2	MCF-7	breast:
3	chr9:110243474..110246335-chr9:111191913..111193527,2	MCF-7	breast:
4	chr9:110242124..110246381-chr9:110250580..110253838,4	K562	blood:
5	chr9:110201238..110203067-chr9:110242097..110244631,2	MCF-7	breast:
6	chr9:110243039..110245357-chr9:110265653..110268473,2	MCF-7	breast:
7	chr9:110243041..110245201-chr9:110246252..110249576,3	K562	blood:
8	chr9:110241813..110245896-chr9:110516233..110519941,6	MCF-7	breast:
9	chr9:110183651..110188912-chr9:110241760..110247233,8	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000136826	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10117763	0.88[EUR][1000 genomes]
rs10816519	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11788360	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11792359	1.00[EUR][1000 genomes]
rs11793219	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11794295	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11795298	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12335657	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12336189	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12336214	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]
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]

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:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110235600-110247600	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr9:110235800-110248400	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr9:110236000-110248400	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr9:110241600-110245800	Weak transcription	Stomach Mucosa	stomach
5	chr9:110242200-110247400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr9:110242800-110247400	Weak transcription	Placenta	Placenta
7	chr9:110242800-110249000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr9:110243000-110249600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:110243200-110245800	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr9:110243200-110246600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr9:110243200-110246600	Weak transcription	Adipose Nuclei	Adipose
12	chr9:110243200-110247200	Weak transcription	HMEC	breast
13	chr9:110243200-110247600	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr9:110243200-110247800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr9:110243200-110247800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr9:110243200-110248000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr9:110243200-110248400	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr9:110243200-110248800	Weak transcription	Fetal Lung	lung
19	chr9:110243400-110244400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr9:110243400-110244600	Enhancers	NHDF-Ad	bronchial
21	chr9:110243400-110247400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr9:110243400-110247800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr9:110243600-110244400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr9:110243600-110244400	Enhancers	Rectal Mucosa Donor 31	rectum
25	chr9:110243600-110244600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr9:110243600-110247200	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr9:110243600-110247400	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr9:110243600-110247800	Weak transcription	Primary neutrophils fromperipheralblood	blood
29	chr9:110243600-110247800	Weak transcription	Esophagus	oesophagus
30	chr9:110243600-110248000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr9:110243800-110245800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr9:110243800-110246000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr9:110243800-110246400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr9:110243800-110247400	Weak transcription	Psoas Muscle	Psoas
35	chr9:110243800-110247400	Weak transcription	Stomach Smooth Muscle	stomach
36	chr9:110243800-110247600	Weak transcription	Osteobl	bone
37	chr9:110244000-110244200	Enhancers	Monocytes-CD14+_RO01746	blood
38	chr9:110244000-110246200	Weak transcription	Primary monocytes fromperipheralblood	blood
39	chr9:110244000-110246800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr9:110244000-110247000	Weak transcription	NHEK	skin
41	chr9:110244000-110247200	Weak transcription	Hela-S3	cervix
42	chr9:110244000-110249200	Weak transcription	A549	lung
43	chr9:110244000-110250400	Weak transcription	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links