Variant report

Variant	rs7333623
Chromosome Location	chr13:52230518-52230519
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:52025336..52027291-chr13:52229522..52232184,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000236778	Chromatin interaction
ENSG00000102786	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs17075902	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3803201	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3825410	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4075628	0.90[ASN][1000 genomes]
rs4625625	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4941710	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4943018	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7328589	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7328695	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7986066	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9563065	0.90[ASN][1000 genomes]
rs9563066	0.90[ASN][1000 genomes]
rs9563067	1.00[CEU][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9568644	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9568647	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568649	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9568650	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9568653	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9568658	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][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:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:52219600-52253800	Weak transcription	Psoas Muscle	Psoas
2	chr13:52219800-52233800	Weak transcription	A549	lung
3	chr13:52220400-52259000	Weak transcription	Thymus	Thymus
4	chr13:52220600-52233400	Weak transcription	Ovary	ovary
5	chr13:52220600-52233400	Weak transcription	Right Atrium	heart
6	chr13:52220600-52236400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr13:52220800-52233600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr13:52221000-52235800	Weak transcription	HSMM	muscle
9	chr13:52221200-52253800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr13:52221600-52233400	Weak transcription	Osteobl	bone
11	chr13:52221600-52238000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr13:52227600-52233000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr13:52228400-52247000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr13:52228600-52233200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr13:52228600-52238200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr13:52228600-52238200	Weak transcription	Pancreas	Pancrea
17	chr13:52228600-52238600	Weak transcription	Aorta	Aorta
18	chr13:52228600-52248000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr13:52228600-52254000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr13:52228800-52233200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr13:52228800-52236200	Weak transcription	Lung	lung
22	chr13:52228800-52236400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr13:52228800-52236400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr13:52228800-52238200	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr13:52229000-52248400	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr13:52229400-52236400	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr13:52229600-52232400	Enhancers	iPS-18 Cell Line	embryonic stem cell
28	chr13:52229600-52234200	Enhancers	HepG2	liver
29	chr13:52229800-52236200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr13:52230000-52231000	Enhancers	iPS-20b Cell Line	embryonic stem cell
31	chr13:52230000-52233200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr13:52230000-52237800	Weak transcription	NHEK	skin
33	chr13:52230200-52231000	Weak transcription	HUES48 Cell Line	embryonic stem cell

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