Plant Circular RNA Database

Detail information of Os01g0332800_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0332800_circ_g.1
					
						ID in PlantcircBase
						osa_circ_001614
					
						Alias
						Os01circ10593
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 12917350-12918565  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl
					
						Parent gene
						
							Os01g0332800						
					
						Parent gene annotation
						
							Similar to Serine carboxypeptidase II-like protein. (Os01t033280
0-01);Similar to SCPL33. (Os01t0332800-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						4/1
					
						Tissues
						leaf/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
						Os01t0332800-01:4
Os01t0332800-02:4

General Information
CircRNA Name	Os01g0332800_circ_g.1
ID in PlantcircBase	osa_circ_001614
Alias	Os01circ10593
Organism	Oryza sativa
Position	chr1: 12917350-12918565 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl
Parent gene	Os01g0332800
Parent gene annotation	Similar to Serine carboxypeptidase II-like protein. (Os01t033280 0-01);Similar to SCPL33. (Os01t0332800-02)
Parent gene strand	-
Alternative splicing	NA
Support reads	4/1
Tissues	leaf/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	Os01t0332800-01:4 Os01t0332800-02:4

			
						 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  
						
							CATGCAAACTTGTTGAATTCCAAACCTGTTCCATTTCCATTGACCATGAGAGGACCCAATTCAG
AAGCTGCTCCATAGCCCACAGATGAGCAACCAGGACaataaatcctttcaaattgatatgctgg
tttgtttcaacatgcttgttgcgctcatacactacatcagcaagctgaggaacatagtgccctg
ttgcatca

									
								

					

						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: 386
Transcript exons: 12917350-12917438,12918042-12918134,12918231-12918326,12
918458-12918565
AATAAATCCTTTCAAATTGATATGCTGGTTTGTTTCAACATGCTTGTTGCGCTCATACACTACA
TCAGCAAGCTGAGGAACATAGTGCCCTGCATAGCTCTCTCCAGAGATGTAGAAGTCATGGTTTT
TGTACTGAGGAAACCTCTTGAACCAATTCACCAAGAAATTGTAGGTGTCCTCAGCGACAAAACG
GTCATCGATGCTCTCTAGGTCAGACGAGGTATTTGTGTAGGAGAAGCCGACTCCAACAGGAGAT
TCCAAGAACAACAAATTGGCCTCGTTATTCCATGCAAACTTGTTGAATTCCAAACCTGTTCCAT
TTCCATTGACCATGAGAGGACCCAATTCAGAAGCTGCTCCATAGCCCACAGATGAGCAACCAGG
AC
						
					

						Genomic sequence
						
							AATAAATCCTTTCAAATTGATATGCTGGTTTGTTTCAACATGCTTGTTGCGCTCATACACTACA
TCAGCAAGCTGAGGAACATAGTGCCCTGTTGCATCAAAGTTGGTAAGTGTCTTTCCCCACAAAA
TAAAAAGTTGGTAACTGTCTTATTATTCAAGGTTATGTTTGCATGTTGTGAAACACATTGGATG
ATGTGGTTTGCAGCATATGCCCTGATACGTGTGTCCACTAGATGGCCACCAATGTTTAAATCTG
AGTACTTTTGACCATATAGTTTGTTGAATAAGCCACTCTCTCCTTTGACCCTTGATAGGACTGT
TTTGGGTTTAGTGACAGAAGCAAACAAAAAATGAGTATTCCAACCCTAACAAAAGATAGCTGTA
TTTTTCAACAGAATAACAAACATCAACTTGTTCAGGACCTAATAAAGGTGGTATAGTGGGATCC
ATGTATTGGTGTGGACTGAAGACTTCAGGGAATAGGATCTGGATGACTACATGTATTCTAGGCT
AAACCTTTTGACTAGAGAATATTGAGGAGTGGAAAGATGGTGGATTTATTCCTGTTTTGCATGC
TTACACTACTCATTAATTAACAAAAGGTGAAAATCCGGTATCTTTTTCTTTTTCTTGTGGGCTT
ATTCAACTTTTCTATATTTTTGTTGGAAGAAAGGGAGCTGTCTGCACAATACCTGCATAGCTCT
CTCCAGAGATGTAGAAGTCATGGTTTTTGTACTGAGGAAACCTCTTGAACCAATTCACCAAGAA
ATTGTAGGTGTCCTCAGCTGCGCCGCTCGAAAAATACAGTTAATGAGCACAATAACACAAATTT
TTCAGACTTTAAGGGAGGTAAGTTGAAGATCCTGAGACTAGATAAATACCGACAAAACGGTCAT
CGATGCTCTCTAGGTCAGACGAGGTATTTGTGTAGGAGAAGCCGACTCCAACAGGAGATTCCAA
GAACAACAAATTGGCCTCTGAAACATGGAGAGGAACAATTGCAGATTAATTCTGTTAGTCCCAC
ATTGACCGGTAGCAACTTTACACATGACGTGACTTCGGAGTGCAACATGATACGAGCGGTAAAA
GATGAACAATAATATCGTACCGTTATTCCATGCAAACTTGTTGAATTCCAAACCTGTTCCATTT
CCATTGACCATGAGAGGACCCAATTCAGAAGCTGCTCCATAGCCCACAGATGAGCAACCAGGAC
						
					

			
		

Sequences
Splice junction sequence	CATGCAAACTTGTTGAATTCCAAACCTGTTCCATTTCCATTGACCATGAGAGGACCCAATTCAG AAGCTGCTCCATAGCCCACAGATGAGCAACCAGGACaataaatcctttcaaattgatatgctgg tttgtttcaacatgcttgttgcgctcatacactacatcagcaagctgaggaacatagtgccctg ttgcatca
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: 386 Transcript exons: 12917350-12917438,12918042-12918134,12918231-12918326,12 918458-12918565 AATAAATCCTTTCAAATTGATATGCTGGTTTGTTTCAACATGCTTGTTGCGCTCATACACTACA TCAGCAAGCTGAGGAACATAGTGCCCTGCATAGCTCTCTCCAGAGATGTAGAAGTCATGGTTTT TGTACTGAGGAAACCTCTTGAACCAATTCACCAAGAAATTGTAGGTGTCCTCAGCGACAAAACG GTCATCGATGCTCTCTAGGTCAGACGAGGTATTTGTGTAGGAGAAGCCGACTCCAACAGGAGAT TCCAAGAACAACAAATTGGCCTCGTTATTCCATGCAAACTTGTTGAATTCCAAACCTGTTCCAT TTCCATTGACCATGAGAGGACCCAATTCAGAAGCTGCTCCATAGCCCACAGATGAGCAACCAGG AC
Genomic sequence	AATAAATCCTTTCAAATTGATATGCTGGTTTGTTTCAACATGCTTGTTGCGCTCATACACTACA TCAGCAAGCTGAGGAACATAGTGCCCTGTTGCATCAAAGTTGGTAAGTGTCTTTCCCCACAAAA TAAAAAGTTGGTAACTGTCTTATTATTCAAGGTTATGTTTGCATGTTGTGAAACACATTGGATG ATGTGGTTTGCAGCATATGCCCTGATACGTGTGTCCACTAGATGGCCACCAATGTTTAAATCTG AGTACTTTTGACCATATAGTTTGTTGAATAAGCCACTCTCTCCTTTGACCCTTGATAGGACTGT TTTGGGTTTAGTGACAGAAGCAAACAAAAAATGAGTATTCCAACCCTAACAAAAGATAGCTGTA TTTTTCAACAGAATAACAAACATCAACTTGTTCAGGACCTAATAAAGGTGGTATAGTGGGATCC ATGTATTGGTGTGGACTGAAGACTTCAGGGAATAGGATCTGGATGACTACATGTATTCTAGGCT AAACCTTTTGACTAGAGAATATTGAGGAGTGGAAAGATGGTGGATTTATTCCTGTTTTGCATGC TTACACTACTCATTAATTAACAAAAGGTGAAAATCCGGTATCTTTTTCTTTTTCTTGTGGGCTT ATTCAACTTTTCTATATTTTTGTTGGAAGAAAGGGAGCTGTCTGCACAATACCTGCATAGCTCT CTCCAGAGATGTAGAAGTCATGGTTTTTGTACTGAGGAAACCTCTTGAACCAATTCACCAAGAA ATTGTAGGTGTCCTCAGCTGCGCCGCTCGAAAAATACAGTTAATGAGCACAATAACACAAATTT TTCAGACTTTAAGGGAGGTAAGTTGAAGATCCTGAGACTAGATAAATACCGACAAAACGGTCAT CGATGCTCTCTAGGTCAGACGAGGTATTTGTGTAGGAGAAGCCGACTCCAACAGGAGATTCCAA GAACAACAAATTGGCCTCTGAAACATGGAGAGGAACAATTGCAGATTAATTCTGTTAGTCCCAC ATTGACCGGTAGCAACTTTACACATGACGTGACTTCGGAGTGCAACATGATACGAGCGGTAAAA GATGAACAATAATATCGTACCGTTATTCCATGCAAACTTGTTGAATTCCAAACCTGTTCCATTT CCATTGACCATGAGAGGACCCAATTCAGAAGCTGCTCCATAGCCCACAGATGAGCAACCAGGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002033* osi_circ_009326 						
					
						PMCS
						0.331559264

Conservation Information
Conserved circRNAs	osi_circ_002033* osi_circ_009326
PMCS	0.331559264

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12918552-12918255(+)
12918514-12918257(-)
						
						Potential amino acid sequence
						
							MSNQDNKSFQIDMLVCFNMLVALIHYISKLRNIVPCIALSRDVEVMVFVLRKPLEPIHQEIVGV
LSDKTVIDAL*(+)
MVNGNGTGLEFNKFAWNNEANLLFLESPVGVGFSYTNTSSDLESIDDRFVAEDTYNFLVNWFKR
FPQYKNHDFYISGESYAGHYVPQLADVVYERNKHVETNQHINLKGFIVLVAHLWAMEQLLNWVL
SWSMEMEQVWNSTSLHGITRPICCSWNLLLESASPTQIPRLT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12918552-12918255(+) 12918514-12918257(-)
Potential amino acid sequence	MSNQDNKSFQIDMLVCFNMLVALIHYISKLRNIVPCIALSRDVEVMVFVLRKPLEPIHQEIVGV LSDKTVIDAL(+) MVNGNGTGLEFNKFAWNNEANLLFLESPVGVGFSYTNTSSDLESIDDRFVAEDTYNFLVNWFKR FPQYKNHDFYISGESYAGHYVPQLADVVYERNKHVETNQHINLKGFIVLVAHLWAMEQLLNWVL SWSMEMEQVWNSTSLHGITRPICCSWNLLLESASPTQIPRLT(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Chu et al., 2017

circRNA

Detail information of Os01g0332800_circ_g.1

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