Variant report

Variant	rs13088001
Chromosome Location	chr3:136507818-136507819
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:136470232..136471978-chr3:136506228..136508578,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000118007	Chromatin interaction
ENSG00000261758	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1280623	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13063987	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13075615	1.00[ASN][1000 genomes]
rs1681816	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1681818	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34281413	1.00[ASN][1000 genomes]
rs34613715	1.00[ASN][1000 genomes]
rs34738913	1.00[ASN][1000 genomes]
rs35159729	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4678440	1.00[ASN][1000 genomes]
rs71336078	1.00[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	nsv1006737	chr3:136466188-136530743	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136500200-136508000	Enhancers	Placenta	Placenta
2	chr3:136505400-136508800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:136506200-136509200	Enhancers	Adipose Nuclei	Adipose
4	chr3:136506400-136508600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr3:136506400-136511400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr3:136506400-136521000	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr3:136506600-136508600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr3:136506600-136508600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr3:136506600-136508600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr3:136506600-136510000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr3:136506600-136511200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr3:136506600-136511200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr3:136506600-136511200	Weak transcription	Brain Anterior Caudate	brain
14	chr3:136506600-136511200	Weak transcription	Brain Cingulate Gyrus	brain
15	chr3:136506600-136511200	Weak transcription	Brain Hippocampus Middle	brain
16	chr3:136506600-136511200	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr3:136506600-136511200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr3:136506600-136511200	Weak transcription	Fetal Brain Male	brain
19	chr3:136506600-136511400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr3:136506600-136511800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr3:136506600-136521000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr3:136506600-136521200	Weak transcription	Hela-S3	cervix
23	chr3:136506800-136511200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr3:136506800-136511400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr3:136506800-136511600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr3:136506800-136511800	Weak transcription	Primary hematopoietic stem cells	blood
27	chr3:136507200-136508600	Weak transcription	NHDF-Ad	bronchial
28	chr3:136507200-136508800	Weak transcription	Cortex derived primary cultured neurospheres	brain
29	chr3:136507200-136508800	Weak transcription	Osteobl	bone
30	chr3:136507200-136510800	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr3:136507200-136511200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr3:136507200-136511200	Weak transcription	Brain Angular Gyrus	brain
33	chr3:136507400-136508400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr3:136507400-136508600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr3:136507400-136508600	Weak transcription	NHLF	lung
36	chr3:136507400-136511200	Weak transcription	Brain Substantia Nigra	brain
37	chr3:136507600-136508800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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