Plant Circular RNA Database

Detail information of Os01g0658500_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0658500_circ_g.2
					
						ID in PlantcircBase
						osa_circ_003082
					
						Alias
						Os_ciR5976
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 26786519-26787363  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0658500						
					
						Parent gene annotation
						
							ESCRT-II complex, vps25 subunit domain containing protein. (Os01
t0658500-01);Similar to Vacuolar protein sorting protein 25. (Os
01t0658500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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
						Os01t0658500-01:4
Os01t0658500-02:4

General Information
CircRNA Name	Os01g0658500_circ_g.2
ID in PlantcircBase	osa_circ_003082
Alias	Os_ciR5976
Organism	Oryza sativa
Position	chr1: 26786519-26787363 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0658500
Parent gene annotation	ESCRT-II complex, vps25 subunit domain containing protein. (Os01 t0658500-01);Similar to Vacuolar protein sorting protein 25. (Os 01t0658500-02)
Parent gene strand	-
Alternative splicing	NA
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	Os01t0658500-01:4 Os01t0658500-02:4

			
						 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  
						
							TAGGGAGATTATATATAGCTTTTGACTTCTACAATAATCAAGTATCAGATCTTTCCACAGCTGC
ACTTGCTTTTCACGTGTTTCTCGCACAGGCTGCAATcagtcccacgtgtttcaattcctgaacg
tatttcttcaacagtcattacactatcttccagcccattatcctttacctacaaacacagggta
gagagaaa

									
								

					

						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: 294
Transcript exons: 26786519-26786594,26786778-26786801,26786919-26786972,26
787224-26787363
CAGTCCCACGTGTTTCAATTCCTGAACGTATTTCTTCAACAGTCATTACACTATCTTCCAGCCC
ATTATCCTTTACCTTTGTCCATCCATTCTGCACGTCCTTCATAAACAAGAGCAGCAAGGAATAC
TTCCTTTGCTTCATGGCTAAGAGATCTCTCGATCTTTGGATTGGAGAACAATGGGAAATCTTCT
TCTAGGGAGATTATATATAGCTTTTGACTTCTACAATAATCAAGTATCAGATCTTTCCACAGCT
GCACTTGCTTTTCACGTGTTTCTCGCACAGGCTGCAAT
Transcript length: 359
Transcript exons: 26786519-26786594,26786713-26786801,26786919-26786972,26
787224-26787363
CAGTCCCACGTGTTTCAATTCCTGAACGTATTTCTTCAACAGTCATTACACTATCTTCCAGCCC
ATTATCCTTTACAAAATTTAATATGTAGTTAGCCCAATCTTGTATCCGCAACCAAAGAATGAGG
CACTTCTTATGACCTTTGTCCATCCATTCTGCACGTCCTTCATAAACAAGAGCAGCAAGGAATA
CTTCCTTTGCTTCATGGCTAAGAGATCTCTCGATCTTTGGATTGGAGAACAATGGGAAATCTTC
TTCTAGGGAGATTATATATAGCTTTTGACTTCTACAATAATCAAGTATCAGATCTTTCCACAGC
TGCACTTGCTTTTCACGTGTTTCTCGCACAGGCTGCAAT
						
					

						Genomic sequence
						
							CAGTCCCACGTGTTTCAATTCCTGAACGTATTTCTTCAACAGTCATTACACTATCTTCCAGCCC
ATTATCCTTTACCTACAAACACAGGGTAGAGAGAAATATTATGACACAATGAAGACAATGCCAC
TATGTATTGTTCACAAATAATTAATAGATAGCGCCTAAACAAATGCCGAATATAAAACAATCGT
ACAAAATTTAATATGTAGTTAGCCCAATCTTGTATCCGCAACCAAAGAATGAGGCACTTCTTAT
GACCTTTGTCCATCCATTCTGCACGTCCTGCATGCAGTTTCAACATAGATTTAAGAAGGTGCAG
AGCATCAAACAAATGATTTTGTAATGCACAGAATTACTATAGCTGTGATAAAAGATAAGAGATT
TAATGGTAAAATGGACCTTCATAAACAAGAGCAGCAAGGAATACTTCCTTTGCTTCATGGCTAA
GAGATCCTGCAGAAGAGAACAATTTATGTGAATTCAGTGCAACAGGTAAGAGTGTAACGAGCTA
ATCAAGTACAATTATTTTGTTCTTATGTACTCAAAGCCTCCATAGCCCTTTGAGTGCATTGCAG
TCATGCCTCGTTGCTGAGTTTTTTTTTTTTTAACGAACCAAACAGTTTGATGATTAGCTACTGC
GACACATTTTTTTTTATGAATAACAGAAGAAACTAGTATGTAAGATTAAGATAGGTAAATCTTA
CTCTCGATCTTTGGATTGGAGAACAATGGGAAATCTTCTTCTAGGGAGATTATATATAGCTTTT
GACTTCTACAATAATCAAGTATCAGATCTTTCCACAGCTGCACTTGCTTTTCACGTGTTTCTCG
CACAGGCTGCAAT
						
					

			
		

Sequences
Splice junction sequence	TAGGGAGATTATATATAGCTTTTGACTTCTACAATAATCAAGTATCAGATCTTTCCACAGCTGC ACTTGCTTTTCACGTGTTTCTCGCACAGGCTGCAATcagtcccacgtgtttcaattcctgaacg tatttcttcaacagtcattacactatcttccagcccattatcctttacctacaaacacagggta gagagaaa
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: 294 Transcript exons: 26786519-26786594,26786778-26786801,26786919-26786972,26 787224-26787363 CAGTCCCACGTGTTTCAATTCCTGAACGTATTTCTTCAACAGTCATTACACTATCTTCCAGCCC ATTATCCTTTACCTTTGTCCATCCATTCTGCACGTCCTTCATAAACAAGAGCAGCAAGGAATAC TTCCTTTGCTTCATGGCTAAGAGATCTCTCGATCTTTGGATTGGAGAACAATGGGAAATCTTCT TCTAGGGAGATTATATATAGCTTTTGACTTCTACAATAATCAAGTATCAGATCTTTCCACAGCT GCACTTGCTTTTCACGTGTTTCTCGCACAGGCTGCAAT Transcript length: 359 Transcript exons: 26786519-26786594,26786713-26786801,26786919-26786972,26 787224-26787363 CAGTCCCACGTGTTTCAATTCCTGAACGTATTTCTTCAACAGTCATTACACTATCTTCCAGCCC ATTATCCTTTACAAAATTTAATATGTAGTTAGCCCAATCTTGTATCCGCAACCAAAGAATGAGG CACTTCTTATGACCTTTGTCCATCCATTCTGCACGTCCTTCATAAACAAGAGCAGCAAGGAATA CTTCCTTTGCTTCATGGCTAAGAGATCTCTCGATCTTTGGATTGGAGAACAATGGGAAATCTTC TTCTAGGGAGATTATATATAGCTTTTGACTTCTACAATAATCAAGTATCAGATCTTTCCACAGC TGCACTTGCTTTTCACGTGTTTCTCGCACAGGCTGCAAT
Genomic sequence	CAGTCCCACGTGTTTCAATTCCTGAACGTATTTCTTCAACAGTCATTACACTATCTTCCAGCCC ATTATCCTTTACCTACAAACACAGGGTAGAGAGAAATATTATGACACAATGAAGACAATGCCAC TATGTATTGTTCACAAATAATTAATAGATAGCGCCTAAACAAATGCCGAATATAAAACAATCGT ACAAAATTTAATATGTAGTTAGCCCAATCTTGTATCCGCAACCAAAGAATGAGGCACTTCTTAT GACCTTTGTCCATCCATTCTGCACGTCCTGCATGCAGTTTCAACATAGATTTAAGAAGGTGCAG AGCATCAAACAAATGATTTTGTAATGCACAGAATTACTATAGCTGTGATAAAAGATAAGAGATT TAATGGTAAAATGGACCTTCATAAACAAGAGCAGCAAGGAATACTTCCTTTGCTTCATGGCTAA GAGATCCTGCAGAAGAGAACAATTTATGTGAATTCAGTGCAACAGGTAAGAGTGTAACGAGCTA ATCAAGTACAATTATTTTGTTCTTATGTACTCAAAGCCTCCATAGCCCTTTGAGTGCATTGCAG TCATGCCTCGTTGCTGAGTTTTTTTTTTTTTAACGAACCAAACAGTTTGATGATTAGCTACTGC GACACATTTTTTTTTATGAATAACAGAAGAAACTAGTATGTAAGATTAAGATAGGTAAATCTTA CTCTCGATCTTTGGATTGGAGAACAATGGGAAATCTTCTTCTAGGGAGATTATATATAGCTTTT GACTTCTACAATAATCAAGTATCAGATCTTTCCACAGCTGCACTTGCTTTTCACGTGTTTCTCG CACAGGCTGCAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.247336174

Conservation Information
Conserved circRNAs	NA
PMCS	0.247336174

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26787249-26786540(+)
26786789-26787310(-)
						
						Potential amino acid sequence
						
							MGNLLLGRLYIAFDFYNNQVSDLSTAALAFHVFLAQAAISPTCFNS*(+)
MDKGHKKCLILWLRIQDWANYILNFVKDNGLEDSVMTVEEIRSGIETRGTDCSLCEKHVKSKCS
CGKI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	26787249-26786540(+) 26786789-26787310(-)
Potential amino acid sequence	MGNLLLGRLYIAFDFYNNQVSDLSTAALAFHVFLAQAAISPTCFNS(+) MDKGHKKCLILWLRIQDWANYILNFVKDNGLEDSVMTVEEIRSGIETRGTDCSLCEKHVKSKCS CGKI(-)
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 Os01g0658500_circ_g.2

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