Plant Circular RNA Database

Detail information of Os02g0198333_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0198333_circ_g.1
					
						ID in PlantcircBase
						osa_circ_013669
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 5506444-5507638  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0198333						
					
						Parent gene annotation
						
							Hypothetical gene. (Os02t0198333-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0198333_circ_g.2 Os02g0198333_circ_g.3 						
					
						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  
						
							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
						Os02t0198300-01:5
Os02t0198300-02:5
Os02t0198300-01:5
Os02t0198300-02:5
Os02t0198333-00:2

General Information
CircRNA Name	Os02g0198333_circ_g.1
ID in PlantcircBase	osa_circ_013669
Alias	NA
Organism	Oryza sativa
Position	chr2: 5506444-5507638 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0198333
Parent gene annotation	Hypothetical gene. (Os02t0198333-00)
Parent gene strand	-
Alternative splicing	Os02g0198333_circ_g.2 Os02g0198333_circ_g.3
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	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	Os02t0198300-01:5 Os02t0198300-02:5 Os02t0198300-01:5 Os02t0198300-02:5 Os02t0198333-00:2

			
						 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  
						
							GCAGAAAGCGCAAACCTCGGTGATCAAAGCCAACCTGAACCCTGTCTGGAACGAAGAACTCAAG
CTCTCTGTTCCTCAGCAATACGGCCCTCTCAAACTGatcagctaatataggagtattcatatgc
ctcaagtgttccggtgttcacagaagtcttggcacacacatttcaaaggtttcttcaattgcaa
tatagata

									
								

					

						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: 571
Transcript exons: 5506444-5506519,5506694-5506857,5507059-5507176,5507283-
5507399,5507543-5507638
ATCAGCTAATATAGGAGTATTCATATGCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACA
CACATTTCAAAGGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTGA
TCGAAGTCGGTGGAAATTCTCACGCCAATGCTATATATGAAACCTTCCTGCCGCAGAACCACAG
CAAGCCACATCCAGATTCTACCCAGGAAGAGCGAGAAAAATTCATCAGGTCAAAATATGAGTTA
CAAGAGTTTCTTGAGCCAAGCCTACGGATTGTTTCTCATCAGTCTAGCGACTCCGGGAAACATG
CAGGCAGTGCCTCCCATTCTGTCAGTTCCAAGAGCGAAGTAGGCATGATTGAGTTCATCGGAAT
ATTGAATGTCAAGGTGAAAGGAGGCACCAACCTAGCCATCAGAGACATGTCAAGCAGTGATCCT
TATGTAGTCCTGACCCTTGGGCAACAGAAAGCGCAAACCTCGGTGATCAAAGCCAACCTGAACC
CTGTCTGGAACGAAGAACTCAAGCTCTCTGTTCCTCAGCAATACGGCCCTCTCAAACTG
						
					

						Genomic sequence
						
							ATCAGCTAATATAGGAGTATTCATATGCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACA
CACATTTCAAAGGTTTCTTCAATTGCAATATAGATAGTGCTATAAATCTTTTTTCATCTTTCTT
ATCCAATTGAATTCAGCAAGTTTTTCTGTATTTACAGCATAGGCAAAGTTTGCACTGACAATTA
TGGCATATTATACATCATGTTTTGAGCATAATCACCATTCAGTATTTGTTTTGAGCAGGTTCTG
TCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTGATCGAAGTCGGTGGAAATT
CTCACGCCAATGCTATATATGAAACCTTCCTGCCGCAGAACCACAGCAAGCCACATCCAGATTC
TACCCAGGAAGAGCGAGAAAAATTCATCAGGTATTTTATTCCTCTGTTAGTTCGCAGCACTTTC
AAGTGCAGGGTATGCCATTCTCTCATCTGAATTCCCAGATACAGGTCAATACTTTGGAGCTTCC
CTTTTGTTCTGCAAATTGAACTGAAGAAATAGCTTAAAAAAATGTTCTCCTATGGTGTTTCAGT
TATATCAAATGACACATACAGTTAATTACAATTCTTCAGGTCAAAATATGAGTTACAAGAGTTT
CTTGAGCCAAGCCTACGGATTGTTTCTCATCAGTCTAGCGACTCCGGGAAACATGCAGGCAGTG
CCTCCCATTCTGTCAGTTCCAAGAGCGAAGTAGGCAGCACTGTCCTAAAACTGCAAATTGCATT
TTGTTCTACCTTACTTAGCATGTTCTGCGACTCTTAGATTCAAATTTAGTAATCCCCGATTTGA
TTTGCAGGTAGGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGCACCAAC
CTAGCCATCAGAGACATGTCAAGCAGTGATCCTTATGTAGTCCTGACCCTTGGGCAACAGGTAG
TATTATGAAATCCTAATTTTCTGATGGTTTCTGGGCAACTAATTCAAGATCGAATTCATCGTTT
TGTACCACATTGTCTCTCATTCAGAACATGCAGAAATTCTTGTTCTAAATTTCACCATATCTTC
GCTGTGTGCAGAAAGCGCAAACCTCGGTGATCAAAGCCAACCTGAACCCTGTCTGGAACGAAGA
ACTCAAGCTCTCTGTTCCTCAGCAATACGGCCCTCTCAAACTG
						
					

			
		

Sequences
Splice junction sequence	GCAGAAAGCGCAAACCTCGGTGATCAAAGCCAACCTGAACCCTGTCTGGAACGAAGAACTCAAG CTCTCTGTTCCTCAGCAATACGGCCCTCTCAAACTGatcagctaatataggagtattcatatgc ctcaagtgttccggtgttcacagaagtcttggcacacacatttcaaaggtttcttcaattgcaa tatagata
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: 571 Transcript exons: 5506444-5506519,5506694-5506857,5507059-5507176,5507283- 5507399,5507543-5507638 ATCAGCTAATATAGGAGTATTCATATGCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACA CACATTTCAAAGGTTCTGTCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTGA TCGAAGTCGGTGGAAATTCTCACGCCAATGCTATATATGAAACCTTCCTGCCGCAGAACCACAG CAAGCCACATCCAGATTCTACCCAGGAAGAGCGAGAAAAATTCATCAGGTCAAAATATGAGTTA CAAGAGTTTCTTGAGCCAAGCCTACGGATTGTTTCTCATCAGTCTAGCGACTCCGGGAAACATG CAGGCAGTGCCTCCCATTCTGTCAGTTCCAAGAGCGAAGTAGGCATGATTGAGTTCATCGGAAT ATTGAATGTCAAGGTGAAAGGAGGCACCAACCTAGCCATCAGAGACATGTCAAGCAGTGATCCT TATGTAGTCCTGACCCTTGGGCAACAGAAAGCGCAAACCTCGGTGATCAAAGCCAACCTGAACC CTGTCTGGAACGAAGAACTCAAGCTCTCTGTTCCTCAGCAATACGGCCCTCTCAAACTG
Genomic sequence	ATCAGCTAATATAGGAGTATTCATATGCCTCAAGTGTTCCGGTGTTCACAGAAGTCTTGGCACA CACATTTCAAAGGTTTCTTCAATTGCAATATAGATAGTGCTATAAATCTTTTTTCATCTTTCTT ATCCAATTGAATTCAGCAAGTTTTTCTGTATTTACAGCATAGGCAAAGTTTGCACTGACAATTA TGGCATATTATACATCATGTTTTGAGCATAATCACCATTCAGTATTTGTTTTGAGCAGGTTCTG TCAGTCACACTAGATCAGTGGAGTGACAATGAAATTGATAACGTGATCGAAGTCGGTGGAAATT CTCACGCCAATGCTATATATGAAACCTTCCTGCCGCAGAACCACAGCAAGCCACATCCAGATTC TACCCAGGAAGAGCGAGAAAAATTCATCAGGTATTTTATTCCTCTGTTAGTTCGCAGCACTTTC AAGTGCAGGGTATGCCATTCTCTCATCTGAATTCCCAGATACAGGTCAATACTTTGGAGCTTCC CTTTTGTTCTGCAAATTGAACTGAAGAAATAGCTTAAAAAAATGTTCTCCTATGGTGTTTCAGT TATATCAAATGACACATACAGTTAATTACAATTCTTCAGGTCAAAATATGAGTTACAAGAGTTT CTTGAGCCAAGCCTACGGATTGTTTCTCATCAGTCTAGCGACTCCGGGAAACATGCAGGCAGTG CCTCCCATTCTGTCAGTTCCAAGAGCGAAGTAGGCAGCACTGTCCTAAAACTGCAAATTGCATT TTGTTCTACCTTACTTAGCATGTTCTGCGACTCTTAGATTCAAATTTAGTAATCCCCGATTTGA TTTGCAGGTAGGCATGATTGAGTTCATCGGAATATTGAATGTCAAGGTGAAAGGAGGCACCAAC CTAGCCATCAGAGACATGTCAAGCAGTGATCCTTATGTAGTCCTGACCCTTGGGCAACAGGTAG TATTATGAAATCCTAATTTTCTGATGGTTTCTGGGCAACTAATTCAAGATCGAATTCATCGTTT TGTACCACATTGTCTCTCATTCAGAACATGCAGAAATTCTTGTTCTAAATTTCACCATATCTTC GCTGTGTGCAGAAAGCGCAAACCTCGGTGATCAAAGCCAACCTGAACCCTGTCTGGAACGAAGA ACTCAAGCTCTCTGTTCCTCAGCAATACGGCCCTCTCAAACTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.218760251

Conservation Information
Conserved circRNAs	NA
PMCS	0.218760251

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5507290-5506449(+)
5506469-5507360(-)
						
						Potential amino acid sequence
						
							MIEFIGILNVKVKGGTNLAIRDMSSSDPYVVLTLGQQKAQTSVIKANLNPVWNEELKLSVPQQY
GPLKLIS*(+)
MNTPILADQFERAVLLRNRELEFFVPDRVQVGFDHRGLRFLLPKGQDYIRITA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5507290-5506449(+) 5506469-5507360(-)
Potential amino acid sequence	MIEFIGILNVKVKGGTNLAIRDMSSSDPYVVLTLGQQKAQTSVIKANLNPVWNEELKLSVPQQY GPLKLIS(+) MNTPILADQFERAVLLRNRELEFFVPDRVQVGFDHRGLRFLLPKGQDYIRITA(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0198333_circ_g.1

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