Plant Circular RNA Database

Detail information of Os02g0537900_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0537900_circ_g.3
					
						ID in PlantcircBase
						osa_circ_014927
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 19913168-19914766  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0537900						
					
						Parent gene annotation
						
							Similar to Vacuolar-type H+-translocating inorganic pyrophosphat
ase (EC 3.6.1.1). (Os02t0537900-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						Tissues
						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
						Os02t0537900-01:5

General Information
CircRNA Name	Os02g0537900_circ_g.3
ID in PlantcircBase	osa_circ_014927
Alias	NA
Organism	Oryza sativa
Position	chr2: 19913168-19914766 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0537900
Parent gene annotation	Similar to Vacuolar-type H+-translocating inorganic pyrophosphat ase (EC 3.6.1.1). (Os02t0537900-01)
Parent gene strand	-
Alternative splicing	NA
Support reads	1
Tissues	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	Os02t0537900-01:5

			
						 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  
						
							AAACAAAAGCATATGCTGTGATGATGCCCACCAAGCCACACAAGGCAAAATTGAGCCATGCAGA
AGGTGCTTGTTCAGTGTACAGGAGCCACCGGGTAGAgtatcaccagtaactgcagccttgtgag
actcactgcctttgccaccaagagcgccagtctcgatgtacttcttagcattatcccaggcacc
accagcag

									
								

					

						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: 1091
Transcript exons: 19913168-19913387,19913482-19913593,19913677-19913832,19
913913-19914077,19914329-19914766
GTATCACCAGTAACTGCAGCCTTGTGAGACTCACTGCCTTTGCCACCAAGAGCGCCAGTCTCGA
TGTACTTCTTAGCATTATCCCAGGCACCACCAGCAGTGTTCAAGAAGAGTGCCATGAGAATACC
AGAAACAGTTGCAAACATAAGCATAGCGGCTACAACTTTGGCTCCAAGAAGAGGCCGGCCAGTA
GCGTGACCCAACATACGGAAGATAATACCAACAGCCATGGGTGATATAATGGCTAAAGCCCCCG
GCCTTATCATTTCCCTCAAGGAAGCAGATGCCACAATTGCAACACAACGACCGTAATCAGGCTT
CTCGTTGTAGTCCATAATGCCAGGCCTCTCAATAAACTGTCTCCTGACCTCGTTAACAACTTCT
TGTGCAGTTCTGCCAACAGCAGAACAAGCCCATGCACTAAACAGGAATATAAGCATTGAACCAA
GTAAACCACCAACAAAAACCTCTGGGATTGCTATGTCAACCTCTTTGAATGGCAATTGTGCGAA
AGCAGCTACTTCATCCATATATGCACTGAACAGGAGAAAGGAAGCCAGTGCTGCTGACCCAATA
GCAAATCCCTTTGTAGTAGCTTTTGTTGTATTGCCCACAGCATCTAGAATGTCTGTGATTTCTC
TTACACTTTCAGGCTGCTGACTCATCTCCACAATACCACCAGCATTGTCAGCTATTGGACCAAA
CATGTCCATGGTGAGAACATATGCTGCTGTGCTAAGCATCCCCATTGTAGCTACAGCTGTCCCA
AAAAGACCACCAGTTGGGTTCCCAGATTCATCTACTAATCCAGATGTATGCCCCAACCAAAATG
CTGATATGATGGCTACACTTATCACTAGAACTGGTAACGCTGTTGATTCCAGTCCCAAGCTTAC
TCCAGCAATAATATTAGTTCCATGCCCTGTGGAACTTGAAAGAGCCAAAAGGCGGACAGGCTCA
TGTTTGTAATCTGTGTAATACTTAGAAATCCAAACAAAAGCATATGCTGTGATGATGCCCACCA
AGCCACACAAGGCAAAATTGAGCCATGCAGAAGGTGCTTGTTCAGTGTACAGGAGCCACCGGGT
AGA
						
					

						Genomic sequence
						
							GTATCACCAGTAACTGCAGCCTTGTGAGACTCACTGCCTTTGCCACCAAGAGCGCCAGTCTCGA
TGTACTTCTTAGCATTATCCCAGGCACCACCAGCAGTGTTCAAGAAGAGTGCCATGAGAATACC
AGAAACAGTTGCAAACATAAGCATAGCGGCTACAACTTTGGCTCCAAGAAGAGGCCGGCCAGTA
GCGTGACCCAACATACGGAAGATAATACCTGCAAACCATGATTGGTTTCCCCATTTTCAAAAAA
AAAAAAGTACCCAACGCTAGAACAAAAATGCAATAACCCCCATATCTATAGAACTTACCAACAG
CCATGGGTGATATAATGGCTAAAGCCCCCGGCCTTATCATTTCCCTCAAGGAAGCAGATGCCAC
AATTGCAACACAACGACCGTAATCAGGCTTCTCGTTGTAGTCCTGCATAACATTATATTAGAAG
TTAGCATTAACTTTTATAGGCATAAGAAAAATGACAAACTTAATTATATGCATGTACTCACCAT
AATGCCAGGCCTCTCAATAAACTGTCTCCTGACCTCGTTAACAACTTCTTGTGCAGTTCTGCCA
ACAGCAGAACAAGCCCATGCACTAAACAGGAATATAAGCATTGAACCAAGTAAACCACCAACAA
AAACCTCTGGGATTGCTATGTCAACCTGCAATCCATTACACAAGACCATTATATATGTTATAAG
CACAGAAAGTAAGTATTTTGCGTGTCTAAGTAATAAAATACCTCTTTGAATGGCAATTGTGCGA
AAGCAGCTACTTCATCCATATATGCACTGAACAGGAGAAAGGAAGCCAGTGCTGCTGACCCAAT
AGCAAATCCCTTTGTAGTAGCTTTTGTTGTATTGCCCACAGCATCTAGAATGTCTGTGATTTCT
CTTACACTTTCAGGCTGCACAGTTTGCTCAGTTAGATGGTTGGGAGAACACAGAGATTCAAATA
TCACATGTAAATACAGGCTACAACTACATGTTAAATTTTATTTAATAGAAGCTTCTTATGGCGG
AACAGTTTAGAGCAATTTGAAATTGCAAAGGAAAATGAGTAAAGCATATTAACAGAAACGGTAA
ATAAAAACCTACAGCAAAGACAAAATATTGGTTTGAACTGCTATATACATGGGAAAAAATACGA
GTGTATTACCTGCTGACTCATCTCCACAATACCACCAGCATTGTCAGCTATTGGACCAAACATG
TCCATGGTGAGAACATATGCTGCTGTGCTAAGCATCCCCATTGTAGCTACAGCTGTCCCAAAAA
GACCACCAGTTGGGTTCCCAGATTCATCTACTAATCCAGATGTATGCCCCAACCAAAATGCTGA
TATGATGGCTACACTTATCACTAGAACTGGTAACGCTGTTGATTCCAGTCCCAAGCTTACTCCA
GCAATAATATTAGTTCCATGCCCTGTGGAACTTGAAAGAGCCAAAAGGCGGACAGGCTCATGTT
TGTAATCTGTGTAATACTTAGAAATCCAAACAAAAGCATATGCTGTGATGATGCCCACCAAGCC
ACACAAGGCAAAATTGAGCCATGCAGAAGGTGCTTGTTCAGTGTACAGGAGCCACCGGGTAGA
						
					

			
		

Sequences
Splice junction sequence	AAACAAAAGCATATGCTGTGATGATGCCCACCAAGCCACACAAGGCAAAATTGAGCCATGCAGA AGGTGCTTGTTCAGTGTACAGGAGCCACCGGGTAGAgtatcaccagtaactgcagccttgtgag actcactgcctttgccaccaagagcgccagtctcgatgtacttcttagcattatcccaggcacc accagcag
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: 1091 Transcript exons: 19913168-19913387,19913482-19913593,19913677-19913832,19 913913-19914077,19914329-19914766 GTATCACCAGTAACTGCAGCCTTGTGAGACTCACTGCCTTTGCCACCAAGAGCGCCAGTCTCGA TGTACTTCTTAGCATTATCCCAGGCACCACCAGCAGTGTTCAAGAAGAGTGCCATGAGAATACC AGAAACAGTTGCAAACATAAGCATAGCGGCTACAACTTTGGCTCCAAGAAGAGGCCGGCCAGTA GCGTGACCCAACATACGGAAGATAATACCAACAGCCATGGGTGATATAATGGCTAAAGCCCCCG GCCTTATCATTTCCCTCAAGGAAGCAGATGCCACAATTGCAACACAACGACCGTAATCAGGCTT CTCGTTGTAGTCCATAATGCCAGGCCTCTCAATAAACTGTCTCCTGACCTCGTTAACAACTTCT TGTGCAGTTCTGCCAACAGCAGAACAAGCCCATGCACTAAACAGGAATATAAGCATTGAACCAA GTAAACCACCAACAAAAACCTCTGGGATTGCTATGTCAACCTCTTTGAATGGCAATTGTGCGAA AGCAGCTACTTCATCCATATATGCACTGAACAGGAGAAAGGAAGCCAGTGCTGCTGACCCAATA GCAAATCCCTTTGTAGTAGCTTTTGTTGTATTGCCCACAGCATCTAGAATGTCTGTGATTTCTC TTACACTTTCAGGCTGCTGACTCATCTCCACAATACCACCAGCATTGTCAGCTATTGGACCAAA CATGTCCATGGTGAGAACATATGCTGCTGTGCTAAGCATCCCCATTGTAGCTACAGCTGTCCCA AAAAGACCACCAGTTGGGTTCCCAGATTCATCTACTAATCCAGATGTATGCCCCAACCAAAATG CTGATATGATGGCTACACTTATCACTAGAACTGGTAACGCTGTTGATTCCAGTCCCAAGCTTAC TCCAGCAATAATATTAGTTCCATGCCCTGTGGAACTTGAAAGAGCCAAAAGGCGGACAGGCTCA TGTTTGTAATCTGTGTAATACTTAGAAATCCAAACAAAAGCATATGCTGTGATGATGCCCACCA AGCCACACAAGGCAAAATTGAGCCATGCAGAAGGTGCTTGTTCAGTGTACAGGAGCCACCGGGT AGA
Genomic sequence	GTATCACCAGTAACTGCAGCCTTGTGAGACTCACTGCCTTTGCCACCAAGAGCGCCAGTCTCGA TGTACTTCTTAGCATTATCCCAGGCACCACCAGCAGTGTTCAAGAAGAGTGCCATGAGAATACC AGAAACAGTTGCAAACATAAGCATAGCGGCTACAACTTTGGCTCCAAGAAGAGGCCGGCCAGTA GCGTGACCCAACATACGGAAGATAATACCTGCAAACCATGATTGGTTTCCCCATTTTCAAAAAA AAAAAAGTACCCAACGCTAGAACAAAAATGCAATAACCCCCATATCTATAGAACTTACCAACAG CCATGGGTGATATAATGGCTAAAGCCCCCGGCCTTATCATTTCCCTCAAGGAAGCAGATGCCAC AATTGCAACACAACGACCGTAATCAGGCTTCTCGTTGTAGTCCTGCATAACATTATATTAGAAG TTAGCATTAACTTTTATAGGCATAAGAAAAATGACAAACTTAATTATATGCATGTACTCACCAT AATGCCAGGCCTCTCAATAAACTGTCTCCTGACCTCGTTAACAACTTCTTGTGCAGTTCTGCCA ACAGCAGAACAAGCCCATGCACTAAACAGGAATATAAGCATTGAACCAAGTAAACCACCAACAA AAACCTCTGGGATTGCTATGTCAACCTGCAATCCATTACACAAGACCATTATATATGTTATAAG CACAGAAAGTAAGTATTTTGCGTGTCTAAGTAATAAAATACCTCTTTGAATGGCAATTGTGCGA AAGCAGCTACTTCATCCATATATGCACTGAACAGGAGAAAGGAAGCCAGTGCTGCTGACCCAAT AGCAAATCCCTTTGTAGTAGCTTTTGTTGTATTGCCCACAGCATCTAGAATGTCTGTGATTTCT CTTACACTTTCAGGCTGCACAGTTTGCTCAGTTAGATGGTTGGGAGAACACAGAGATTCAAATA TCACATGTAAATACAGGCTACAACTACATGTTAAATTTTATTTAATAGAAGCTTCTTATGGCGG AACAGTTTAGAGCAATTTGAAATTGCAAAGGAAAATGAGTAAAGCATATTAACAGAAACGGTAA ATAAAAACCTACAGCAAAGACAAAATATTGGTTTGAACTGCTATATACATGGGAAAAAATACGA GTGTATTACCTGCTGACTCATCTCCACAATACCACCAGCATTGTCAGCTATTGGACCAAACATG TCCATGGTGAGAACATATGCTGCTGTGCTAAGCATCCCCATTGTAGCTACAGCTGTCCCAAAAA GACCACCAGTTGGGTTCCCAGATTCATCTACTAATCCAGATGTATGCCCCAACCAAAATGCTGA TATGATGGCTACACTTATCACTAGAACTGGTAACGCTGTTGATTCCAGTCCCAAGCTTACTCCA GCAATAATATTAGTTCCATGCCCTGTGGAACTTGAAAGAGCCAAAAGGCGGACAGGCTCATGTT TGTAATCTGTGTAATACTTAGAAATCCAAACAAAAGCATATGCTGTGATGATGCCCACCAAGCC ACACAAGGCAAAATTGAGCCATGCAGAAGGTGCTTGTTCAGTGTACAGGAGCCACCGGGTAGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003987* 						
					
						PMCS
						0.392603627

Conservation Information
Conserved circRNAs	osi_circ_003987*
PMCS	0.392603627

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19914688-19913177(+)
19914636-19913191(+)
19914426-19914570(-)
19913248-19914743(-)
						
						Potential amino acid sequence
						
							MMPTKPHKAKLSHAEGACSVYRSHRVEYHQ*(+)
MFVICVILRNPNKSICCDDAHQATQGKIEPCRRCLFSVQEPPGRVSPVTAAL*(+)
MGMLSTAAYVLTMDMFGPIADNAGGIVEMSQQPESVREITDILDAVGNTTKATTKGFAIGSAAL
ASFLLFSAYMDEVAAFAQLPFKEVDIAIPEVFVGGLLGSMLIFLFSAWACSAVGRTAQEVVNEV
RRQFIERPGIMDYNEKPDYGRCVAIVASASLREMIRPGALAIISPMAVGIIFRMLGHATGRPLL
GAKVVAAMLMFATVSGILMALFLNTAGGAWDNAKKYIETGALGGKGSESHKAAVTGDTLPGGSC
TLNKHLLHGSILPCVAWWASSQHMLLFGFLSITQITNMSLSAFWLFQVPQGMELILLLE*(-)
MLRSTSRLALLVAKAVSLTRLQLLVILYPVAPVH*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19914688-19913177(+) 19914636-19913191(+) 19914426-19914570(-) 19913248-19914743(-)
Potential amino acid sequence	MMPTKPHKAKLSHAEGACSVYRSHRVEYHQ(+) MFVICVILRNPNKSICCDDAHQATQGKIEPCRRCLFSVQEPPGRVSPVTAAL(+) MGMLSTAAYVLTMDMFGPIADNAGGIVEMSQQPESVREITDILDAVGNTTKATTKGFAIGSAAL ASFLLFSAYMDEVAAFAQLPFKEVDIAIPEVFVGGLLGSMLIFLFSAWACSAVGRTAQEVVNEV RRQFIERPGIMDYNEKPDYGRCVAIVASASLREMIRPGALAIISPMAVGIIFRMLGHATGRPLL GAKVVAAMLMFATVSGILMALFLNTAGGAWDNAKKYIETGALGGKGSESHKAAVTGDTLPGGSC TLNKHLLHGSILPCVAWWASSQHMLLFGFLSITQITNMSLSAFWLFQVPQGMELILLLE(-) MLRSTSRLALLVAKAVSLTRLQLLVILYPVAPVH(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0537900_circ_g.3

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