Variant report

Variant	rs3780578
Chromosome Location	chr9:13213413-13213414
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10125695	0.85[ASN][1000 genomes]
rs12005144	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes]
rs1331674	0.82[JPT][hapmap]
rs3780576	0.92[CHB][hapmap];0.83[JPT][hapmap];0.91[ASN][1000 genomes]
rs3780577	0.92[CHB][hapmap];0.83[JPT][hapmap];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892578	chr9:12942956-13485035	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv892583	chr9:13166139-13350478	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:13121600-13225200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr9:13135400-13223600	Weak transcription	Lung	lung
3	chr9:13145400-13228600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr9:13164200-13248600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr9:13164200-13258800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:13182200-13226800	Weak transcription	Fetal Brain Male	brain
7	chr9:13188000-13220800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr9:13189000-13221000	Weak transcription	NHLF	lung
9	chr9:13189000-13268600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr9:13190400-13237800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr9:13195400-13223400	Weak transcription	Fetal Stomach	stomach
12	chr9:13202800-13215600	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr9:13202800-13220800	Weak transcription	Placenta	Placenta
14	chr9:13202800-13226400	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr9:13202800-13250600	Weak transcription	Pancreas	Pancrea
16	chr9:13202800-13250800	Weak transcription	Psoas Muscle	Psoas
17	chr9:13203000-13223600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr9:13203000-13224800	Weak transcription	Primary hematopoietic stem cells	blood
19	chr9:13203000-13225400	Weak transcription	Brain Anterior Caudate	brain
20	chr9:13203000-13261000	Weak transcription	Colon Smooth Muscle	Colon
21	chr9:13203200-13214400	Weak transcription	Fetal Brain Female	brain
22	chr9:13203400-13214000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr9:13203400-13223600	Weak transcription	Ovary	ovary
24	chr9:13203400-13224800	Weak transcription	Rectal Smooth Muscle	rectum
25	chr9:13203400-13226400	Weak transcription	Right Ventricle	heart
26	chr9:13203400-13247000	Weak transcription	Brain Cingulate Gyrus	brain
27	chr9:13203600-13216200	Weak transcription	Brain Substantia Nigra	brain
28	chr9:13203600-13219600	Weak transcription	HSMMtube	muscle
29	chr9:13203600-13245600	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr9:13203800-13220800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr9:13204000-13215000	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr9:13204000-13241800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr9:13204000-13249200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr9:13204200-13244600	Weak transcription	HepG2	liver
35	chr9:13204400-13214400	Weak transcription	Brain Germinal Matrix	brain
36	chr9:13204400-13221800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr9:13204600-13214000	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr9:13204800-13213600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr9:13206000-13214000	Weak transcription	Fetal Kidney	kidney
40	chr9:13206000-13214800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr9:13206000-13218800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr9:13206000-13219400	Weak transcription	Stomach Smooth Muscle	stomach
43	chr9:13206000-13223000	Weak transcription	Brain Hippocampus Middle	brain
44	chr9:13206000-13229200	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr9:13206000-13247000	Weak transcription	Brain Angular Gyrus	brain
46	chr9:13206200-13216200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
47	chr9:13206400-13214000	Weak transcription	A549	lung
48	chr9:13206400-13216000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
49	chr9:13206400-13216000	Weak transcription	Osteobl	bone
50	chr9:13206400-13216600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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