Variant report

Variant	rs9568646
Chromosome Location	chr13:52217685-52217686
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:52213097..52215123-chr13:52216352..52219205,2	MCF-7	breast:
2	chr13:52178663..52180470-chr13:52217456..52220135,2	MCF-7	breast:
3	chr13:52025161..52027621-chr13:52217587..52219691,2	MCF-7	breast:
4	chr13:52158141..52160205-chr13:52217071..52219472,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000236778	Chromatin interaction
ENSG00000102786	Chromatin interaction
ENSG00000139668	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs7329391	0.83[CHD][hapmap];0.85[JPT][hapmap]
rs9563058	1.00[TSI][hapmap]
rs9563062	0.82[JPT][hapmap];1.00[TSI][hapmap]
rs9563073	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9568622	0.82[JPT][hapmap]
rs9568635	0.85[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap]
rs9568640	1.00[TSI][hapmap];0.83[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	nsv832612	chr13:52176983-52362525	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:52207200-52218400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr13:52207600-52220200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr13:52208200-52220000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr13:52209600-52218800	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr13:52210600-52220000	Weak transcription	Gastric	stomach
6	chr13:52211000-52218400	Weak transcription	Fetal Intestine Small	intestine
7	chr13:52211400-52220000	Weak transcription	Aorta	Aorta
8	chr13:52211400-52220200	Weak transcription	Spleen	Spleen
9	chr13:52212400-52220200	Weak transcription	Esophagus	oesophagus
10	chr13:52213000-52218800	Weak transcription	Ovary	ovary
11	chr13:52213600-52217800	Weak transcription	Fetal Lung	lung
12	chr13:52216400-52218200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr13:52216600-52218800	Enhancers	Primary neutrophils fromperipheralblood	blood
14	chr13:52216600-52221000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr13:52216600-52221200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr13:52216600-52221400	Enhancers	Primary monocytes fromperipheralblood	blood
17	chr13:52217000-52217800	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr13:52217000-52218000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr13:52217000-52218800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr13:52217000-52219400	Enhancers	Pancreas	Pancrea
21	chr13:52217000-52220400	Enhancers	Placenta	Placenta
22	chr13:52217000-52220600	Enhancers	Right Atrium	heart
23	chr13:52217000-52220800	Enhancers	Adipose Nuclei	Adipose
24	chr13:52217000-52221200	Enhancers	H1 Cell Line	embryonic stem cell
25	chr13:52217200-52217800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
26	chr13:52217200-52217800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
27	chr13:52217200-52218000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
28	chr13:52217200-52218200	Enhancers	Primary B cells from cord blood	blood
29	chr13:52217200-52218800	Enhancers	ES-I3 Cell Line	embryonic stem cell
30	chr13:52217200-52218800	Enhancers	Primary T cells from cord blood	blood
31	chr13:52217200-52219000	Enhancers	Right Ventricle	heart
32	chr13:52217200-52220400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr13:52217200-52220600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr13:52217200-52220600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr13:52217200-52221000	Enhancers	HUES64 Cell Line	embryonic stem cell
36	chr13:52217200-52221000	Enhancers	Cortex derived primary cultured neurospheres	brain
37	chr13:52217200-52221200	Enhancers	iPS-15b Cell Line	embryonic stem cell
38	chr13:52217200-52222400	Enhancers	Brain Substantia Nigra	brain
39	chr13:52217400-52217800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
40	chr13:52217400-52218000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr13:52217400-52218000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr13:52217400-52218000	Enhancers	Rectal Smooth Muscle	rectum
43	chr13:52217400-52218200	Enhancers	Primary T helper naive cells from peripheral blood	blood
44	chr13:52217400-52218200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr13:52217400-52218400	Enhancers	Primary T helper cells PMA-I stimulated	--
46	chr13:52217400-52218600	Enhancers	iPS-20b Cell Line	embryonic stem cell
47	chr13:52217400-52218800	Enhancers	iPS-18 Cell Line	embryonic stem cell
48	chr13:52217400-52218800	Flanking Active TSS	HUVEC	blood vessel
49	chr13:52217400-52219400	Enhancers	Skeletal Muscle Male	skeletal muscle
50	chr13:52217400-52219600	Enhancers	Psoas Muscle	Psoas

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