Plant Circular RNA Database

Detail information of Os02g0571300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0571300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_015100
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 21859905-21861238  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, PcircRNA_finder, circRNA_finder
					
						Parent gene
						
							Os02g0571300						
					
						Parent gene annotation
						
							Terpenoid synthase domain containing protein. (Os02t0571300-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						4
					
						Tissues
						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  
						
							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
						Os02t0571300-01:3

General Information
CircRNA Name	Os02g0571300_circ_g.1
ID in PlantcircBase	osa_circ_015100
Alias	NA
Organism	Oryza sativa
Position	chr2: 21859905-21861238 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, PcircRNA_finder, circRNA_finder
Parent gene	Os02g0571300
Parent gene annotation	Terpenoid synthase domain containing protein. (Os02t0571300-01)
Parent gene strand	-
Alternative splicing	NA
Support reads	4
Tissues	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	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	Os02t0571300-01:3

			
						 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  
						
							ATATATTAAAAACTGAACCATGTATATATTTGTCCTACCATGCCTTGTTGGCTTCCCGCATTCC
TCCCTAATCCCAGGCTCTTCTCAACACCTGCAGCTCctttccaattcaatcttccgcatgtgaa
aaatcccatcaatatctgtttgcataacagggaattccaaacccgttccagtggcaaggttaag
caagccag

									
								

					

						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: 529
Transcript exons: 21859905-21860085,21860196-21860481,21861177-21861238
CTTTCCAATTCAATCTTCCGCATGTGAAAAATCCCATCAATATCTGTTTGCATAACAGGGAATT
CCAAACCCGTTCCAGTGGCAAGGTTAAGCAAGCCAGAAAAGGTAATGTTAAAACCCACAGGAGC
AATAGTTTGCTCATCCATGGCAACCCAGAAATTTTTTCCAATAAAATTCAGTCCTCTGCTGATG
TGATCTCGTCCAGTATTCCATCTTTTCAGTGCAACAACACATGCCAATGTACACAAAAGAATGT
CTTTGTTGACAACCGAACCTGGCAGGTTTGTGCCCCAAGATCCATCATCATGTTGGTTTTGCAG
TATCCACTCGATACATTGCGGGAAGCGTGGAGTTTGATGAGAGCCCTGCACTGGCACCATGGCT
ACCCATGCCGTGTCGTATGAAGATGGTGATAATTGAACTTCCCGAAGTTGCTTCCTTATCTTAT
CCTGCAGTTGGTTCTTCTGCATGCCTTGTTGGCTTCCCGCATTCCTCCCTAATCCCAGGCTCTT
CTCAACACCTGCAGCTC
						
					

						Genomic sequence
						
							CTTTCCAATTCAATCTTCCGCATGTGAAAAATCCCATCAATATCTGTTTGCATAACAGGGAATT
CCAAACCCGTTCCAGTGGCAAGGTTAAGCAAGCCAGAAAAGGTAATGTTAAAACCCACAGGAGC
AATAGTTTGCTCATCCATGGCAACCCAGAAATTTTTTCCAATAAAATTCAGTCCTGCCAAAACC
ATTTTTCGTAGCTATATAAGAATGTTTCACCCTACATTATAAATATCTAGACAATATATTAAAA
ACAACAACAACATAAATGCAATTATTGATTTGTACCTCTGCTGATGTGATCTCGTCCAGTATTC
CATCTTTTCAGTGCAACAACACATGCCAATGTACACAAAAGAATGTCTTTGTTGACAACCGAAC
CTGGCAGGTTTGTGCCCCAAGATCCATCATCATGTTGGTTTTGCAGTATCCACTCGATACATTG
CGGGAAGCGTGGAGTTTGATGAGAGCCCTGCACTGGCACCATGGCTACCCATGCCGTGTCGTAT
GAAGATGGTGATAATTGAACTTCCCGAAGTTGCTTCCTTATCTTATCCTGCAGTTGGTTCTTCT
GCTGCATATCCCATCAGAATAATAAACTCAACCATCGATATGTTTCACAATTCAATGCACGAGG
TTTAGTTACAATACTCAGCTGCTGTTCGATCTAGCCTAATCTGTTGATGATCACAACTAATCGA
GTCTGGTTTTTTAGAAGCTTTAATGCGATGAAGTCATTGGTGGCATTTTTCCTTCTTCTTTTTT
TGCCACCACTGAGCTTCTTTGGTCATGGATGGGTACATAGAGTTCTGAAGTGAGATTGTTTTGC
TGTTTTCTGGGTGAAAACATTGTAGATCTAGTTTAGCTTGATCAACAATATCGATGTACGTTTA
TTGATCTAATCCCTTATGAAAGGTGTTGTCTTGAAATTGTTGTGGTGAAAACCTAACTTTTTGA
TAGGACAATATGGTAAACATATATATATGATATTTTCTTTAGGAAGGTACTATCGCAGTCTCTT
GGAGAGTGCCTCGTTTGCATAGATGGCCTTCATGTATTCTCTTTTCATCTTTCAGATTGCATTT
TCATATTTTGTCATGTTGTTGTGGTTTTTCTACTGATTTTGGCAGTGCGCATCTCTGGCTAGTC
ACTAGTTAGTACGGAGGTCGATAGTTTCTTTTAATGAATTACTCCATTATGTATTAAAAAATGG
ACCATTAATTACTCCATTATATATTAAAAACTGAACCATGTATATATTTGTCCTACCATGCCTT
GTTGGCTTCCCGCATTCCTCCCTAATCCCAGGCTCTTCTCAACACCTGCAGCTC
						
					

			
		

Sequences
Splice junction sequence	ATATATTAAAAACTGAACCATGTATATATTTGTCCTACCATGCCTTGTTGGCTTCCCGCATTCC TCCCTAATCCCAGGCTCTTCTCAACACCTGCAGCTCctttccaattcaatcttccgcatgtgaa aaatcccatcaatatctgtttgcataacagggaattccaaacccgttccagtggcaaggttaag caagccag
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: 529 Transcript exons: 21859905-21860085,21860196-21860481,21861177-21861238 CTTTCCAATTCAATCTTCCGCATGTGAAAAATCCCATCAATATCTGTTTGCATAACAGGGAATT CCAAACCCGTTCCAGTGGCAAGGTTAAGCAAGCCAGAAAAGGTAATGTTAAAACCCACAGGAGC AATAGTTTGCTCATCCATGGCAACCCAGAAATTTTTTCCAATAAAATTCAGTCCTCTGCTGATG TGATCTCGTCCAGTATTCCATCTTTTCAGTGCAACAACACATGCCAATGTACACAAAAGAATGT CTTTGTTGACAACCGAACCTGGCAGGTTTGTGCCCCAAGATCCATCATCATGTTGGTTTTGCAG TATCCACTCGATACATTGCGGGAAGCGTGGAGTTTGATGAGAGCCCTGCACTGGCACCATGGCT ACCCATGCCGTGTCGTATGAAGATGGTGATAATTGAACTTCCCGAAGTTGCTTCCTTATCTTAT CCTGCAGTTGGTTCTTCTGCATGCCTTGTTGGCTTCCCGCATTCCTCCCTAATCCCAGGCTCTT CTCAACACCTGCAGCTC
Genomic sequence	CTTTCCAATTCAATCTTCCGCATGTGAAAAATCCCATCAATATCTGTTTGCATAACAGGGAATT CCAAACCCGTTCCAGTGGCAAGGTTAAGCAAGCCAGAAAAGGTAATGTTAAAACCCACAGGAGC AATAGTTTGCTCATCCATGGCAACCCAGAAATTTTTTCCAATAAAATTCAGTCCTGCCAAAACC ATTTTTCGTAGCTATATAAGAATGTTTCACCCTACATTATAAATATCTAGACAATATATTAAAA ACAACAACAACATAAATGCAATTATTGATTTGTACCTCTGCTGATGTGATCTCGTCCAGTATTC CATCTTTTCAGTGCAACAACACATGCCAATGTACACAAAAGAATGTCTTTGTTGACAACCGAAC CTGGCAGGTTTGTGCCCCAAGATCCATCATCATGTTGGTTTTGCAGTATCCACTCGATACATTG CGGGAAGCGTGGAGTTTGATGAGAGCCCTGCACTGGCACCATGGCTACCCATGCCGTGTCGTAT GAAGATGGTGATAATTGAACTTCCCGAAGTTGCTTCCTTATCTTATCCTGCAGTTGGTTCTTCT GCTGCATATCCCATCAGAATAATAAACTCAACCATCGATATGTTTCACAATTCAATGCACGAGG TTTAGTTACAATACTCAGCTGCTGTTCGATCTAGCCTAATCTGTTGATGATCACAACTAATCGA GTCTGGTTTTTTAGAAGCTTTAATGCGATGAAGTCATTGGTGGCATTTTTCCTTCTTCTTTTTT TGCCACCACTGAGCTTCTTTGGTCATGGATGGGTACATAGAGTTCTGAAGTGAGATTGTTTTGC TGTTTTCTGGGTGAAAACATTGTAGATCTAGTTTAGCTTGATCAACAATATCGATGTACGTTTA TTGATCTAATCCCTTATGAAAGGTGTTGTCTTGAAATTGTTGTGGTGAAAACCTAACTTTTTGA TAGGACAATATGGTAAACATATATATATGATATTTTCTTTAGGAAGGTACTATCGCAGTCTCTT GGAGAGTGCCTCGTTTGCATAGATGGCCTTCATGTATTCTCTTTTCATCTTTCAGATTGCATTT TCATATTTTGTCATGTTGTTGTGGTTTTTCTACTGATTTTGGCAGTGCGCATCTCTGGCTAGTC ACTAGTTAGTACGGAGGTCGATAGTTTCTTTTAATGAATTACTCCATTATGTATTAAAAAATGG ACCATTAATTACTCCATTATATATTAAAAACTGAACCATGTATATATTTGTCCTACCATGCCTT GTTGGCTTCCCGCATTCCTCCCTAATCCCAGGCTCTTCTCAACACCTGCAGCTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.209614255

Conservation Information
Conserved circRNAs	NA
PMCS	0.209614255

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21861179-21860415(+)
21860404-21859928(+)
21860048-21861225(-)
21861181-21861225(-)
						
						Potential amino acid sequence
						
							MPCWLPAFLPNPRLFSTPAAPFQFNLPHVKNPINICLHNREFQTRSSGKVKQARKGNVKTHRSN
SLLIHGNPEIFSNKIQSSADVISSSIPSFQCNNTCQCTQKNVFVDNRTWQVCAPRSIIMLVLQY
PLDTLREAWSLMRALHWHHGYPCRVV*(+)
MPCRMKMVIIELPEVASLSYPAVGSSACLVGFPHSSLIPGSSQHLQLLSNSIFRM*(+)
MSKLLLLWVLTLPFLACLTLPLERVWNSLLCKQILMGFFTCGRLNWKGAAGVEKSLGLGRNAGS
QQGMQKNQLQDKIRKQLREVQLSPSSYDTAWVAMVPVQGSHQTPRFPQCIEWILQNQHDDGSWG
TNLPGSVVNKDILLCTLACVVALKRWNTGRDHISRGLNFIGKNFWVAMDEQTIAPVGFNITFSG
LLNLATGTGLEFPVMQTDIDGIFHMRKIELERSCRC*(-)
MQKNQLQDKIRKQLREVQLSPSSYDTAWVAMVPVQGSHQTPRFPQCIEWILQNQHDDGSWGTNL
PGSVVNKDILLCTLACVVALKRWNTGRDHISRGLNFIGKNFWVAMDEQTIAPVGFNITFSGLLN
LATGTGLEFPVMQTDIDGIFHMRKIELERSCRC*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	21861179-21860415(+) 21860404-21859928(+) 21860048-21861225(-) 21861181-21861225(-)
Potential amino acid sequence	MPCWLPAFLPNPRLFSTPAAPFQFNLPHVKNPINICLHNREFQTRSSGKVKQARKGNVKTHRSN SLLIHGNPEIFSNKIQSSADVISSSIPSFQCNNTCQCTQKNVFVDNRTWQVCAPRSIIMLVLQY PLDTLREAWSLMRALHWHHGYPCRVV(+) MPCRMKMVIIELPEVASLSYPAVGSSACLVGFPHSSLIPGSSQHLQLLSNSIFRM(+) MSKLLLLWVLTLPFLACLTLPLERVWNSLLCKQILMGFFTCGRLNWKGAAGVEKSLGLGRNAGS QQGMQKNQLQDKIRKQLREVQLSPSSYDTAWVAMVPVQGSHQTPRFPQCIEWILQNQHDDGSWG TNLPGSVVNKDILLCTLACVVALKRWNTGRDHISRGLNFIGKNFWVAMDEQTIAPVGFNITFSG LLNLATGTGLEFPVMQTDIDGIFHMRKIELERSCRC(-) MQKNQLQDKIRKQLREVQLSPSSYDTAWVAMVPVQGSHQTPRFPQCIEWILQNQHDDGSWGTNL PGSVVNKDILLCTLACVVALKRWNTGRDHISRGLNFIGKNFWVAMDEQTIAPVGFNITFSGLLN LATGTGLEFPVMQTDIDGIFHMRKIELERSCRC(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0571300_circ_g.1

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