Plant Circular RNA Database

Detail information of Os03g0570200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os03g0570200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_020502
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 20680670-20682478  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0570200						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os03t0570200-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0570200_circ_g.1 Os03g0570200_circ_igg.1 						
					
						Support reads
						2
					
						Tissues
						shoot, root
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							CT-AC							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Os03t0570200-00:4

General Information
CircRNA Name	Os03g0570200_circ_g.2
ID in PlantcircBase	osa_circ_020502
Alias	NA
Organism	Oryza sativa
Position	chr3: 20680670-20682478 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0570200
Parent gene annotation	Conserved hypothetical protein. (Os03t0570200-00)
Parent gene strand	-
Alternative splicing	Os03g0570200_circ_g.1 Os03g0570200_circ_igg.1
Support reads	2
Tissues	shoot, root
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	CT-AC The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Os03t0570200-00:4

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							TCCAGTGCATTCTAAGAGAAATCCAGCATACCTCGCCAAAAGATGAGAATCTCTCTGATTGTAT
CTTGTAATTTAGCTTCAGCCTCTTCTTCTGTAACTTatgtgttgactgaacattggcttctgga
attgtagtagcacagaactaaggccctctgtgactgattttacattaacaggcaactgctttat
gttcctga

									
								

					

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							Transcript length: 472
Transcript exons: 20680670-20680773,20680854-20681012,20681226-20681365,20
682410-20682478
ATGTGTTGACTGAACATTGGCTTCTGGAATTGTAGTAGCACAGAACTAAGGCCCTCTGTGACTG
ATTTTACATTAACAGGCAACTGCTTTATGTTCCTGACTTTCTCTTGTGTCACAAAGTACAACTG
AAACAACAACTTATCATAGTAATGGTGAGCCCTATGAGAAACAGAAGGAGCAATTACATGCCTC
ATAGAGCCCCATAACACGGAACCAAGGTGTGCGAGGAATGAATCACGAGCCACAGTGTAACTAT
GATGTTCCTCTGGAACATCTTTAAATAAGTTCCACTTTTCCATCCTATTCAATGCATCAAGAGC
TTTCTTCTTATTAATATCATCCGAATCTCCAGTATTGTAACCCTCCAGTTCACTTTTCAGATCA
TGCCTTCTCTCATCAAGTTCTCGCCAAAAGATGAGAATCTCTCTGATTGTATCTTGTAATTTAG
CTTCAGCCTCTTCTTCTGTAACTT
						
					

						Genomic sequence
						
							ATGTGTTGACTGAACATTGGCTTCTGGAATTGTAGTAGCACAGAACTAAGGCCCTCTGTGACTG
ATTTTACATTAACAGGCAACTGCTTTATGTTCCTGACTTTCTGCATAACGTTAAAAAATGTGAG
AGATAACTGTATTGAATTAGAATATAAGCAACATAAAAGTTGCCCCTTGAACTTACCTCTTGTG
TCACAAAGTACAACTGAAACAACAACTTATCATAGTAATGGTGAGCCCTATGAGAAACAGAAGG
AGCAATTACATGCCTCATAGAGCCCCATAACACGGAACCAAGGTGTGCGAGGAATGAATCACGA
GCCACAGTGTAACTATGATGTTCCTGGCACATGTGATTGAACTTCGTCATTAGAAGTACGATTA
AAATTCTGTTATCTTAACAATTAAATATTAGACTTCAGTAATTGCATGCACAATTGCACAGTGA
ATATGTGTTTTTAGTTGTCCTGCTTATTAGGGAAATGTTTTGCTATAGAAACTGATTTTACAAT
GTTCTTTTTATGTTGTGTCGTAGAAGCTGTTGGACAAAGCTAACCTCTGGAACATCTTTAAATA
AGTTCCACTTTTCCATCCTATTCAATGCATCAAGAGCTTTCTTCTTATTAATATCATCCGAATC
TCCAGTATTGTAACCCTCCAGTTCACTTTTCAGATCATGCCTTCTCTCATCAAGTTCTACATTT
GAAGAAAAATAAAGGTTCTAGTTAAAAGGGAAGGTCTTTCTGATAAACCCAATTAAATTTTATG
AACAGTACAAGGCTGCCCAGCAACTACCATAAACTGAAGATCTCAGCAAAGAAAAGAACACTGA
ATAGCTTATTGGCATCAACAACTTGTGAGAAAACATGGCCAAAGGACAAAACAATAAAAACAAT
GTTGTAATGATTGGAGAGAAACATAAGGAATGTCTTTCATGTATGGTACAAACAGTAGCTCAAG
TGCATATAACTCAAAAATATCAACTACAAGTAAAGTCTACCACTATGTAGTAATGTGAATAATT
AAAAGGAACACCCAAATTTATGGCCATGAAAAGTACCTTTGCAAAGGGCAAGCTGTACCCTTCT
TCCAACACAATGCTTGAAGGCAAAAAGTTCGTATACATCAATCTCTGCCAATAGGATATCTACT
GCATGGTAATTCTGAACCCCCAAAATGGCATCAGATAAACTAAGTCAAGAGCTAGTTCAAGATG
TCATAACAATATACAGAACCAAAAGGGAAAGTTACACAACAAACAAGATTGCAAGAAGAAACTT
GTTGTCTATAGTGTTAACATCAGTTGGGACTTGGGATGCCACTATTTTGTGGAATATCGTTGCC
AGTGATGTGCTAGTTGTAATGATTAATGGGACCACTTGTATTTTGAATCGTCAATAGGTCTAGC
AAAAAAAGGTATTTAGTAGAATACAGAGCAAAATATTTCCAAGCTGCCAAAATATTTCTGCATC
CTCTCTTCTCTACAGTTCTGATCTCAAAGCTCTCACTCTACTGATCTCAATTGAACTTTACAAC
CACCCTCCAAAATAAGAGCTAGGGGCAAGAGAAAGAAAAGGAATTGGTATAAGCAACATGTGCA
CCTTGAAAATCTACGGTACCTAACATGGAGATTACAAGAATAAGTACCATCATTTAGCCTATGA
GATTGAGTAGTAAAAAATAATTTATAAACGAATAGATTGTTAATATCCAGTGCATTCTAAGAGA
AATCCAGCATACCTCGCCAAAAGATGAGAATCTCTCTGATTGTATCTTGTAATTTAGCTTCAGC
CTCTTCTTCTGTAACTT
						
					

			
		

Sequences
Splice junction sequence	TCCAGTGCATTCTAAGAGAAATCCAGCATACCTCGCCAAAAGATGAGAATCTCTCTGATTGTAT CTTGTAATTTAGCTTCAGCCTCTTCTTCTGTAACTTatgtgttgactgaacattggcttctgga attgtagtagcacagaactaaggccctctgtgactgattttacattaacaggcaactgctttat gttcctga
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 472 Transcript exons: 20680670-20680773,20680854-20681012,20681226-20681365,20 682410-20682478 ATGTGTTGACTGAACATTGGCTTCTGGAATTGTAGTAGCACAGAACTAAGGCCCTCTGTGACTG ATTTTACATTAACAGGCAACTGCTTTATGTTCCTGACTTTCTCTTGTGTCACAAAGTACAACTG AAACAACAACTTATCATAGTAATGGTGAGCCCTATGAGAAACAGAAGGAGCAATTACATGCCTC ATAGAGCCCCATAACACGGAACCAAGGTGTGCGAGGAATGAATCACGAGCCACAGTGTAACTAT GATGTTCCTCTGGAACATCTTTAAATAAGTTCCACTTTTCCATCCTATTCAATGCATCAAGAGC TTTCTTCTTATTAATATCATCCGAATCTCCAGTATTGTAACCCTCCAGTTCACTTTTCAGATCA TGCCTTCTCTCATCAAGTTCTCGCCAAAAGATGAGAATCTCTCTGATTGTATCTTGTAATTTAG CTTCAGCCTCTTCTTCTGTAACTT
Genomic sequence	ATGTGTTGACTGAACATTGGCTTCTGGAATTGTAGTAGCACAGAACTAAGGCCCTCTGTGACTG ATTTTACATTAACAGGCAACTGCTTTATGTTCCTGACTTTCTGCATAACGTTAAAAAATGTGAG AGATAACTGTATTGAATTAGAATATAAGCAACATAAAAGTTGCCCCTTGAACTTACCTCTTGTG TCACAAAGTACAACTGAAACAACAACTTATCATAGTAATGGTGAGCCCTATGAGAAACAGAAGG AGCAATTACATGCCTCATAGAGCCCCATAACACGGAACCAAGGTGTGCGAGGAATGAATCACGA GCCACAGTGTAACTATGATGTTCCTGGCACATGTGATTGAACTTCGTCATTAGAAGTACGATTA AAATTCTGTTATCTTAACAATTAAATATTAGACTTCAGTAATTGCATGCACAATTGCACAGTGA ATATGTGTTTTTAGTTGTCCTGCTTATTAGGGAAATGTTTTGCTATAGAAACTGATTTTACAAT GTTCTTTTTATGTTGTGTCGTAGAAGCTGTTGGACAAAGCTAACCTCTGGAACATCTTTAAATA AGTTCCACTTTTCCATCCTATTCAATGCATCAAGAGCTTTCTTCTTATTAATATCATCCGAATC TCCAGTATTGTAACCCTCCAGTTCACTTTTCAGATCATGCCTTCTCTCATCAAGTTCTACATTT GAAGAAAAATAAAGGTTCTAGTTAAAAGGGAAGGTCTTTCTGATAAACCCAATTAAATTTTATG AACAGTACAAGGCTGCCCAGCAACTACCATAAACTGAAGATCTCAGCAAAGAAAAGAACACTGA ATAGCTTATTGGCATCAACAACTTGTGAGAAAACATGGCCAAAGGACAAAACAATAAAAACAAT GTTGTAATGATTGGAGAGAAACATAAGGAATGTCTTTCATGTATGGTACAAACAGTAGCTCAAG TGCATATAACTCAAAAATATCAACTACAAGTAAAGTCTACCACTATGTAGTAATGTGAATAATT AAAAGGAACACCCAAATTTATGGCCATGAAAAGTACCTTTGCAAAGGGCAAGCTGTACCCTTCT TCCAACACAATGCTTGAAGGCAAAAAGTTCGTATACATCAATCTCTGCCAATAGGATATCTACT GCATGGTAATTCTGAACCCCCAAAATGGCATCAGATAAACTAAGTCAAGAGCTAGTTCAAGATG TCATAACAATATACAGAACCAAAAGGGAAAGTTACACAACAAACAAGATTGCAAGAAGAAACTT GTTGTCTATAGTGTTAACATCAGTTGGGACTTGGGATGCCACTATTTTGTGGAATATCGTTGCC AGTGATGTGCTAGTTGTAATGATTAATGGGACCACTTGTATTTTGAATCGTCAATAGGTCTAGC AAAAAAAGGTATTTAGTAGAATACAGAGCAAAATATTTCCAAGCTGCCAAAATATTTCTGCATC CTCTCTTCTCTACAGTTCTGATCTCAAAGCTCTCACTCTACTGATCTCAATTGAACTTTACAAC CACCCTCCAAAATAAGAGCTAGGGGCAAGAGAAAGAAAAGGAATTGGTATAAGCAACATGTGCA CCTTGAAAATCTACGGTACCTAACATGGAGATTACAAGAATAAGTACCATCATTTAGCCTATGA GATTGAGTAGTAAAAAATAATTTATAAACGAATAGATTGTTAATATCCAGTGCATTCTAAGAGA AATCCAGCATACCTCGCCAAAAGATGAGAATCTCTCTGATTGTATCTTGTAATTTAGCTTCAGC CTCTTCTTCTGTAACTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_013216 						
					
						PMCS
						0.329991455

Conservation Information
Conserved circRNAs	osi_circ_013216
PMCS	0.329991455

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20682422-20680701(+)
20681263-20682459(-)
						
						Potential amino acid sequence
						
							MRISLIVSCNLASASSSVTYVLTEHWLLEL*(+)
MEKWNLFKDVPEEHHSYTVARDSFLAHLGSVLWGSMRHVIAPSVSHRAHHYYDKLLFQLYFVTQ
EKVRNIKQLPVNVKSVTEGLSSVLLQFQKPMFSQHISYRRRG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20682422-20680701(+) 20681263-20682459(-)
Potential amino acid sequence	MRISLIVSCNLASASSSVTYVLTEHWLLEL(+) MEKWNLFKDVPEEHHSYTVARDSFLAHLGSVLWGSMRHVIAPSVSHRAHHYYDKLLFQLYFVTQ EKVRNIKQLPVNVKSVTEGLSSVLLQFQKPMFSQHISYRRRG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0570200_circ_g.2

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