Plant Circular RNA Database

Detail information of Os05g0145000_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os05g0145000_circ_g.1
					
						ID in PlantcircBase
						osa_circ_026553
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 2600402-2603245  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0145000						
					
						Parent gene annotation
						
							RING-type E3 ubiquitin ligase, Control of pollen tube growth, Re
gulation of seed setting rate (Os05t0145000-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0145000_circ_g.2 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os05t0145000-01:6

General Information
CircRNA Name	Os05g0145000_circ_g.1
ID in PlantcircBase	osa_circ_026553
Alias	NA
Organism	Oryza sativa
Position	chr5: 2600402-2603245 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0145000
Parent gene annotation	RING-type E3 ubiquitin ligase, Control of pollen tube growth, Re gulation of seed setting rate (Os05t0145000-01)
Parent gene strand	-
Alternative splicing	Os05g0145000_circ_g.2
Support reads	1
Tissues	shoot
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	Os05t0145000-01:6

			
						 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  
						
							GATTTGAGATAGATGTTGGATTGAGGAACTGACCACGATCCATATGTGCAACGGGTGGGCGCAG
AGACGATACCTCTTCCAGTTGATGGAGACAATGATTttgggcagctgttaaataaagaccagga
tgatatgcagtatcttggcccattcctctcatttccaagccaacggcctcaaatgcccaatcag
gcacacgg

									
								

					

						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: 556
Transcript exons: 2600402-2600518,2600724-2600789,2601330-2601422,2601506-
2601644,2603031-2603104,2603179-2603245
TTGGGCAGCTGTTAAATAAAGACCAGGATGATATGCAGTATCTTGGCCCATTCCTCTCATTTCC
AAGCCAACGGCCTCAAATGCCCAATCAGGCACACGGATCATGTCAACCAAAACCCCATATTCAG
AGACTGGTATTCCCTGTTGTGCCCTCTGCTGGAGAGCATGCCTTCGGCTTAGCCACTTTCCAAC
AGCCACACACGCAATACAGGCGAGACCACAGTAGCTGAAAAGCAGCCATATAAGGAAGCCCCAT
TTTTGTCCTTCCTCGGGTAAACAGCCTCTTGCAGTGCTAAACCACAATGTTCCTATCACAGTCC
AAACCCAAAGAAAGGGATAGAGAAGAAGCACAAGAACCGACAAGACAACAATTCTCCCACAAAA
ACGAGCATATCTCTGTTGCCATCCAAGATCCAATCCCATGCCGGCGGCAAGGCCATTATCGACG
AACATGAGAAGGCGGAAGATGAAGACGGTGGTGTAGTCAACCACGATCCATATGTGCAACGGGT
GGGCGCAGAGACGATACCTCTTCCAGTTGATGGAGACAATGATT
						
					

						Genomic sequence
						
							TTGGGCAGCTGTTAAATAAAGACCAGGATGATATGCAGTATCTTGGCCCATTCCTCTCATTTCC
AAGCCAACGGCCTCAAATGCCCAATCAGGCACACGGATCATGTCAACCAAAACCTATAGATGAT
GACAATAAAAAAAATTGAAATCCTCCCTACTTAAATATAAAGCTAGTAGTTGAGACAAGTAAGC
TGCACAAACTGAATTGAACAGGCAAGCATGGAAAAAGGGCGTGCAATGCTGTAGTTTCATATTT
TTCAAACGTCTACCATTGACAGTTCACTGGACAAAATCAGCAGCGAAAACGAACAAAAAATCTT
ACCCCATATTCAGAGACTGGTATTCCCTGTTGTGCCCTCTGCTGGAGAGCATGCCTTCGGCTTA
GCCACTGCAACAAAATTAAAAGTAAAACATGGCGATATGCCCTCTGTGAATTTAAATATACATT
TTTTTTAACAAAAAAGCGCTGTAGGGAAAGCCCCCACAGTTGCTTTATTAAAATAAGAAGGCAA
AATAAAATTACAAGAAATCTACCAAAAGTTCTGACTAAAAAAAGATCTAAAGCCAGTACAACCA
TGAGGATTAGGGTTCTGCTATCAGTATGGCTTCTGCACTAATAGTCAATATGAAGGAAGACGTA
CACTACCCTTCATGCTTTTAAAAGAAGAAAAAAATAAATGGATACGATTTCTAGATGATGCAAA
GAAGATATGAAATTATGAATACATCAATGCCAAATAACAATTCTCTATAACTAAAACCTTAACA
TCTTCAATCTAAATGACATCTAGATATAGTATGTATGACTGATGGTATGACACTCAAGAAGACT
GAATCTTTGCACAGTAATCATGGATAAATCGATGAACGATAATATGCGGATCCAATGCAAGATT
GCAGTTTGTACCGACATATCTTATAGCAGTACCTTTCCAACAGCCACACACGCAATACAGGCGA
GACCACAGTAGCTGAAAAGCAGCCATATAAGGAAGCCCCATTTTTGTCCTTCCTCGGGTAACTA
CATATAGAGTGAGTGTATGTTAAGTAAAACTTCTAAATATTTGGTGATGAGCATAATACCATAA
CAATAAGAAAACTTACACAGCCTCTTGCAGTGCTAAACCACAATGTTCCTATCACAGTCCAAAC
CCAAAGAAAGGGATAGAGAAGAAGCACAAGAACCGACAAGACAACAATTCTCCCACAAAAACGA
GCATATCTCTGTTGCCATCCAAGATCCCTACAATTACCAGCCACAAAAAGGACAAACGTCATAC
TTTGGAAAAGTTTAGAAGGTAAGGACCAACATACAAAGGTGGACATTGGCAAGTTAGCAACTCT
ATTTTGTAGGCGATACTCAAGCCTCTTACAACTGTAAGAGGAAATACTTATGTGCTGTCCTATT
GCACAGTGTTGCTTTAATGATAGAAACACCTCTTGCATGCTGTTTCTTTATCACAGAATGACAA
ATTTGTTATATGTACTCCTTTAGAAAGAAGGTAGTGTGGTGGCAGGGAATCTGCTACCAACACC
TCCACTAAATTTCTTACTAATTGCTCCCTTAAATTCCTGAAAATGACACTTCTACCTTCCAAAT
GTTGTTTATTTTTTTCCCTTTTTTTTGTATTTGGCTTTCTAAATTCGCAATTTTACATGGAAAT
GTCGAAGATGACCAAATTTTACAAATAGACATGTGTAGACATTGTCAAGTGCTCTTGTAACAGA
AAAGGAAAAGGTTTACAGGTTCAATGCAACAATCACATATATATGTTCCGAAAATGCAAACAGA
CTTATTCTATTCATTTTTATCTGTATCAAACATGTGGGCATACAGCTAGTCTTAGAAAATATTC
TAAGAGCATATTCTGTTTGAACTTTGAAGTTACACGTTAAAATGGTAATACTACAAAAATCTAA
ATATGAAATATTTCAATGGCATATTACGGCAAATCTTCAAAATAAGACAGTAAGTTGCACAGAA
GAAAAATAATACAGTAATGGCTAAATAAAAATAAATTGAGACTTCTATCTTCTGAAATGTTGAA
ACTACAAACTATATTGTTTTGCACTACAAACTATATTGTTTTGCGCCATGAACTCATCCAAAAT
TAGCAGACGGTTAAAAGGTTATATCTCATCTGCTCAGGTAATAACCATGCAAAGAGGCTGTTTA
GCCTTATGTCCCTTCATAAACGTATTTTAATTATAATTTGCTCGTTTAAAAAGAGCGGAGGCTG
AGGTTGCAATCAAGATAGTCAAGACAAAAATTGGTCAGGTTGCCTATTACAGGAATTTCCTTTT
CTCCCGAAAGGGTACAAATGTCATTGTCAATTGTTGTTCTTCCTTTTTTGCTAGGCTGCTTTTC
TCGATTTAGGGGTGACATCAAAATTTCATGTATGCAAATTTCATACTAGTCCATAATTAAAAAG
AACTAAACCCAGTGGTAAGTTTGGGGTCAAAATGGTACAGATTTGTTCTGTCTAGCAGAACAGA
ACAGCCCACCCAAAGCAGAGGAAAATGACAACCACTGTCTTTACCCCTACAATCCATTTGTAGG
TCTACCATAGGTATATTGTGACAGGAGAGATGAGGTTGAAATAGAAGGAGATAGTAGTTATAAA
CTTACAATCCCATGCCGGCGGCAAGGCCATTATCGACGAACATGAGAAGGCGGAAGATGAAGAC
GGTGGTGTAGTCAACCTGGGAAAAGATGAGAGAGTGAGATAGAGGAATAGCGGTTTGATTTGAG
ATAGATGTTGGATTGAGGAACTGACCACGATCCATATGTGCAACGGGTGGGCGCAGAGACGATA
CCTCTTCCAGTTGATGGAGACAATGATT
						
					

			
		

Sequences
Splice junction sequence	GATTTGAGATAGATGTTGGATTGAGGAACTGACCACGATCCATATGTGCAACGGGTGGGCGCAG AGACGATACCTCTTCCAGTTGATGGAGACAATGATTttgggcagctgttaaataaagaccagga tgatatgcagtatcttggcccattcctctcatttccaagccaacggcctcaaatgcccaatcag gcacacgg
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: 556 Transcript exons: 2600402-2600518,2600724-2600789,2601330-2601422,2601506- 2601644,2603031-2603104,2603179-2603245 TTGGGCAGCTGTTAAATAAAGACCAGGATGATATGCAGTATCTTGGCCCATTCCTCTCATTTCC AAGCCAACGGCCTCAAATGCCCAATCAGGCACACGGATCATGTCAACCAAAACCCCATATTCAG AGACTGGTATTCCCTGTTGTGCCCTCTGCTGGAGAGCATGCCTTCGGCTTAGCCACTTTCCAAC AGCCACACACGCAATACAGGCGAGACCACAGTAGCTGAAAAGCAGCCATATAAGGAAGCCCCAT TTTTGTCCTTCCTCGGGTAAACAGCCTCTTGCAGTGCTAAACCACAATGTTCCTATCACAGTCC AAACCCAAAGAAAGGGATAGAGAAGAAGCACAAGAACCGACAAGACAACAATTCTCCCACAAAA ACGAGCATATCTCTGTTGCCATCCAAGATCCAATCCCATGCCGGCGGCAAGGCCATTATCGACG AACATGAGAAGGCGGAAGATGAAGACGGTGGTGTAGTCAACCACGATCCATATGTGCAACGGGT GGGCGCAGAGACGATACCTCTTCCAGTTGATGGAGACAATGATT
Genomic sequence	TTGGGCAGCTGTTAAATAAAGACCAGGATGATATGCAGTATCTTGGCCCATTCCTCTCATTTCC AAGCCAACGGCCTCAAATGCCCAATCAGGCACACGGATCATGTCAACCAAAACCTATAGATGAT GACAATAAAAAAAATTGAAATCCTCCCTACTTAAATATAAAGCTAGTAGTTGAGACAAGTAAGC TGCACAAACTGAATTGAACAGGCAAGCATGGAAAAAGGGCGTGCAATGCTGTAGTTTCATATTT TTCAAACGTCTACCATTGACAGTTCACTGGACAAAATCAGCAGCGAAAACGAACAAAAAATCTT ACCCCATATTCAGAGACTGGTATTCCCTGTTGTGCCCTCTGCTGGAGAGCATGCCTTCGGCTTA GCCACTGCAACAAAATTAAAAGTAAAACATGGCGATATGCCCTCTGTGAATTTAAATATACATT TTTTTTAACAAAAAAGCGCTGTAGGGAAAGCCCCCACAGTTGCTTTATTAAAATAAGAAGGCAA AATAAAATTACAAGAAATCTACCAAAAGTTCTGACTAAAAAAAGATCTAAAGCCAGTACAACCA TGAGGATTAGGGTTCTGCTATCAGTATGGCTTCTGCACTAATAGTCAATATGAAGGAAGACGTA CACTACCCTTCATGCTTTTAAAAGAAGAAAAAAATAAATGGATACGATTTCTAGATGATGCAAA GAAGATATGAAATTATGAATACATCAATGCCAAATAACAATTCTCTATAACTAAAACCTTAACA TCTTCAATCTAAATGACATCTAGATATAGTATGTATGACTGATGGTATGACACTCAAGAAGACT GAATCTTTGCACAGTAATCATGGATAAATCGATGAACGATAATATGCGGATCCAATGCAAGATT GCAGTTTGTACCGACATATCTTATAGCAGTACCTTTCCAACAGCCACACACGCAATACAGGCGA GACCACAGTAGCTGAAAAGCAGCCATATAAGGAAGCCCCATTTTTGTCCTTCCTCGGGTAACTA CATATAGAGTGAGTGTATGTTAAGTAAAACTTCTAAATATTTGGTGATGAGCATAATACCATAA CAATAAGAAAACTTACACAGCCTCTTGCAGTGCTAAACCACAATGTTCCTATCACAGTCCAAAC CCAAAGAAAGGGATAGAGAAGAAGCACAAGAACCGACAAGACAACAATTCTCCCACAAAAACGA GCATATCTCTGTTGCCATCCAAGATCCCTACAATTACCAGCCACAAAAAGGACAAACGTCATAC TTTGGAAAAGTTTAGAAGGTAAGGACCAACATACAAAGGTGGACATTGGCAAGTTAGCAACTCT ATTTTGTAGGCGATACTCAAGCCTCTTACAACTGTAAGAGGAAATACTTATGTGCTGTCCTATT GCACAGTGTTGCTTTAATGATAGAAACACCTCTTGCATGCTGTTTCTTTATCACAGAATGACAA ATTTGTTATATGTACTCCTTTAGAAAGAAGGTAGTGTGGTGGCAGGGAATCTGCTACCAACACC TCCACTAAATTTCTTACTAATTGCTCCCTTAAATTCCTGAAAATGACACTTCTACCTTCCAAAT GTTGTTTATTTTTTTCCCTTTTTTTTGTATTTGGCTTTCTAAATTCGCAATTTTACATGGAAAT GTCGAAGATGACCAAATTTTACAAATAGACATGTGTAGACATTGTCAAGTGCTCTTGTAACAGA AAAGGAAAAGGTTTACAGGTTCAATGCAACAATCACATATATATGTTCCGAAAATGCAAACAGA CTTATTCTATTCATTTTTATCTGTATCAAACATGTGGGCATACAGCTAGTCTTAGAAAATATTC TAAGAGCATATTCTGTTTGAACTTTGAAGTTACACGTTAAAATGGTAATACTACAAAAATCTAA ATATGAAATATTTCAATGGCATATTACGGCAAATCTTCAAAATAAGACAGTAAGTTGCACAGAA GAAAAATAATACAGTAATGGCTAAATAAAAATAAATTGAGACTTCTATCTTCTGAAATGTTGAA ACTACAAACTATATTGTTTTGCACTACAAACTATATTGTTTTGCGCCATGAACTCATCCAAAAT TAGCAGACGGTTAAAAGGTTATATCTCATCTGCTCAGGTAATAACCATGCAAAGAGGCTGTTTA GCCTTATGTCCCTTCATAAACGTATTTTAATTATAATTTGCTCGTTTAAAAAGAGCGGAGGCTG AGGTTGCAATCAAGATAGTCAAGACAAAAATTGGTCAGGTTGCCTATTACAGGAATTTCCTTTT CTCCCGAAAGGGTACAAATGTCATTGTCAATTGTTGTTCTTCCTTTTTTGCTAGGCTGCTTTTC TCGATTTAGGGGTGACATCAAAATTTCATGTATGCAAATTTCATACTAGTCCATAATTAAAAAG AACTAAACCCAGTGGTAAGTTTGGGGTCAAAATGGTACAGATTTGTTCTGTCTAGCAGAACAGA ACAGCCCACCCAAAGCAGAGGAAAATGACAACCACTGTCTTTACCCCTACAATCCATTTGTAGG TCTACCATAGGTATATTGTGACAGGAGAGATGAGGTTGAAATAGAAGGAGATAGTAGTTATAAA CTTACAATCCCATGCCGGCGGCAAGGCCATTATCGACGAACATGAGAAGGCGGAAGATGAAGAC GGTGGTGTAGTCAACCTGGGAAAAGATGAGAGAGTGAGATAGAGGAATAGCGGTTTGATTTGAG ATAGATGTTGGATTGAGGAACTGACCACGATCCATATGTGCAACGGGTGGGCGCAGAGACGATA CCTCTTCCAGTTGATGGAGACAATGATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.320885516

Conservation Information
Conserved circRNAs	NA
PMCS	0.320885516

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2603190-2600413(+)
2603070-2603102(-)
						
						Potential amino acid sequence
						
							MCNGWAQRRYLFQLMETMILGSC*(+)
MFVDNGLAAGMGLDLGWQQRYARFCGRIVVLSVLVLLLYPFLWVWTVIGTLWFSTARGCLPEEG
QKWGFLIWLLFSYCGLACIACVAVGKWLSRRHALQQRAQQGIPVSEYGVLVDMIRVPDWAFEAV
GLEMRGMGQDTAYHPGLYLTAAQNHCLHQLEEVSSLRPPVAHMDRG*(-)
						
						Sponge-miRNAs
						
							osa-miR415 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2603190-2600413(+) 2603070-2603102(-)
Potential amino acid sequence	MCNGWAQRRYLFQLMETMILGSC(+) MFVDNGLAAGMGLDLGWQQRYARFCGRIVVLSVLVLLLYPFLWVWTVIGTLWFSTARGCLPEEG QKWGFLIWLLFSYCGLACIACVAVGKWLSRRHALQQRAQQGIPVSEYGVLVDMIRVPDWAFEAV GLEMRGMGQDTAYHPGLYLTAAQNHCLHQLEEVSSLRPPVAHMDRG(-)
Sponge-miRNAs	osa-miR415
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0145000_circ_g.1

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