Plant Circular RNA Database

Detail information of Os03g0650000_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os03g0650000_circ_g.2
					
						ID in PlantcircBase
						osa_circ_020825
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 25202750-25205974  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							Os03g0650000						
					
						Parent gene annotation
						
							Similar to Yabby9 protein. (Os03t0650000-01);Similar to Yabby9 p
rotein. (Os03t0650000-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						20
					
						Tissues
						shoot, seed
					
						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
						Os03t0650000-01:3
Os03t0650000-02:3

General Information
CircRNA Name	Os03g0650000_circ_g.2
ID in PlantcircBase	osa_circ_020825
Alias	NA
Organism	Oryza sativa
Position	chr3: 25202750-25205974 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	Os03g0650000
Parent gene annotation	Similar to Yabby9 protein. (Os03t0650000-01);Similar to Yabby9 p rotein. (Os03t0650000-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	20
Tissues	shoot, seed
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	Os03t0650000-01:3 Os03t0650000-02:3

			
						 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  
						
							ACACCCACTAATATATCACTACAGGGAAGAGATCCGGAGGATAAAAGCAAACAATCCTGACATA
AGCCACAGAGAAGCCTTCAGTACTGCAGCAAAGAATgacaatttgaagatgcacaatatgagct
tccgcgaaaactactctgaatatggctcatcttccagatatggccgagtgccaatgatgttctc
aaaaaatg

									
								

					

						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: 252
Transcript exons: 25202750-25202876,25205693-25205741,25205899-25205974
GACAATTTGAAGATGCACAATATGAGCTTCCGCGAAAACTACTCTGAATATGGCTCATCTTCCA
GATATGGCCGAGTGCCAATGATGTTCTCAAAAAATGACACAGAGCATATGCTGCACGTGCGACC
TCCAGAGAAGAGGCAGCGGGTTCCTTCAGCTTATAACAGATTTATCAAGGAAGAGATCCGGAGG
ATAAAAGCAAACAATCCTGACATAAGCCACAGAGAAGCCTTCAGTACTGCAGCAAAGAAT
						
					

						Genomic sequence
						
							GACAATTTGAAGATGCACAATATGAGCTTCCGCGAAAACTACTCTGAATATGGCTCATCTTCCA
GATATGGCCGAGTGCCAATGATGTTCTCAAAAAATGACACAGAGCATATGCTGCACGTGCGACG
TAAGACAATGCATATGAACCTGCATAATAAATTTAGTGTACATGTGCGACGGAGCCATATTTCT
AGAGATTATTGATTTTACTATATGAAGCAATATAAAGGTATACAAATGCTAGGGGAATATTGCA
TATATTCACATATACATGCTGGGTGCATATACCACTTTTCTTCTCCAAACCCTTTTTATCTTTG
TTGTTTTGCTCAGACAACTGGGGTACGTGTGTTACTTCTTAATTAACACAAATACATGTATAGA
GAAATTATACTGGCTTAATCAATTCCTGAGTTATGCACCTTTTTTTAAACAGATATATTTAGAA
AATTCGACGAGGGATAAAGCTCTACTAAAAAGTCAGAAAAATAGAAAATTTAAACAAGTTGCAT
TGATTCAGCTAGAGGTGGATAATAAACTAGCTAGGCTCACAAGCTGGCTTGTTAAGCTCGAGTT
TTATATCAATTTAACATGTATTAATCTATTATATGTTCACATAATAGTAAACACTACTCCCTCT
GTTTCATATTAAAGTCGTTTCATATTATAAGTTATTTTGATTTTATAAAAAAAGTCGTTTTGAT
TGTTTTCCTAGCTAGTCAAAGTAATTTAAGTATGACCAAGTTTACAGAAATATATAGTAACATT
TCTAATACAGAACAAACATATTAAAACATATTCAATGCTAGATTTAATATAACTAATTTGGTGT
TTTAAGTGTTGCAAAAGGTTTCTATAAATTTAATCAAAACTTTAAAAAATTTTGACTAGAAAAA
GTCAAAATGACTTATTACGTGAAACGGAGGAAGAGTAACTAGTAAAGTACTAACTAGACATGAA
AAGTTTGAAAGTAATTTCAAGAAGTATTATCCATAGTATAAGTATTGACTAATAGGCACTCGGT
ATATATGGAAAATATGGTGTGTCTAGTTAAGCTAACAAGCTAAAAATCCATCTCACGAGTTCGA
GTCGATCAGCCAAGCCACAAGCTTTGAGTTTTTTTCCCCAACCCTAGCTAGGCTTAGGCCCTCT
TTGTTTAGGCTTATAAGCTAACTTATAAGTCGAAAAGTCTAAGCCTAAACAAACAAACAGCTTT
TCTGTTTGGCTTTTTTGAAGCCATAAGCCACTCTAACACTATTAAGCCAAAAGCTAGGTTGGAG
AAGCTTTTTTGTCTTATGTGAGATAGATGTATGACTCAACTACTAAACTTAGGACATTAAATCC
ACCGGCTTATAAATCATATAAGCCAATAAGCTGACTTAAAAGTCTAGGCCAATAAGCTTAAGCC
TAAACAAAAAGGCGCGTCTGCTGTTATTGATCAGGTTGAGTTCTGTTAAAGTTTATGGTCCCCA
TCGCTTGGCTTATTTCCTAATAAGCCAAAACGGCTTATTAGGAAATAAAAATGAATTTTTAGGT
AAAACTTTTATAATTGTGTTTTTGGTGACTTAAAAGCCAATGTTGAAAAAGAAACTACGTTGAA
AATATCTCAAAATCAATCTCAAAATTAAGCTTGAAAATTCAAATTTTGGCTTTTTCTTTAGCTG
ATTAGGCCATCCGATAGGAGCCATCCGATAGGAGCCTATACTGGGCTGTATATAGAAATTATTC
TTATATGAATTAATGAATGAAACGAGATGTGCATGTGTGCGTGAGTTCTAGCTAGTAGCTAGTA
CCATGCATGGTTCGGTTAAAGATTTTTCCGTGCGGTCAAAATGCATTTTTCAGTGCGGAGGTCC
CGCCCGACTGTACCCTGCATGTCTGCGAAAATCCATATTTTCACGTGCGGGCGGCCTAACCGCA
TGAGATAATCCATCTTCCCGTGCGGTCGGGTTAAGTAGACCACACGGGATAATCGATTATCCCG
TGCGGTCAAATTATACCGCCCGCACGCAAAAAAAACTGAAAAAAAAAATAAAATAAAAAACACT
AACCCTAACCCTAGAAATCTAGAATCGCCCGCTGCCGCCGCTCGTGTTCGCCATCGTCCTCATG
TCGTCGTCGTGGTCGCACCGTCGCCGCTCTCATCGTCGTCGTTGTGGTCGCGCTGCCGCCGCTC
CTGGCCGCCGTCACTGCTCCCGGTTGCCAGCACGGCGCGGATCCGACCGGTCACCCACCGCGCT
GTCTCCGCCAGCAGCCGTCGTGCCGCCCGCTCCCGGCCGCCGCCTCGTTGGCGGCAAGCCGGGC
AACTCCCGCGCCCCGTGCGCTCGGTGGGGAGGGGAGGAGCTAGAGGAAAGGCAGAGAGAGAGAG
GAGTGATTGAGGGTGAATAAAAGGGAAAATGAATAGAGAAGATGAAAAATTTAAAGTGAGTAAG
AGAGAAAAGAGGGAGAGGTATTTTTGCGTGCGGTCCACTTAAGAGGCCCGCACGTGAAAATCGG
TTTTCGCGTGCGGGCCTCTTAAGGGTCAACACGCAAAAATAGGCTTATTTTTGCGTGCGGACCG
TTAAGAGGCCTGTCTGCGAAAATCGATTTTTGCGTGCGGGTCTCTTAAGAGTCCGCACGCGAAA
ATGGGAGGCCAATTTCTGCAGACGCGCGCGAAAACGGTCCGTCTGGGAAAATGGAAGCTCCTTG
TCCAGAAAAATGTTTTGTGTACTTGTATATATTTGAAAATACTGATGCATGAACTAGCTACTTG
AGTACTATTTCATTTTGTGAGCCCAAAAATATTGACGTACGAACTACTTGACTACTACGTACTC
CTATTAATTTCTTGAAAAACCTAGGAGTAGTATACATACTCTCAAGAGTATGTGCTTTAGATAG
TAATTAAACAGTATCTGGATGCTTATACTTTTTTTTTACAAATCTTTTTCATACAACTTGCAGC
TCCAGAGAAGAGGCAGCGGGTTCCTTCAGCTTATAACAGATTTATCAAGTGAGTTTGATCTCGA
GACAATTCGATCGATCCATATATATATATAGATCGTCTAGACAGCTTATAACATCTGAGAGTTT
TCAGATAATTGATATAAATCTGCCGTATTCTATACTAAGTGTGTTTGATTTTGACACCCACTAA
TATATCACTACAGGGAAGAGATCCGGAGGATAAAAGCAAACAATCCTGACATAAGCCACAGAGA
AGCCTTCAGTACTGCAGCAAAGAAT
						
					

			
		

Sequences
Splice junction sequence	ACACCCACTAATATATCACTACAGGGAAGAGATCCGGAGGATAAAAGCAAACAATCCTGACATA AGCCACAGAGAAGCCTTCAGTACTGCAGCAAAGAATgacaatttgaagatgcacaatatgagct tccgcgaaaactactctgaatatggctcatcttccagatatggccgagtgccaatgatgttctc aaaaaatg
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: 252 Transcript exons: 25202750-25202876,25205693-25205741,25205899-25205974 GACAATTTGAAGATGCACAATATGAGCTTCCGCGAAAACTACTCTGAATATGGCTCATCTTCCA GATATGGCCGAGTGCCAATGATGTTCTCAAAAAATGACACAGAGCATATGCTGCACGTGCGACC TCCAGAGAAGAGGCAGCGGGTTCCTTCAGCTTATAACAGATTTATCAAGGAAGAGATCCGGAGG ATAAAAGCAAACAATCCTGACATAAGCCACAGAGAAGCCTTCAGTACTGCAGCAAAGAAT
Genomic sequence	GACAATTTGAAGATGCACAATATGAGCTTCCGCGAAAACTACTCTGAATATGGCTCATCTTCCA GATATGGCCGAGTGCCAATGATGTTCTCAAAAAATGACACAGAGCATATGCTGCACGTGCGACG TAAGACAATGCATATGAACCTGCATAATAAATTTAGTGTACATGTGCGACGGAGCCATATTTCT AGAGATTATTGATTTTACTATATGAAGCAATATAAAGGTATACAAATGCTAGGGGAATATTGCA TATATTCACATATACATGCTGGGTGCATATACCACTTTTCTTCTCCAAACCCTTTTTATCTTTG TTGTTTTGCTCAGACAACTGGGGTACGTGTGTTACTTCTTAATTAACACAAATACATGTATAGA GAAATTATACTGGCTTAATCAATTCCTGAGTTATGCACCTTTTTTTAAACAGATATATTTAGAA AATTCGACGAGGGATAAAGCTCTACTAAAAAGTCAGAAAAATAGAAAATTTAAACAAGTTGCAT TGATTCAGCTAGAGGTGGATAATAAACTAGCTAGGCTCACAAGCTGGCTTGTTAAGCTCGAGTT TTATATCAATTTAACATGTATTAATCTATTATATGTTCACATAATAGTAAACACTACTCCCTCT GTTTCATATTAAAGTCGTTTCATATTATAAGTTATTTTGATTTTATAAAAAAAGTCGTTTTGAT TGTTTTCCTAGCTAGTCAAAGTAATTTAAGTATGACCAAGTTTACAGAAATATATAGTAACATT TCTAATACAGAACAAACATATTAAAACATATTCAATGCTAGATTTAATATAACTAATTTGGTGT TTTAAGTGTTGCAAAAGGTTTCTATAAATTTAATCAAAACTTTAAAAAATTTTGACTAGAAAAA GTCAAAATGACTTATTACGTGAAACGGAGGAAGAGTAACTAGTAAAGTACTAACTAGACATGAA AAGTTTGAAAGTAATTTCAAGAAGTATTATCCATAGTATAAGTATTGACTAATAGGCACTCGGT ATATATGGAAAATATGGTGTGTCTAGTTAAGCTAACAAGCTAAAAATCCATCTCACGAGTTCGA GTCGATCAGCCAAGCCACAAGCTTTGAGTTTTTTTCCCCAACCCTAGCTAGGCTTAGGCCCTCT TTGTTTAGGCTTATAAGCTAACTTATAAGTCGAAAAGTCTAAGCCTAAACAAACAAACAGCTTT TCTGTTTGGCTTTTTTGAAGCCATAAGCCACTCTAACACTATTAAGCCAAAAGCTAGGTTGGAG AAGCTTTTTTGTCTTATGTGAGATAGATGTATGACTCAACTACTAAACTTAGGACATTAAATCC ACCGGCTTATAAATCATATAAGCCAATAAGCTGACTTAAAAGTCTAGGCCAATAAGCTTAAGCC TAAACAAAAAGGCGCGTCTGCTGTTATTGATCAGGTTGAGTTCTGTTAAAGTTTATGGTCCCCA TCGCTTGGCTTATTTCCTAATAAGCCAAAACGGCTTATTAGGAAATAAAAATGAATTTTTAGGT AAAACTTTTATAATTGTGTTTTTGGTGACTTAAAAGCCAATGTTGAAAAAGAAACTACGTTGAA AATATCTCAAAATCAATCTCAAAATTAAGCTTGAAAATTCAAATTTTGGCTTTTTCTTTAGCTG ATTAGGCCATCCGATAGGAGCCATCCGATAGGAGCCTATACTGGGCTGTATATAGAAATTATTC TTATATGAATTAATGAATGAAACGAGATGTGCATGTGTGCGTGAGTTCTAGCTAGTAGCTAGTA CCATGCATGGTTCGGTTAAAGATTTTTCCGTGCGGTCAAAATGCATTTTTCAGTGCGGAGGTCC CGCCCGACTGTACCCTGCATGTCTGCGAAAATCCATATTTTCACGTGCGGGCGGCCTAACCGCA TGAGATAATCCATCTTCCCGTGCGGTCGGGTTAAGTAGACCACACGGGATAATCGATTATCCCG TGCGGTCAAATTATACCGCCCGCACGCAAAAAAAACTGAAAAAAAAAATAAAATAAAAAACACT AACCCTAACCCTAGAAATCTAGAATCGCCCGCTGCCGCCGCTCGTGTTCGCCATCGTCCTCATG TCGTCGTCGTGGTCGCACCGTCGCCGCTCTCATCGTCGTCGTTGTGGTCGCGCTGCCGCCGCTC CTGGCCGCCGTCACTGCTCCCGGTTGCCAGCACGGCGCGGATCCGACCGGTCACCCACCGCGCT GTCTCCGCCAGCAGCCGTCGTGCCGCCCGCTCCCGGCCGCCGCCTCGTTGGCGGCAAGCCGGGC AACTCCCGCGCCCCGTGCGCTCGGTGGGGAGGGGAGGAGCTAGAGGAAAGGCAGAGAGAGAGAG GAGTGATTGAGGGTGAATAAAAGGGAAAATGAATAGAGAAGATGAAAAATTTAAAGTGAGTAAG AGAGAAAAGAGGGAGAGGTATTTTTGCGTGCGGTCCACTTAAGAGGCCCGCACGTGAAAATCGG TTTTCGCGTGCGGGCCTCTTAAGGGTCAACACGCAAAAATAGGCTTATTTTTGCGTGCGGACCG TTAAGAGGCCTGTCTGCGAAAATCGATTTTTGCGTGCGGGTCTCTTAAGAGTCCGCACGCGAAA ATGGGAGGCCAATTTCTGCAGACGCGCGCGAAAACGGTCCGTCTGGGAAAATGGAAGCTCCTTG TCCAGAAAAATGTTTTGTGTACTTGTATATATTTGAAAATACTGATGCATGAACTAGCTACTTG AGTACTATTTCATTTTGTGAGCCCAAAAATATTGACGTACGAACTACTTGACTACTACGTACTC CTATTAATTTCTTGAAAAACCTAGGAGTAGTATACATACTCTCAAGAGTATGTGCTTTAGATAG TAATTAAACAGTATCTGGATGCTTATACTTTTTTTTTACAAATCTTTTTCATACAACTTGCAGC TCCAGAGAAGAGGCAGCGGGTTCCTTCAGCTTATAACAGATTTATCAAGTGAGTTTGATCTCGA GACAATTCGATCGATCCATATATATATATAGATCGTCTAGACAGCTTATAACATCTGAGAGTTT TCAGATAATTGATATAAATCTGCCGTATTCTATACTAAGTGTGTTTGATTTTGACACCCACTAA TATATCACTACAGGGAAGAGATCCGGAGGATAAAAGCAAACAATCCTGACATAAGCCACAGAGA AGCCTTCAGTACTGCAGCAAAGAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_013372 						
					
						PMCS
						0.097522266

Conservation Information
Conserved circRNAs	osi_circ_013372
PMCS	0.097522266

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25202763-25205971(+)
25202809-25205957(-)
						
						Potential amino acid sequence
						
							MHNMSFRENYSEYGSSSRYGRVPMMFSKNDTEHMLHVRPPEKRQRVPSAYNRFIKEEIRRIKAN
NPDISHREAFSTAAKNDNLKMHNMSFRENYSEYGSSSRYGRVPMMFSKNDTEHMLHVRPPEKRQ
RVPSAYNRFIKEEIRRIKANNPDISHREAFSTAAKNDNLKMHNMSFRENYSEYGSSSRYGRVPM
MFSKNDTEHMLHVRPPEKRQRVPSAYNRFIKEEIRRIKANNPDISHREAFSTAAKNDNLKMHNM
SFRENYSEYGSSSRYGRVPMMFSKNDTEHMLHVRPPEKRQRVPSAYNRFIKEEIRRIKANNPDI
SHREAFSTAAKN(+)
MSHIQSSFRGSSYCASSNCHSLLQY*(-)
						
						Sponge-miRNAs
						
							osa-miR1846e osa-miR164c 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25202763-25205971(+) 25202809-25205957(-)
Potential amino acid sequence	MHNMSFRENYSEYGSSSRYGRVPMMFSKNDTEHMLHVRPPEKRQRVPSAYNRFIKEEIRRIKAN NPDISHREAFSTAAKNDNLKMHNMSFRENYSEYGSSSRYGRVPMMFSKNDTEHMLHVRPPEKRQ RVPSAYNRFIKEEIRRIKANNPDISHREAFSTAAKNDNLKMHNMSFRENYSEYGSSSRYGRVPM MFSKNDTEHMLHVRPPEKRQRVPSAYNRFIKEEIRRIKANNPDISHREAFSTAAKNDNLKMHNM SFRENYSEYGSSSRYGRVPMMFSKNDTEHMLHVRPPEKRQRVPSAYNRFIKEEIRRIKANNPDI SHREAFSTAAKN(+) MSHIQSSFRGSSYCASSNCHSLLQY*(-)
Sponge-miRNAs	osa-miR1846e osa-miR164c
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0650000_circ_g.2

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