Plant Circular RNA Database

Detail information of Os03g0799100_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0799100_circ_g.3
					
						ID in PlantcircBase
						osa_circ_022297
					
						Alias
						Os_ciR1106
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 33311914-33314014  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0799100						
					
						Parent gene annotation
						
							Similar to WAVE-DAMPENED2. (Os03t0799100-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0799100_circ_g.1 Os03g0799100_circ_g.2 Os03g0799100_circ_g.4 Os03g0799100_circ_g.5 						
					
						Support reads
						14/3
					
						Tissues
						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  
						
							GT-AG							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
						Os03t0799100-01:5

General Information
CircRNA Name	Os03g0799100_circ_g.3
ID in PlantcircBase	osa_circ_022297
Alias	Os_ciR1106
Organism	Oryza sativa
Position	chr3: 33311914-33314014 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0799100
Parent gene annotation	Similar to WAVE-DAMPENED2. (Os03t0799100-01)
Parent gene strand	+
Alternative splicing	Os03g0799100_circ_g.1 Os03g0799100_circ_g.2 Os03g0799100_circ_g.4 Os03g0799100_circ_g.5
Support reads	14/3
Tissues	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	GT-AG 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	Os03t0799100-01:5

			
						 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  
						
							AACAGCCTTAAAACAACTAAGAAAGTCCTTAGTCATCAGGGCAAAGCCCATGCCAAGCTTCTAC
CAAGAAGGACCTCCTCCAAAGGCTGAACTTAAGAAGtccaatggtgaaagaggctgtggaaatg
tccacagacgaagaatcagacggtgtcgttatatgtccaccagatggcaacaatgatgatcgag
aggaagcc

									
								

					

						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: 154
Transcript exons: 33311914-33311962,33313910-33314014
TCCAATGGTGAAAGAGGCTGTGGAAATGTCCACAGACGAAGAATCAGACCAAGAAACAGCCTTA
AAACAACTAAGAAAGTCCTTAGTCATCAGGGCAAAGCCCATGCCAAGCTTCTACCAAGAAGGAC
CTCCTCCAAAGGCTGAACTTAAGAAG
Transcript length: 165
Transcript exons: 33311914-33312011,33313948-33314014
TCCAATGGTGAAAGAGGCTGTGGAAATGTCCACAGACGAAGAATCAGACGGTGTCGTTATATGT
CCACCAGATGGCAACAATGATGATCGAGAGGAAGCATCAGGGCAAAGCCCATGCCAAGCTTCTA
CCAAGAAGGACCTCCTCCAAAGGCTGAACTTAAGAAG
Transcript length: 790
Transcript exons: 33311914-33312340,33312771-33312856,33313200-33313293,33
313421-33313492,33313904-33314014
TCCAATGGTGAAAGAGGCTGTGGAAATGTCCACAGACGAAGAATCAGACGGTGTCGTTATATGT
CCACCAGATGGCAACAATGATGATCGAGAGGAAGCCATTAGTAGTAATAATCATGATAATTGCC
AGGAAGGCGAAGTCACTTGTGTTAAAGACCCGGTTATAGACAGTGAAACCCAGGAAGACAAGTG
TGTGAACCAAGATTCAGTTAAGTTGATAGATCAAGAGAAGTCTGGTCCACCCAAATCACCATCT
AAACCTGGCATTTCTGGGTCAGATAGGTCCAAACGTACTGTTCCTCAACCATTTGCCCTTTCTT
CTCAAAGAAAATCTCATGGAGGAAATAGTAAGGCGGCTCATCCATCTGGCAATGGAGAAAATTC
TGGTGATAAGAGCAACTCCTCTCCAGCAAGTTTGACAAAGAAGACTGCACCGATTACTCCCAAG
AAGATTGCACAGCCTGATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTT
CAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCCCCTTCATTTGT
ATGTGCTGATCGTGCTGACAAGAGAAAGGAGTTCTACACAAAATTAGAAGAGAAACACAAGGCC
TTGGAAGCTGAGAAGAATGAGGCCGAGGCCCGGAAAAAGGAAGAGCAAGAAACAGCCTTAAAAC
AACTAAGAAAGTCCTTAGTCATCAGGGCAAAGCCCATGCCAAGCTTCTACCAAGAAGGACCTCC
TCCAAAGGCTGAACTTAAGAAG
						
					

						Genomic sequence
						
							TCCAATGGTGAAAGAGGCTGTGGAAATGTCCACAGACGAAGAATCAGACGGTGTCGTTATATGT
CCACCAGATGGCAACAATGATGATCGAGAGGAAGCCATTAGTAGTAATAATCATGATAATTGCC
AGGAAGGCGAAGTCACTTGTGTTAAAGACCCGGTTATAGACAGTGAAACCCAGGAAGACAAGTG
TGTGAACCAAGATTCAGTTAAGTTGATAGATCAAGAGAAGTCTGGTCCACCCAAATCACCATCT
AAACCTGGCATTTCTGGGTCAGATAGGTCCAAACGTACTGTTCCTCAACCATTTGCCCTTTCTT
CTCAAAGAAAATCTCATGGAGGAAATAGTAAGGCGGCTCATCCATCTGGCAATGGAGAAAATTC
TGGTGATAAGAGCAACTCCTCTCCAGCAAGTTTGACAAAGAAGGTATGACTATTGTCATATATA
CAGTATTATCCATATATCATGATGCTACCAATATCATTTGACTCTTGTTCTGGTTTTTATTATT
GCTTACCATTTTATGTTTCTTTTTATTTTTTGTATTCTCACCCTAAATCATATCATGTATCTTA
GTACTGCCTAGGTTGTCTCACTGAGTATATCATGTTCAAGGCTCTAAGCTGCCTTTAGATATCA
AATTTATTAGATTGATGAGCCCCATTATATGTTGAAGGTTTGTTTTGCAAGTAAACATCGTAAG
CTTGTTCTGTGAAGTGTGCCTAAACCTATTTGGTGGCATACCTGTCTTCTTAGTACCAGACTAC
CAGTTGATGTATCTATTTGCCTGAAAATGTTATGTTGTAAGCCTACCAGAGATAGCTGGTTCTG
TTGACACAACTGATAATTATTGCAGACTGCACCGATTACTCCCAAGAAGATTGCACAGCCTGAT
CATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCGTATCCTTCTTCTATCT
AATAAAAATACACCGTGTTTCTATTTTTTTTGGGTTGTACTGTGATGATGTTTTCTGCCTTTAT
TTCTTGTGAAGATGTTTCTAAAATATTGCATGAGAAAATTCATTTCACATAATGATCAGATATT
TGGTTTTCAATTCTAGAGTGATGACTGGAAAAAAAATCGATGTTAAAAATGATTAGTTCTGTTA
ACCTTAATTGGTTTTCAGTTGATTTGATATTATTCTTTGTAGTGAAAACATTGCCAAGGTGATG
TTCTTTCTACTCATTGTTTGAAACTATTGTATACAATTTGGCCCCTTTTTTTTTCCTGAGCTGT
GTAAAGAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCCCCTTCA
TTTGTATGTGCTGATCGTGCTGACAAGAGAAAGGAGGTGAATATGTAGTTTGATTGCATTATTT
CAAGATGGCCTCTTAAATGTGTTTGTTATTTACAAATAGCGATGGCATTTTCTTTTCTCTAAAA
ATAGCTGGTGCTCATAGTGATTGCTGTTTCTTCAGTTCTACACAAAATTAGAAGAGAAACACAA
GGCCTTGGAAGCTGAGAAGAATGAGGCCGAGGCCCGGAAAAAGGTATGAATTTCCTTGTGGGGG
AGAATTGAATTGTAGGATACTTAAGTTTTGTTTGGTCTGTGCTATTTTACTGGGTCTGTTAAAC
ATGGTTTTAATTCGGTAATAGCTAAATTTACTCTACGCTTCTGTGATTCTCCTTAATTAATGCT
TATGAAATATTTGTCTCAACATTCTTCGCCCAGATTCAGCCATTATCTCTTTTTTTTTCATATA
ATATATTTTGGTTCTTAGATATATCATGGAGAGAGGAGTAATACAACGCCTAAGATTTATGTGC
TAGGCAGAACATTTGAATATGATACTTTTTGTTGCCCAAATCTTTCTATAAGATGTTCATGTTG
ATGGACAACTCCTGGCAACTATTTATTTACCAATTTACCTCAACATTCATGTTCATTTTTTTTT
GTGTAGGAAGAGCAAGAAACAGCCTTAAAACAACTAAGAAAGTCCTTAGTCATCAGGGCAAAGC
CCATGCCAAGCTTCTACCAAGAAGGACCTCCTCCAAAGGCTGAACTTAAGAAG
						
					

			
		

Sequences
Splice junction sequence	AACAGCCTTAAAACAACTAAGAAAGTCCTTAGTCATCAGGGCAAAGCCCATGCCAAGCTTCTAC CAAGAAGGACCTCCTCCAAAGGCTGAACTTAAGAAGtccaatggtgaaagaggctgtggaaatg tccacagacgaagaatcagacggtgtcgttatatgtccaccagatggcaacaatgatgatcgag aggaagcc
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: 154 Transcript exons: 33311914-33311962,33313910-33314014 TCCAATGGTGAAAGAGGCTGTGGAAATGTCCACAGACGAAGAATCAGACCAAGAAACAGCCTTA AAACAACTAAGAAAGTCCTTAGTCATCAGGGCAAAGCCCATGCCAAGCTTCTACCAAGAAGGAC CTCCTCCAAAGGCTGAACTTAAGAAG Transcript length: 165 Transcript exons: 33311914-33312011,33313948-33314014 TCCAATGGTGAAAGAGGCTGTGGAAATGTCCACAGACGAAGAATCAGACGGTGTCGTTATATGT CCACCAGATGGCAACAATGATGATCGAGAGGAAGCATCAGGGCAAAGCCCATGCCAAGCTTCTA CCAAGAAGGACCTCCTCCAAAGGCTGAACTTAAGAAG Transcript length: 790 Transcript exons: 33311914-33312340,33312771-33312856,33313200-33313293,33 313421-33313492,33313904-33314014 TCCAATGGTGAAAGAGGCTGTGGAAATGTCCACAGACGAAGAATCAGACGGTGTCGTTATATGT CCACCAGATGGCAACAATGATGATCGAGAGGAAGCCATTAGTAGTAATAATCATGATAATTGCC AGGAAGGCGAAGTCACTTGTGTTAAAGACCCGGTTATAGACAGTGAAACCCAGGAAGACAAGTG TGTGAACCAAGATTCAGTTAAGTTGATAGATCAAGAGAAGTCTGGTCCACCCAAATCACCATCT AAACCTGGCATTTCTGGGTCAGATAGGTCCAAACGTACTGTTCCTCAACCATTTGCCCTTTCTT CTCAAAGAAAATCTCATGGAGGAAATAGTAAGGCGGCTCATCCATCTGGCAATGGAGAAAATTC TGGTGATAAGAGCAACTCCTCTCCAGCAAGTTTGACAAAGAAGACTGCACCGATTACTCCCAAG AAGATTGCACAGCCTGATCATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTT CAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCCCCTTCATTTGT ATGTGCTGATCGTGCTGACAAGAGAAAGGAGTTCTACACAAAATTAGAAGAGAAACACAAGGCC TTGGAAGCTGAGAAGAATGAGGCCGAGGCCCGGAAAAAGGAAGAGCAAGAAACAGCCTTAAAAC AACTAAGAAAGTCCTTAGTCATCAGGGCAAAGCCCATGCCAAGCTTCTACCAAGAAGGACCTCC TCCAAAGGCTGAACTTAAGAAG
Genomic sequence	TCCAATGGTGAAAGAGGCTGTGGAAATGTCCACAGACGAAGAATCAGACGGTGTCGTTATATGT CCACCAGATGGCAACAATGATGATCGAGAGGAAGCCATTAGTAGTAATAATCATGATAATTGCC AGGAAGGCGAAGTCACTTGTGTTAAAGACCCGGTTATAGACAGTGAAACCCAGGAAGACAAGTG TGTGAACCAAGATTCAGTTAAGTTGATAGATCAAGAGAAGTCTGGTCCACCCAAATCACCATCT AAACCTGGCATTTCTGGGTCAGATAGGTCCAAACGTACTGTTCCTCAACCATTTGCCCTTTCTT CTCAAAGAAAATCTCATGGAGGAAATAGTAAGGCGGCTCATCCATCTGGCAATGGAGAAAATTC TGGTGATAAGAGCAACTCCTCTCCAGCAAGTTTGACAAAGAAGGTATGACTATTGTCATATATA CAGTATTATCCATATATCATGATGCTACCAATATCATTTGACTCTTGTTCTGGTTTTTATTATT GCTTACCATTTTATGTTTCTTTTTATTTTTTGTATTCTCACCCTAAATCATATCATGTATCTTA GTACTGCCTAGGTTGTCTCACTGAGTATATCATGTTCAAGGCTCTAAGCTGCCTTTAGATATCA AATTTATTAGATTGATGAGCCCCATTATATGTTGAAGGTTTGTTTTGCAAGTAAACATCGTAAG CTTGTTCTGTGAAGTGTGCCTAAACCTATTTGGTGGCATACCTGTCTTCTTAGTACCAGACTAC CAGTTGATGTATCTATTTGCCTGAAAATGTTATGTTGTAAGCCTACCAGAGATAGCTGGTTCTG TTGACACAACTGATAATTATTGCAGACTGCACCGATTACTCCCAAGAAGATTGCACAGCCTGAT CATATGCTTCACCATCAAGAGGAGGACTCCTGCTCTGTGACTTCTTCGTATCCTTCTTCTATCT AATAAAAATACACCGTGTTTCTATTTTTTTTGGGTTGTACTGTGATGATGTTTTCTGCCTTTAT TTCTTGTGAAGATGTTTCTAAAATATTGCATGAGAAAATTCATTTCACATAATGATCAGATATT TGGTTTTCAATTCTAGAGTGATGACTGGAAAAAAAATCGATGTTAAAAATGATTAGTTCTGTTA ACCTTAATTGGTTTTCAGTTGATTTGATATTATTCTTTGTAGTGAAAACATTGCCAAGGTGATG TTCTTTCTACTCATTGTTTGAAACTATTGTATACAATTTGGCCCCTTTTTTTTTCCTGAGCTGT GTAAAGAACCACAACTTCAACAAGAGCTGGCAAAACCAAGGCAACTGTTGGTGTTGCCCCTTCA TTTGTATGTGCTGATCGTGCTGACAAGAGAAAGGAGGTGAATATGTAGTTTGATTGCATTATTT CAAGATGGCCTCTTAAATGTGTTTGTTATTTACAAATAGCGATGGCATTTTCTTTTCTCTAAAA ATAGCTGGTGCTCATAGTGATTGCTGTTTCTTCAGTTCTACACAAAATTAGAAGAGAAACACAA GGCCTTGGAAGCTGAGAAGAATGAGGCCGAGGCCCGGAAAAAGGTATGAATTTCCTTGTGGGGG AGAATTGAATTGTAGGATACTTAAGTTTTGTTTGGTCTGTGCTATTTTACTGGGTCTGTTAAAC ATGGTTTTAATTCGGTAATAGCTAAATTTACTCTACGCTTCTGTGATTCTCCTTAATTAATGCT TATGAAATATTTGTCTCAACATTCTTCGCCCAGATTCAGCCATTATCTCTTTTTTTTTCATATA ATATATTTTGGTTCTTAGATATATCATGGAGAGAGGAGTAATACAACGCCTAAGATTTATGTGC TAGGCAGAACATTTGAATATGATACTTTTTGTTGCCCAAATCTTTCTATAAGATGTTCATGTTG ATGGACAACTCCTGGCAACTATTTATTTACCAATTTACCTCAACATTCATGTTCATTTTTTTTT GTGTAGGAAGAGCAAGAAACAGCCTTAAAACAACTAAGAAAGTCCTTAGTCATCAGGGCAAAGC CCATGCCAAGCTTCTACCAAGAAGGACCTCCTCCAAAGGCTGAACTTAAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_013771 						
					
						PMCS
						0.372482536

Conservation Information
Conserved circRNAs	osi_circ_013771
PMCS	0.372482536

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							33311919-33311994(+)
33312017-33313945(-)
						
						Potential amino acid sequence
						
							MVKEAVEMSTDEESDGVVICPPDGNNDDREEAISSNNHDNCQEGEVTCVKDPVIDSETQEDKCV
NQDSVKLIDQEKSGPPKSPSKPGISGSDRSKRTVPQPFALSSQRKSHGGNSKAAHPSGNGENSG
DKSNSSPASLTKKTAPITPKKIAQPDHMLHHQEEDSCSVTSSTTTSTRAGKTKATVGVAPSFVC
ADRADKRKEFYTKLEEKHKALEAEKNEAEARKKEEQETALKQLRKSLVIRAKPMPSFYQEGPPP
KAELKKSNGERGCGNVHRRRIRRCRYMSTRWQQ*(+)
MASSRSSLLPSGGHITTPSDSSSVDISTASFTIGLLKFSLWRRSFLVEAWHGLCPDD*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	33311919-33311994(+) 33312017-33313945(-)
Potential amino acid sequence	MVKEAVEMSTDEESDGVVICPPDGNNDDREEAISSNNHDNCQEGEVTCVKDPVIDSETQEDKCV NQDSVKLIDQEKSGPPKSPSKPGISGSDRSKRTVPQPFALSSQRKSHGGNSKAAHPSGNGENSG DKSNSSPASLTKKTAPITPKKIAQPDHMLHHQEEDSCSVTSSTTTSTRAGKTKATVGVAPSFVC ADRADKRKEFYTKLEEKHKALEAEKNEAEARKKEEQETALKQLRKSLVIRAKPMPSFYQEGPPP KAELKKSNGERGCGNVHRRRIRRCRYMSTRWQQ(+) MASSRSSLLPSGGHITTPSDSSSVDISTASFTIGLLKFSLWRRSFLVEAWHGLCPDD(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os03g0799100_circ_g.3

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