Plant Circular RNA Database

Detail information of Os02g0202250_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0202250_circ_g.3
					
						ID in PlantcircBase
						osa_circ_013715
					
						Alias
						Os02circ07752/Os_ciR1046
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 5711321-5714032  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os02g0202250						
					
						Parent gene annotation
						
							Hypothetical conserved gene. (Os02t0202250-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0202250_circ_g.2 Os02g0202250_circ_g.4 Os02g0202250_circ_g.5 Os02g0202250_circ_g.6 Os02g0202250_circ_g.7 Os02g0202250_circ_g.8 Os02g0202250_circ_g.9 Os02g0202250_circ_g.10 Os02g0202250_circ_igg.1 						
					
						Support reads
						6/15/2
					
						Tissues
						leaf and panicle/root/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
						Os02t0202250-01:5

General Information
CircRNA Name	Os02g0202250_circ_g.3
ID in PlantcircBase	osa_circ_013715
Alias	Os02circ07752/Os_ciR1046
Organism	Oryza sativa
Position	chr2: 5711321-5714032 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os02g0202250
Parent gene annotation	Hypothetical conserved gene. (Os02t0202250-01)
Parent gene strand	-
Alternative splicing	Os02g0202250_circ_g.2 Os02g0202250_circ_g.4 Os02g0202250_circ_g.5 Os02g0202250_circ_g.6 Os02g0202250_circ_g.7 Os02g0202250_circ_g.8 Os02g0202250_circ_g.9 Os02g0202250_circ_g.10 Os02g0202250_circ_igg.1
Support reads	6/15/2
Tissues	leaf and panicle/root/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	Os02t0202250-01:5

			
						 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  
						
							ATATATTAGCTCCAGATATACTCTCTCTTAAAATGATATTAAAAACAGGCTGATGCTGCTTGGC
GAAGTCTACTAACTCCCGGACAATTTTGTTCTTCACcttttacggatgttatcgttgggagaga
tacaatcttgtttcatgcataattttattatatcatcaacctccttcctagataactcatttaa
gtcacgaa

									
								

					

						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: 587
Transcript exons: 5711321-5711421,5711618-5711743,5713504-5713596,5713694-
5713816,5713889-5714032
CTTTTACGGATGTTATCGTTGGGAGAGATACAATCTTGTTTCATGCATAATTTTATTATATCAT
CAACCTCCTTCCTAGATAACTCATTTAAGTCACGAATCTTATTTAGCAACATATATTTTTCTTC
AGCTACTCTTTCCATAGCAACTGTTATTGAGTTTAGAAGATCTGAAATCAGTTGTAGTGTTGGT
TGCTGCTGACCTTCAGTAGTATCATCATACGAAATTTGAAACCGCATATCCTTCTTTGTAGCCA
GAACATATAGGTAGGAGATAAGGCTGAAGCACAAGGCAAACACTATCAATTCTGACTTCTGATT
CTCAATCATGTTTGATGATTGCATAAAGTTGAGAGACCCAATATCAAGACTGAAAAGAAATTGC
ATCATGGAAAATAGATCTTGGACAAAGCTGCATTCATCATTTTCCTCATATGCCCATACCTTGC
CAAGAATAGAGACCACCATATTAAGCCGCTCCAAGTTGAATATATTAGCTCCAGATATACTCTC
TCTTAAAATGATATTAAAAACAGGCTGATGCTGCTTGGCGAAGTCTACTAACTCCCGGACAATT
TTGTTCTTCAC
						
					

						Genomic sequence
						
							CTTTTACGGATGTTATCGTTGGGAGAGATACAATCTTGTTTCATGCATAATTTTATTATATCAT
CAACCTCCTTCCTAGATAACTCATTTAAGTCACGAATCTGTGCAGGATAAAACAGACAGTTAAT
GCATAGTTGCACTGAAATCATTATGTTCTGCTAAATGTTCAAATGAACTCCTACTGTGGATCAA
TAATTCAACCTCAAACTTTAGATTTAGCACATACTTTCAAAACTTGAAATTTCCCCAATAATAA
AGCATACATAATGAACAGGTAAACATATTCGCATCGGATACCTTATTTAGCAACATATATTTTT
CTTCAGCTACTCTTTCCATAGCAACTGTTATTGAGTTTAGAAGATCTGAAATCAGTTGTAGTGT
TGGTTGCTGCTGACCTTCAGTAGTATCATCATACGAAATCTGCAAGTTCAAGAAGCTGATTATG
CGAACTTGGATATACAAAAATGAAAATATCAACAAACAGTTAACAGAGAAATTGCATGCAGACA
TAATTTTATATGCAACCCCCACAACCACTTGACAATAAGAGAAATTGCAAAGGTAAATTGGGGG
CCATATCACTTGTTTTTGGGCATGAGATCAACAGATAAAAATCACGGAAAATTTTAATGTAGTA
TATTGAATATATTGCATGAAAATGTATTTGGCGAGACAAGGAAAATAACCAGCAAATTAAAAAT
TGGAAGTAAAATAAGAAATTAAAGTGTTCTTGTTCTGGTGTACTTTTAGTTTGAAACTGAAATT
CAATCAAGGTATATTCTATTAAATACTTAATTACTTTGGTGTAAATTGCATCATAGATTCAAAA
TCAAATCCAAGAAATTTGAGTATATGGCTAAAGTAAGGTTATCAGATCGTTTTGCTAGCCCCTG
TGGAACCACAGGTAGTCATGTATTGTGTGTATGTTAGCTGCTGATGTGGAAACAGTGGAAATAC
ACACAATCACGCTATATGTTTTTAATCTAGCTACAGAGAGCACTTGTTCAAACTATCAGATCTT
TACAGCAACAGCTATATGTTTTTAATCTAGCTACAGAGAGCACTTGTTCAAACTATCAGATCTT
TACAGCAACAAATCTCATAACATTTAATAAAAAAAATGAAGTTCTATAAAAGATTTGAACACAC
AAAATAAAATTCATATAACATCTATTTATGCACTCCCTCTGTCCCAAAATATAAGGGATTTTGC
CTATCTAGATTTGCAGTACTAGGATGTGTCTCATCCAACCTCCCTTATATTTTGGGATGGAGAG
AGTATCTTCTATCTACCATGCCCTGCCAACTGACTCATCATTGGCGGCTGCCGCTGGTAAATAA
TCATGAATAATTCATGCACATGACAGAGAGCAAACTACTCATCATTTTCCATGTTTATCTGGTG
CTCCATCCAAAGTTATTTGAACGATTACACCTAGCTATATGTTAGAAGTTAGCATTACATATCA
CGTGGTAGATTCTAGTATTAGTAGAGTAAATTGCACTTTGCAATGGGTAATGAACCTCATTTCA
CAATATTATGATCATGCAGGTTCTTAGCACATTACTATAAGAAGACTATTCAACATGCCTACAT
AGAATAGCAATTCTACTATCCAAAGTCCCAAGAGCACTGTCTGCAAGCCACAGGTTACCCAGTC
AATTGGTGGTCCCAACTTTTTTGTGGTTTTGAAGCAAATGATCAGCACAGATGAATGTATGCCA
TGGTTTCTACTCCTTACAATTTCAGTCATTCAAAGTTCTCACGTAAGTCAAGTTCAGAAGCTAA
TCATGTACACATAATGACATAAATGGTTTTTCATAATATAATTTGAGAACCATGGAAAATGATT
AATGCATATGTACCTACAGGTATTTAAAACATTCAATTCAATGCTTAAAGATGTAAAGCAAAAA
AAGCTGATTCAAATGCTTCTTCACAATTTTAAAATTTTGGAAATATCGATTTGAATCATATGTA
GTGTAGCTAACTAAGAATTCACTAACAATTCAAAGTTAACCAAAACAAAATTTTACATTATCGA
CTATTCAGAAAAGGTCTCCCCCTTTGTTATCATGGCTCATGGCCAAAGCAAGAGCCGGGAGATT
TGGAGCAGTGTTACCAGACTATGAAAATATTAATGAAAATTGAATAGGAGCTGCTAGAAAAAAT
ATCTTACTTGAAACCGCATATCCTTCTTTGTAGCCAGAACATATAGGTAGGAGATAAGGCTGAA
GCACAAGGCAAACACTATCAATTCTGACTTCTGATTCTGGTAAGAAACAACAGTTGCAAGCATT
AGAAAAGTCTCAGGGTGCATGGATATGCATAGTTGTAATGAAACTATGTTAAAGAGAACTAGAT
TGTACCTCAATCATGTTTGATGATTGCATAAAGTTGAGAGACCCAATATCAAGACTGAAAAGAA
ATTGCATCATGGAAAATAGATCTTGGACAAAGCTGCATTCATCATTTTCCTCATATGCCCATAC
CTATAAAGTGGTAGCACTTGTGAAGACACATTACGAAAAAGACCAGAATCAAATGAGAAGCAAA
TAGCAAACCTTGCCAAGAATAGAGACCACCATATTAAGCCGCTCCAAGTTGAATATATTAGCTC
CAGATATACTCTCTCTTAAAATGATATTAAAAACAGGCTGATGCTGCTTGGCGAAGTCTACTAA
CTCCCGGACAATTTTGTTCTTCAC
						
					

			
		

Sequences
Splice junction sequence	ATATATTAGCTCCAGATATACTCTCTCTTAAAATGATATTAAAAACAGGCTGATGCTGCTTGGC GAAGTCTACTAACTCCCGGACAATTTTGTTCTTCACcttttacggatgttatcgttgggagaga tacaatcttgtttcatgcataattttattatatcatcaacctccttcctagataactcatttaa gtcacgaa
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: 587 Transcript exons: 5711321-5711421,5711618-5711743,5713504-5713596,5713694- 5713816,5713889-5714032 CTTTTACGGATGTTATCGTTGGGAGAGATACAATCTTGTTTCATGCATAATTTTATTATATCAT CAACCTCCTTCCTAGATAACTCATTTAAGTCACGAATCTTATTTAGCAACATATATTTTTCTTC AGCTACTCTTTCCATAGCAACTGTTATTGAGTTTAGAAGATCTGAAATCAGTTGTAGTGTTGGT TGCTGCTGACCTTCAGTAGTATCATCATACGAAATTTGAAACCGCATATCCTTCTTTGTAGCCA GAACATATAGGTAGGAGATAAGGCTGAAGCACAAGGCAAACACTATCAATTCTGACTTCTGATT CTCAATCATGTTTGATGATTGCATAAAGTTGAGAGACCCAATATCAAGACTGAAAAGAAATTGC ATCATGGAAAATAGATCTTGGACAAAGCTGCATTCATCATTTTCCTCATATGCCCATACCTTGC CAAGAATAGAGACCACCATATTAAGCCGCTCCAAGTTGAATATATTAGCTCCAGATATACTCTC TCTTAAAATGATATTAAAAACAGGCTGATGCTGCTTGGCGAAGTCTACTAACTCCCGGACAATT TTGTTCTTCAC
Genomic sequence	CTTTTACGGATGTTATCGTTGGGAGAGATACAATCTTGTTTCATGCATAATTTTATTATATCAT CAACCTCCTTCCTAGATAACTCATTTAAGTCACGAATCTGTGCAGGATAAAACAGACAGTTAAT GCATAGTTGCACTGAAATCATTATGTTCTGCTAAATGTTCAAATGAACTCCTACTGTGGATCAA TAATTCAACCTCAAACTTTAGATTTAGCACATACTTTCAAAACTTGAAATTTCCCCAATAATAA AGCATACATAATGAACAGGTAAACATATTCGCATCGGATACCTTATTTAGCAACATATATTTTT CTTCAGCTACTCTTTCCATAGCAACTGTTATTGAGTTTAGAAGATCTGAAATCAGTTGTAGTGT TGGTTGCTGCTGACCTTCAGTAGTATCATCATACGAAATCTGCAAGTTCAAGAAGCTGATTATG CGAACTTGGATATACAAAAATGAAAATATCAACAAACAGTTAACAGAGAAATTGCATGCAGACA TAATTTTATATGCAACCCCCACAACCACTTGACAATAAGAGAAATTGCAAAGGTAAATTGGGGG CCATATCACTTGTTTTTGGGCATGAGATCAACAGATAAAAATCACGGAAAATTTTAATGTAGTA TATTGAATATATTGCATGAAAATGTATTTGGCGAGACAAGGAAAATAACCAGCAAATTAAAAAT TGGAAGTAAAATAAGAAATTAAAGTGTTCTTGTTCTGGTGTACTTTTAGTTTGAAACTGAAATT CAATCAAGGTATATTCTATTAAATACTTAATTACTTTGGTGTAAATTGCATCATAGATTCAAAA TCAAATCCAAGAAATTTGAGTATATGGCTAAAGTAAGGTTATCAGATCGTTTTGCTAGCCCCTG TGGAACCACAGGTAGTCATGTATTGTGTGTATGTTAGCTGCTGATGTGGAAACAGTGGAAATAC ACACAATCACGCTATATGTTTTTAATCTAGCTACAGAGAGCACTTGTTCAAACTATCAGATCTT TACAGCAACAGCTATATGTTTTTAATCTAGCTACAGAGAGCACTTGTTCAAACTATCAGATCTT TACAGCAACAAATCTCATAACATTTAATAAAAAAAATGAAGTTCTATAAAAGATTTGAACACAC AAAATAAAATTCATATAACATCTATTTATGCACTCCCTCTGTCCCAAAATATAAGGGATTTTGC CTATCTAGATTTGCAGTACTAGGATGTGTCTCATCCAACCTCCCTTATATTTTGGGATGGAGAG AGTATCTTCTATCTACCATGCCCTGCCAACTGACTCATCATTGGCGGCTGCCGCTGGTAAATAA TCATGAATAATTCATGCACATGACAGAGAGCAAACTACTCATCATTTTCCATGTTTATCTGGTG CTCCATCCAAAGTTATTTGAACGATTACACCTAGCTATATGTTAGAAGTTAGCATTACATATCA CGTGGTAGATTCTAGTATTAGTAGAGTAAATTGCACTTTGCAATGGGTAATGAACCTCATTTCA CAATATTATGATCATGCAGGTTCTTAGCACATTACTATAAGAAGACTATTCAACATGCCTACAT AGAATAGCAATTCTACTATCCAAAGTCCCAAGAGCACTGTCTGCAAGCCACAGGTTACCCAGTC AATTGGTGGTCCCAACTTTTTTGTGGTTTTGAAGCAAATGATCAGCACAGATGAATGTATGCCA TGGTTTCTACTCCTTACAATTTCAGTCATTCAAAGTTCTCACGTAAGTCAAGTTCAGAAGCTAA TCATGTACACATAATGACATAAATGGTTTTTCATAATATAATTTGAGAACCATGGAAAATGATT AATGCATATGTACCTACAGGTATTTAAAACATTCAATTCAATGCTTAAAGATGTAAAGCAAAAA AAGCTGATTCAAATGCTTCTTCACAATTTTAAAATTTTGGAAATATCGATTTGAATCATATGTA GTGTAGCTAACTAAGAATTCACTAACAATTCAAAGTTAACCAAAACAAAATTTTACATTATCGA CTATTCAGAAAAGGTCTCCCCCTTTGTTATCATGGCTCATGGCCAAAGCAAGAGCCGGGAGATT TGGAGCAGTGTTACCAGACTATGAAAATATTAATGAAAATTGAATAGGAGCTGCTAGAAAAAAT ATCTTACTTGAAACCGCATATCCTTCTTTGTAGCCAGAACATATAGGTAGGAGATAAGGCTGAA GCACAAGGCAAACACTATCAATTCTGACTTCTGATTCTGGTAAGAAACAACAGTTGCAAGCATT AGAAAAGTCTCAGGGTGCATGGATATGCATAGTTGTAATGAAACTATGTTAAAGAGAACTAGAT TGTACCTCAATCATGTTTGATGATTGCATAAAGTTGAGAGACCCAATATCAAGACTGAAAAGAA ATTGCATCATGGAAAATAGATCTTGGACAAAGCTGCATTCATCATTTTCCTCATATGCCCATAC CTATAAAGTGGTAGCACTTGTGAAGACACATTACGAAAAAGACCAGAATCAAATGAGAAGCAAA TAGCAAACCTTGCCAAGAATAGAGACCACCATATTAAGCCGCTCCAAGTTGAATATATTAGCTC CAGATATACTCTCTCTTAAAATGATATTAAAAACAGGCTGATGCTGCTTGGCGAAGTCTACTAA CTCCCGGACAATTTTGTTCTTCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003732* osi_circ_012656 						
					
						PMCS
						0.343289043

Conservation Information
Conserved circRNAs	osi_circ_003732* osi_circ_012656
PMCS	0.343289043

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5713914-5714031(-)
						
						Potential amino acid sequence
						
							MVVSILGKVWAYEENDECSFVQDLFSMMQFLFSLDIGSLNFMQSSNMIENQKSELIVFALCFSL
ISYLYVLATKKDMRFQISYDDTTEGQQQPTLQLISDLLNSITVAMERVAEEKYMLLNKIRDLNE
LSRKEVDDIIKLCMKQDCISPNDNIRKR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5713914-5714031(-)
Potential amino acid sequence	MVVSILGKVWAYEENDECSFVQDLFSMMQFLFSLDIGSLNFMQSSNMIENQKSELIVFALCFSL ISYLYVLATKKDMRFQISYDDTTEGQQQPTLQLISDLLNSITVAMERVAEEKYMLLNKIRDLNE LSRKEVDDIIKLCMKQDCISPNDNIRKR*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os02g0202250_circ_g.3

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