Plant Circular RNA Database

Detail information of Os08g0554050_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os08g0554050_circ_g.3
					
						ID in PlantcircBase
						osa_circ_037983
					
						Alias
						Os_ciR5624
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 27709140-27710491  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							Os08g0554050						
					
						Parent gene annotation
						
							Similar to auxin-independent growth promoter. (Os08t0554050-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0554050_circ_g.1 Os08g0554050_circ_g.2 Os08g0554050_circ_g.4 						
					
						Support reads
						3/2
					
						Tissues
						root/root, 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
						Os08t0554050-01:5

General Information
CircRNA Name	Os08g0554050_circ_g.3
ID in PlantcircBase	osa_circ_037983
Alias	Os_ciR5624
Organism	Oryza sativa
Position	chr8: 27709140-27710491 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	Os08g0554050
Parent gene annotation	Similar to auxin-independent growth promoter. (Os08t0554050-01)
Parent gene strand	+
Alternative splicing	Os08g0554050_circ_g.1 Os08g0554050_circ_g.2 Os08g0554050_circ_g.4
Support reads	3/2
Tissues	root/root, 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	Os08t0554050-01:5

			
						 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  
						
							ATCATGGGTTGAGATTTACTGGCCTAATAGAAGAAATGGGTGAAAAATTAATACAAAGAATGAG
AGAGAGAAGCAAACATTTTATTGCTCTTCATTTAAGaaagaggcagatggcctttggggttcta
agtttgcgagcagattctatgggtgcagcaactcaagcagcaggttccttggtgcgcattattt
ttccactg

									
								

					

						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: 611
Transcript exons: 27709140-27709218,27709389-27709465,27709687-27709775,27
709872-27710055,27710310-27710491
AAAGAGGCAGATGGCCTTTGGGGTTCTAAGTTTGCGAGCAGATTCTATGGGTGCAGCAACTCAA
GCAGCAGGTTCCTTGGTTCAAGTGTTATCACGCAACCAGACCGTTATTTGATGATCGTTACAAG
TGGAGGCCTCAATCAACAGAGAACAGGGATAATTGATGCTGTTGTTGCTGCACGTATCTTAAAT
GCCACACTTGTTGTTCCCAAATTGGATCAAACATCTTTCTGGAAAGATGCAAGCAATTTCTCTG
AAATTTTTGACGTCGACTGGTTCATCTCGAATCTATCAAAGGATGTAAAGATTGTGAAAGAGCT
TCCAGAGATAGGAGGCAAACTGCGGACTCCTCATAGAATGCGTGTGCCCCGAAAATGTACTCAG
AGATGTTATGTGAACCGTGTGTTGCCTGCACTTCTTAAGAAACATGTTGTTCGGCTGACGAAAT
TTGATTATAGACTAGCAAACAGGTTGGACACAGATCTGCAGAAGCTGAGATGCAGAGTAAACTA
TCATGGGTTGAGATTTACTGGCCTAATAGAAGAAATGGGTGAAAAATTAATACAAAGAATGAGA
GAGAGAAGCAAACATTTTATTGCTCTTCATTTAAG
						
					

						Genomic sequence
						
							AAAGAGGCAGATGGCCTTTGGGGTTCTAAGTTTGCGAGCAGATTCTATGGGTGCAGCAACTCAA
GCAGCAGGTTCCTTGGTGCGCATTATTTTTCCACTGACGGTTAAAATTTGCTCGAACTGAGTAG
TGTTTTAGATTTGTAGTGTGCATGTTTCTGAGGCATTCTACATATAGGAGGTTTTAGTGGCAGT
GGTACTATTCTTTGTTGTATGGATTACCTGAAATAGTCAATGTTTTAAATTGTGCAGGTTCAAG
TGTTATCACGCAACCAGACCGTTATTTGATGATCGTTACAAGTGGAGGCCTCAATCAACAGAGA
ACAGGGGTAATATATGTGCCACACTGTTCCGTATCAAATACTGTGATGCGTGTGGATGGATAGG
AAAAAGAATAAAAGAAATCAGTTTGCAAATGTACATGAAGAATCAACTTGTACACATAGATTTT
ATGTGATCCATTATGACACCATGTTCCATGTAACTCCGTGGTAGTTATGTGTATTCTGTTGTTC
CATATGCATAACTATGACCATCTTCTGCTTTTCAGATAATTGATGCTGTTGTTGCTGCACGTAT
CTTAAATGCCACACTTGTTGTTCCCAAATTGGATCAAACATCTTTCTGGAAAGATGCAAGGTTA
ATTTGAGTATTGAGCGCTTCCTACCCTAATATTCTAAGGCTGCCCATGTTTCTATGAACACTTA
CATTTGTATGTGTACTGTTTCTCTGCAGCAATTTCTCTGAAATTTTTGACGTCGACTGGTTCAT
CTCGAATCTATCAAAGGATGTAAAGATTGTGAAAGAGCTTCCAGAGATAGGAGGCAAACTGCGG
ACTCCTCATAGAATGCGTGTGCCCCGAAAATGTACTCAGAGATGTTATGTGAACCGTGTGTTGC
CTGCACTTCTTAAGAAACATGTAAGTCATTGCTAGCAGCATATAATCCCAAGATACTTTTAAAT
TATGTGCTAATTCACCGTCTTGATGATATGAATTTTTGAGATCAGGAATAGAAATTTCATATTC
TTGGTAGGTCAATTGACTGTACTTTCGTTCCACTGACTGACCATTGACCACCTTGTGTGACTTC
AAATAAATTTACTTCTTCTGTTCAGAGACACTCATAATACCAATACCAGGATACCTTATATCAT
TACTTTCACGTAGTGCAGGTTGTTCGGCTGACGAAATTTGATTATAGACTAGCAAACAGGTTGG
ACACAGATCTGCAGAAGCTGAGATGCAGAGTAAACTATCATGGGTTGAGATTTACTGGCCTAAT
AGAAGAAATGGGTGAAAAATTAATACAAAGAATGAGAGAGAGAAGCAAACATTTTATTGCTCTT
CATTTAAG
						
					

			
		

Sequences
Splice junction sequence	ATCATGGGTTGAGATTTACTGGCCTAATAGAAGAAATGGGTGAAAAATTAATACAAAGAATGAG AGAGAGAAGCAAACATTTTATTGCTCTTCATTTAAGaaagaggcagatggcctttggggttcta agtttgcgagcagattctatgggtgcagcaactcaagcagcaggttccttggtgcgcattattt ttccactg
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: 611 Transcript exons: 27709140-27709218,27709389-27709465,27709687-27709775,27 709872-27710055,27710310-27710491 AAAGAGGCAGATGGCCTTTGGGGTTCTAAGTTTGCGAGCAGATTCTATGGGTGCAGCAACTCAA GCAGCAGGTTCCTTGGTTCAAGTGTTATCACGCAACCAGACCGTTATTTGATGATCGTTACAAG TGGAGGCCTCAATCAACAGAGAACAGGGATAATTGATGCTGTTGTTGCTGCACGTATCTTAAAT GCCACACTTGTTGTTCCCAAATTGGATCAAACATCTTTCTGGAAAGATGCAAGCAATTTCTCTG AAATTTTTGACGTCGACTGGTTCATCTCGAATCTATCAAAGGATGTAAAGATTGTGAAAGAGCT TCCAGAGATAGGAGGCAAACTGCGGACTCCTCATAGAATGCGTGTGCCCCGAAAATGTACTCAG AGATGTTATGTGAACCGTGTGTTGCCTGCACTTCTTAAGAAACATGTTGTTCGGCTGACGAAAT TTGATTATAGACTAGCAAACAGGTTGGACACAGATCTGCAGAAGCTGAGATGCAGAGTAAACTA TCATGGGTTGAGATTTACTGGCCTAATAGAAGAAATGGGTGAAAAATTAATACAAAGAATGAGA GAGAGAAGCAAACATTTTATTGCTCTTCATTTAAG
Genomic sequence	AAAGAGGCAGATGGCCTTTGGGGTTCTAAGTTTGCGAGCAGATTCTATGGGTGCAGCAACTCAA GCAGCAGGTTCCTTGGTGCGCATTATTTTTCCACTGACGGTTAAAATTTGCTCGAACTGAGTAG TGTTTTAGATTTGTAGTGTGCATGTTTCTGAGGCATTCTACATATAGGAGGTTTTAGTGGCAGT GGTACTATTCTTTGTTGTATGGATTACCTGAAATAGTCAATGTTTTAAATTGTGCAGGTTCAAG TGTTATCACGCAACCAGACCGTTATTTGATGATCGTTACAAGTGGAGGCCTCAATCAACAGAGA ACAGGGGTAATATATGTGCCACACTGTTCCGTATCAAATACTGTGATGCGTGTGGATGGATAGG AAAAAGAATAAAAGAAATCAGTTTGCAAATGTACATGAAGAATCAACTTGTACACATAGATTTT ATGTGATCCATTATGACACCATGTTCCATGTAACTCCGTGGTAGTTATGTGTATTCTGTTGTTC CATATGCATAACTATGACCATCTTCTGCTTTTCAGATAATTGATGCTGTTGTTGCTGCACGTAT CTTAAATGCCACACTTGTTGTTCCCAAATTGGATCAAACATCTTTCTGGAAAGATGCAAGGTTA ATTTGAGTATTGAGCGCTTCCTACCCTAATATTCTAAGGCTGCCCATGTTTCTATGAACACTTA CATTTGTATGTGTACTGTTTCTCTGCAGCAATTTCTCTGAAATTTTTGACGTCGACTGGTTCAT CTCGAATCTATCAAAGGATGTAAAGATTGTGAAAGAGCTTCCAGAGATAGGAGGCAAACTGCGG ACTCCTCATAGAATGCGTGTGCCCCGAAAATGTACTCAGAGATGTTATGTGAACCGTGTGTTGC CTGCACTTCTTAAGAAACATGTAAGTCATTGCTAGCAGCATATAATCCCAAGATACTTTTAAAT TATGTGCTAATTCACCGTCTTGATGATATGAATTTTTGAGATCAGGAATAGAAATTTCATATTC TTGGTAGGTCAATTGACTGTACTTTCGTTCCACTGACTGACCATTGACCACCTTGTGTGACTTC AAATAAATTTACTTCTTCTGTTCAGAGACACTCATAATACCAATACCAGGATACCTTATATCAT TACTTTCACGTAGTGCAGGTTGTTCGGCTGACGAAATTTGATTATAGACTAGCAAACAGGTTGG ACACAGATCTGCAGAAGCTGAGATGCAGAGTAAACTATCATGGGTTGAGATTTACTGGCCTAAT AGAAGAAATGGGTGAAAAATTAATACAAAGAATGAGAGAGAGAAGCAAACATTTTATTGCTCTT CATTTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_018143 						
					
						PMCS
						0.384926596

Conservation Information
Conserved circRNAs	osi_circ_018143
PMCS	0.384926596

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27709425-27709421(+)
						
						Potential amino acid sequence
						
							MIVTSGGLNQQRTGIIDAVVAARILNATLVVPKLDQTSFWKDASNFSEIFDVDWFISNLSKDVK
IVKELPEIGGKLRTPHRMRVPRKCTQRCYVNRVLPALLKKHVVRLTKFDYRLANRLDTDLQKLR
CRVNYHGLRFTGLIEEMGEKLIQRMRERSKHFIALHLRKRQMAFGVLSLRADSMGAATQAAGSL
VQVLSRNQTVI*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27709425-27709421(+)
Potential amino acid sequence	MIVTSGGLNQQRTGIIDAVVAARILNATLVVPKLDQTSFWKDASNFSEIFDVDWFISNLSKDVK IVKELPEIGGKLRTPHRMRVPRKCTQRCYVNRVLPALLKKHVVRLTKFDYRLANRLDTDLQKLR CRVNYHGLRFTGLIEEMGEKLIQRMRERSKHFIALHLRKRQMAFGVLSLRADSMGAATQAAGSL VQVLSRNQTVI*(+)
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 Os08g0554050_circ_g.3

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