Variant report

Variant	rs17252152
Chromosome Location	chr13:51858706-51858707
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:51722852..51723780-chr13:51858091..51858924,2	MCF-7	breast:

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11617293	0.90[JPT][hapmap]
rs1475377	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.94[JPT][hapmap];0.86[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17837207	0.84[JPT][hapmap]
rs17837210	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];0.81[CHD][hapmap];0.92[GIH][hapmap];0.80[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3825409	0.90[JPT][hapmap]
rs4942985	0.90[JPT][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	nsv832611	chr13:51766472-51938314	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51833600-51860400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr13:51837800-51860400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr13:51846400-51866400	Weak transcription	Fetal Brain Male	brain
4	chr13:51846600-51865600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr13:51846600-51865600	Weak transcription	Fetal Lung	lung
6	chr13:51850200-51865600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr13:51851000-51866400	Weak transcription	Adipose Nuclei	Adipose
8	chr13:51851200-51865600	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr13:51853000-51860400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr13:51853000-51889600	Weak transcription	Brain Angular Gyrus	brain
11	chr13:51853200-51860400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr13:51854600-51866800	Weak transcription	Stomach Mucosa	stomach
13	chr13:51854800-51859400	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr13:51855200-51861400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr13:51855400-51862000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr13:51855400-51862400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr13:51855600-51860400	Weak transcription	Fetal Stomach	stomach
18	chr13:51855600-51875400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr13:51855800-51866400	Weak transcription	Brain Germinal Matrix	brain
20	chr13:51856200-51860000	Weak transcription	Brain Cingulate Gyrus	brain
21	chr13:51856600-51860000	Weak transcription	Fetal Brain Female	brain
22	chr13:51856600-51860400	Weak transcription	Fetal Heart	heart
23	chr13:51856600-51865400	Weak transcription	Brain Substantia Nigra	brain
24	chr13:51856600-51865600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr13:51856800-51859200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr13:51856800-51859400	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr13:51856800-51860400	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr13:51856800-51860400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr13:51856800-51860800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr13:51856800-51865000	Weak transcription	Aorta	Aorta
31	chr13:51857000-51859000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr13:51857000-51860000	Weak transcription	Brain Hippocampus Middle	brain
33	chr13:51857000-51860400	Weak transcription	Rectal Smooth Muscle	rectum
34	chr13:51857000-51865200	Weak transcription	Colon Smooth Muscle	Colon
35	chr13:51857000-51867000	Weak transcription	Right Ventricle	heart
36	chr13:51857000-51871400	Weak transcription	H1 Cell Line	embryonic stem cell
37	chr13:51857200-51860400	Weak transcription	Stomach Smooth Muscle	stomach
38	chr13:51858200-51858800	Enhancers	Brain Anterior Caudate	brain
39	chr13:51858200-51865200	Weak transcription	Left Ventricle	heart
40	chr13:51858400-51858800	Enhancers	iPS-15b Cell Line	embryonic stem cell
41	chr13:51858400-51860800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr13:51858600-51859000	Enhancers	HUES48 Cell Line	embryonic stem cell
43	chr13:51858600-51862400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr13:51858600-51865600	Weak transcription	H9 Cell Line	embryonic stem cell

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