Plant Circular RNA Database

Detail information of Os04g0457800_circ_g.12

			
						 General Information
					
						CircRNA Name
						Os04g0457800_circ_g.12
					
						ID in PlantcircBase
						osa_circ_024052
					
						Alias
						Os_ciR9371
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 22869081-22870470  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os04g0457800						
					
						Parent gene annotation
						
							Similar to SERK1 (Fragment). (Os04t0457800-01);Similar to H0523F
07.15 protein. (Os04t0457800-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os04g0457800_circ_g.13 Os04g0457800_circ_g.14 Os04g0457800_circ_g.15 						
					
						Support reads
						2/1
					
						Tissues
						root/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
						Os04t0457800-02:1
Os04t0457800-01:6

General Information
CircRNA Name	Os04g0457800_circ_g.12
ID in PlantcircBase	osa_circ_024052
Alias	Os_ciR9371
Organism	Oryza sativa
Position	chr4: 22869081-22870470 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os04g0457800
Parent gene annotation	Similar to SERK1 (Fragment). (Os04t0457800-01);Similar to H0523F 07.15 protein. (Os04t0457800-02)
Parent gene strand	-
Alternative splicing	Os04g0457800_circ_g.13 Os04g0457800_circ_g.14 Os04g0457800_circ_g.15
Support reads	2/1
Tissues	root/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	Os04t0457800-02:1 Os04t0457800-01:6

			
						 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  
						
							ACCAGTGAAGTTGTTCAGGTAAAGATCCAAACTGACCAAGTTAGTTAAGTTTCCCAGTTCATTA
GGTATTGTCCCACTTATGTTGTTGCTGTAAAGCTCCctcgcaatcgtgatgcgacactcccatt
agccatgtagggatagacaagtaaccgttctgtaggcgtcatgcaaaatccacggagccgaagc
aggttcct

									
								

					

						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: 872
Transcript exons: 22869081-22869422,22869503-22869631,22869751-22869863,22
869945-22870016,22870132-22870203,22870327-22870470
CTCGCAATCGTGATGCGACACTCCCATTAGCCATGTAGGGATAGACAAGTAACCGTTCTGTAGG
CGTCATGCAAAATCCACGGAGCCGAAGCAGGTTCCTATGCACCGCCATGCTAATCATTTCAACT
TCTGTTTGGAACTGGAGCTCACCACCAGGGGTACGTTCTTCTTTTAATCTTTTCACTGCTACCA
ACGAGCCATCTGCCAGTCTACCTTTGTACACCTTTCCAAAGCCACCTCTTCCCAGAATATTCTT
ATTGCTAAAGTTATCAGTAGCAACTTGAAGCTCCCGGAGTGAGAATCTCTTAAGTTGGCCAAGG
TGCACTTCCGGATCCTCCTCAGCAGGGACATCAAAGAAGTGTTCTTCAGGTTTACGCCGCCGCC
ACCATGCAAATCCAATTGCCGGAACCGCAAACAGCAATGCAGCAGCTGCAGCAACACCTCCAGC
AATTGCTCCAGTTTTGGAGTCACCTTGTGACACAGTAGGTGTTGGGGGATTGAAAGGAGGTGGT
GGAGAAAAAGGTGGAGCTCCAGGGCAGGGTTTTGTAGTACCCGGGCCACAAAGATCTTTATTAT
TAGCAAAACTTATAGGGGTAAAGAGTGAAAAGGAGCCAGTAGACGGAACCTCTCCTGAGAGATT
GTTATTTGAGAGATCCAGAACTTGAAGAGTAGTGATATTGGTCAAGGATTTTGGAATTGAACCA
GAAAGACTGTTGTTGTTAAGACGAAGGAAACGCAGCTTGTAGAGTTGCCCCAAGGTTTCCGGAA
TAAAACCAGTGAAGTTGTTCAGGTAAAGATCCAAACTGACCAAGTTAGTTAAGTTTCCCAGTTC
ATTAGGTATTGTCCCACTTATGTTGTTGCTGTAAAGCTCC
						
					

						Genomic sequence
						
							CTCGCAATCGTGATGCGACACTCCCATTAGCCATGTAGGGATAGACAAGTAACCGTTCTGTAGG
CGTCATGCAAAATCCACGGAGCCGAAGCAGGTTCCTATGCACCGCCATGCTAATCATTTCAACT
TCTGTTTGGAACTGGAGCTCACCACCAGGGGTACGTTCTTCTTTTAATCTTTTCACTGCTACCA
ACGAGCCATCTGCCAGTCTACCTTTGTACACCTTTCCAAAGCCACCTCTTCCCAGAATATTCTT
ATTGCTAAAGTTATCAGTAGCAACTTGAAGCTCCCGGAGTGAGAATCTCTTAAGTTGGCCAAGG
TGCACTTCCGGATCCTCCTCAGCTGAATTTAAAGGAGAATATAGATTATTTAAATGGATAACAT
AAGTATCATGAACTGCAGTATGCAACTATAATACCAACCAGGGACATCAAAGAAGTGTTCTTCA
GGTTTACGCCGCCGCCACCATGCAAATCCAATTGCCGGAACCGCAAACAGCAATGCAGCAGCTG
CAGCAACACCTCCAGCAATTGCTCCAGTTTTGGAGTCACCTGATGGAATAGAATTAATTCCACC
CGAATATGTCAAATCCCCTGTCTGCATCATTTATGCATATGCATATCCCAAGCAGTATCACAAA
TGTAACAGAATTAAAACTATAGAGAATCACCTTGTGACACAGTAGGTGTTGGGGGATTGAAAGG
AGGTGGTGGAGAAAAAGGTGGAGCTCCAGGGCAGGGTTTTGTAGTACCCGGGCCACAAAGATCT
TTATTATTAGCAAAACTGCGACAATGAAATAACCATTTGTCAGCCTCACAAGATGTAGTAAGCA
CTAAGAACCTAAATTCTATCTAGAAAAAGCACCTTATAGGGGTAAAGAGTGAAAAGGAGCCAGT
AGACGGAACCTCTCCTGAGAGATTGTTATTTGAGAGATCCCTGCATAAATTATTGGACATTTTG
TTAATATGTATCCATCTTAAAGTCTATTACCATGTAAGCAATAATTTCTACAGGTAGACACCAA
ATATGAATTAGCAGAAAGGGAACTTACAGAACTTGAAGAGTAGTGATATTGGTCAAGGATTTTG
GAATTGAACCAGAAAGACTGTTGTTGTTAAGACGACTATCCTTACAAGAAGACATGCAAATAAA
GAATTATGTTATGATCATTCAAACAGGAAGGCCTTCAATGATATACACAATTTATAATTCTATT
CATAATAAAAAAAAAGTGGAGTACACTTACAGGAAACGCAGCTTGTAGAGTTGCCCCAAGGTTT
CCGGAATAAAACCAGTGAAGTTGTTCAGGTAAAGATCCAAACTGACCAAGTTAGTTAAGTTTCC
CAGTTCATTAGGTATTGTCCCACTTATGTTGTTGCTGTAAAGCTCC
						
					

			
		

Sequences
Splice junction sequence	ACCAGTGAAGTTGTTCAGGTAAAGATCCAAACTGACCAAGTTAGTTAAGTTTCCCAGTTCATTA GGTATTGTCCCACTTATGTTGTTGCTGTAAAGCTCCctcgcaatcgtgatgcgacactcccatt agccatgtagggatagacaagtaaccgttctgtaggcgtcatgcaaaatccacggagccgaagc aggttcct
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: 872 Transcript exons: 22869081-22869422,22869503-22869631,22869751-22869863,22 869945-22870016,22870132-22870203,22870327-22870470 CTCGCAATCGTGATGCGACACTCCCATTAGCCATGTAGGGATAGACAAGTAACCGTTCTGTAGG CGTCATGCAAAATCCACGGAGCCGAAGCAGGTTCCTATGCACCGCCATGCTAATCATTTCAACT TCTGTTTGGAACTGGAGCTCACCACCAGGGGTACGTTCTTCTTTTAATCTTTTCACTGCTACCA ACGAGCCATCTGCCAGTCTACCTTTGTACACCTTTCCAAAGCCACCTCTTCCCAGAATATTCTT ATTGCTAAAGTTATCAGTAGCAACTTGAAGCTCCCGGAGTGAGAATCTCTTAAGTTGGCCAAGG TGCACTTCCGGATCCTCCTCAGCAGGGACATCAAAGAAGTGTTCTTCAGGTTTACGCCGCCGCC ACCATGCAAATCCAATTGCCGGAACCGCAAACAGCAATGCAGCAGCTGCAGCAACACCTCCAGC AATTGCTCCAGTTTTGGAGTCACCTTGTGACACAGTAGGTGTTGGGGGATTGAAAGGAGGTGGT GGAGAAAAAGGTGGAGCTCCAGGGCAGGGTTTTGTAGTACCCGGGCCACAAAGATCTTTATTAT TAGCAAAACTTATAGGGGTAAAGAGTGAAAAGGAGCCAGTAGACGGAACCTCTCCTGAGAGATT GTTATTTGAGAGATCCAGAACTTGAAGAGTAGTGATATTGGTCAAGGATTTTGGAATTGAACCA GAAAGACTGTTGTTGTTAAGACGAAGGAAACGCAGCTTGTAGAGTTGCCCCAAGGTTTCCGGAA TAAAACCAGTGAAGTTGTTCAGGTAAAGATCCAAACTGACCAAGTTAGTTAAGTTTCCCAGTTC ATTAGGTATTGTCCCACTTATGTTGTTGCTGTAAAGCTCC
Genomic sequence	CTCGCAATCGTGATGCGACACTCCCATTAGCCATGTAGGGATAGACAAGTAACCGTTCTGTAGG CGTCATGCAAAATCCACGGAGCCGAAGCAGGTTCCTATGCACCGCCATGCTAATCATTTCAACT TCTGTTTGGAACTGGAGCTCACCACCAGGGGTACGTTCTTCTTTTAATCTTTTCACTGCTACCA ACGAGCCATCTGCCAGTCTACCTTTGTACACCTTTCCAAAGCCACCTCTTCCCAGAATATTCTT ATTGCTAAAGTTATCAGTAGCAACTTGAAGCTCCCGGAGTGAGAATCTCTTAAGTTGGCCAAGG TGCACTTCCGGATCCTCCTCAGCTGAATTTAAAGGAGAATATAGATTATTTAAATGGATAACAT AAGTATCATGAACTGCAGTATGCAACTATAATACCAACCAGGGACATCAAAGAAGTGTTCTTCA GGTTTACGCCGCCGCCACCATGCAAATCCAATTGCCGGAACCGCAAACAGCAATGCAGCAGCTG CAGCAACACCTCCAGCAATTGCTCCAGTTTTGGAGTCACCTGATGGAATAGAATTAATTCCACC CGAATATGTCAAATCCCCTGTCTGCATCATTTATGCATATGCATATCCCAAGCAGTATCACAAA TGTAACAGAATTAAAACTATAGAGAATCACCTTGTGACACAGTAGGTGTTGGGGGATTGAAAGG AGGTGGTGGAGAAAAAGGTGGAGCTCCAGGGCAGGGTTTTGTAGTACCCGGGCCACAAAGATCT TTATTATTAGCAAAACTGCGACAATGAAATAACCATTTGTCAGCCTCACAAGATGTAGTAAGCA CTAAGAACCTAAATTCTATCTAGAAAAAGCACCTTATAGGGGTAAAGAGTGAAAAGGAGCCAGT AGACGGAACCTCTCCTGAGAGATTGTTATTTGAGAGATCCCTGCATAAATTATTGGACATTTTG TTAATATGTATCCATCTTAAAGTCTATTACCATGTAAGCAATAATTTCTACAGGTAGACACCAA ATATGAATTAGCAGAAAGGGAACTTACAGAACTTGAAGAGTAGTGATATTGGTCAAGGATTTTG GAATTGAACCAGAAAGACTGTTGTTGTTAAGACGACTATCCTTACAAGAAGACATGCAAATAAA GAATTATGTTATGATCATTCAAACAGGAAGGCCTTCAATGATATACACAATTTATAATTCTATT CATAATAAAAAAAAAGTGGAGTACACTTACAGGAAACGCAGCTTGTAGAGTTGCCCCAAGGTTT CCGGAATAAAACCAGTGAAGTTGTTCAGGTAAAGATCCAAACTGACCAAGTTAGTTAAGTTTCC CAGTTCATTAGGTATTGTCCCACTTATGTTGTTGCTGTAAAGCTCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_005517* 						
					
						PMCS
						0.395019496

Conservation Information
Conserved circRNAs	osi_circ_005517*
PMCS	0.395019496

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22869203-22870450(-)
22869109-22870434(-)
						
						Potential amino acid sequence
						
							MISMAVHRNLLRLRGFCMTPTERLLVYPYMANGSVASRLRGSFTATT*(-)
MGVSHHDCEGALQQQHKWDNT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22869203-22870450(-) 22869109-22870434(-)
Potential amino acid sequence	MISMAVHRNLLRLRGFCMTPTERLLVYPYMANGSVASRLRGSFTATT(-) MGVSHHDCEGALQQQHKWDNT(-)
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 Os04g0457800_circ_g.12

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