Variant report

Variant	rs6561642
Chromosome Location	chr13:52236940-52236941
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:52236778..52240466-chr13:52241446..52244074,4	MCF-7	breast:
2	chr13:52234515..52237398-chr13:52242766..52244811,2	K562	blood:

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs3862737	1.00[EUR][1000 genomes]
rs617452	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6561647	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74086279	0.80[AFR][1000 genomes];1.00[AMR][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:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:52219600-52253800	Weak transcription	Psoas Muscle	Psoas
2	chr13:52220400-52259000	Weak transcription	Thymus	Thymus
3	chr13:52221200-52253800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr13:52221600-52238000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr13:52228400-52247000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr13:52228600-52238200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr13:52228600-52238200	Weak transcription	Pancreas	Pancrea
8	chr13:52228600-52238600	Weak transcription	Aorta	Aorta
9	chr13:52228600-52248000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr13:52228600-52254000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr13:52228800-52238200	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr13:52229000-52248400	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr13:52230000-52237800	Weak transcription	NHEK	skin
14	chr13:52231600-52237600	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr13:52231600-52242800	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr13:52231600-52249600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr13:52231800-52237800	Weak transcription	Primary T cells from cord blood	blood
18	chr13:52231800-52242400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr13:52231800-52244000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr13:52232000-52238200	Weak transcription	Brain Anterior Caudate	brain
21	chr13:52232200-52261800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr13:52232400-52237400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr13:52232800-52238200	Weak transcription	HMEC	breast
24	chr13:52232800-52238600	Weak transcription	Primary B cells from cord blood	blood
25	chr13:52232800-52256400	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr13:52233000-52238200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr13:52233200-52237400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr13:52233400-52237200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr13:52233800-52238200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr13:52233800-52240400	Weak transcription	Right Ventricle	heart
31	chr13:52234000-52237600	Weak transcription	Brain Substantia Nigra	brain
32	chr13:52234000-52238200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr13:52234000-52238200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr13:52234000-52238200	Weak transcription	Brain Angular Gyrus	brain
35	chr13:52234000-52238200	Weak transcription	Fetal Muscle Leg	muscle
36	chr13:52234000-52238200	Weak transcription	Left Ventricle	heart
37	chr13:52234000-52238200	Weak transcription	Ovary	ovary
38	chr13:52234000-52238200	Weak transcription	NHLF	lung
39	chr13:52234000-52238400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr13:52234000-52238800	Weak transcription	Fetal Lung	lung
41	chr13:52234000-52239800	Weak transcription	HSMMtube	muscle
42	chr13:52234000-52240200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr13:52234000-52277800	Weak transcription	Stomach Smooth Muscle	stomach
44	chr13:52234200-52237200	Weak transcription	A549	lung
45	chr13:52234200-52238200	Weak transcription	Brain Inferior Temporal Lobe	brain
46	chr13:52234200-52238400	Weak transcription	Liver	Liver
47	chr13:52234200-52238400	Weak transcription	Brain Cingulate Gyrus	brain
48	chr13:52234200-52239800	Weak transcription	Brain Hippocampus Middle	brain
49	chr13:52234200-52244600	Weak transcription	GM12878-XiMat	blood
50	chr13:52234200-52258800	Weak transcription	Adipose Nuclei	Adipose

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