Plant Circular RNA Database

Detail information of BGIOSGA004755_circ_g.2

			
						 General Information
					
						CircRNA Name
						BGIOSGA004755_circ_g.2
					
						ID in PlantcircBase
						osi_circ_002519
					
						Alias
						1:39281397|39286426
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr1: 39281397-39286426  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA004755						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							BGIOSGA004755_circ_g.1 BGIOSGA004755_circ_g.3 BGIOSGA004755_circ_g.4 BGIOSGA004755_circ_g.5 BGIOSGA004755_circ_g.6 BGIOSGA004755_circ_g.7 BGIOSGA004755_circ_igg.1 						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						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
						BGIOSGA004755-TA:7

General Information
CircRNA Name	BGIOSGA004755_circ_g.2
ID in PlantcircBase	osi_circ_002519
Alias	1:39281397\|39286426
Organism	Oryza sativa ssp. indica
Position	chr1: 39281397-39286426 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA004755
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	BGIOSGA004755_circ_g.1 BGIOSGA004755_circ_g.3 BGIOSGA004755_circ_g.4 BGIOSGA004755_circ_g.5 BGIOSGA004755_circ_g.6 BGIOSGA004755_circ_g.7 BGIOSGA004755_circ_igg.1
Support reads	NA
Tissues	leaf
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	BGIOSGA004755-TA:7

			
						 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  
						
							TGAAACATCTCAGAAGAATTATCTGTATAAATGTGACCAACTAAAATCAATTCGGCAAGATCTT
ACTGTTCAGAGGATTCAGAACGAGCTGACTGTCATGggcacaggcatggagcagccaagtccat
ctccatatcaaccttcagcttctgatcatcatttgtggtcttcttcgactggtgctccctggaa
ctattcaa

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TGAAACATCTCAGAAGAATTATCTGTATAAATGTGACCAACTAAAATCAATTCGGCAAGATCTT ACTGTTCAGAGGATTCAGAACGAGCTGACTGTCATGggcacaggcatggagcagccaagtccat ctccatatcaaccttcagcttctgatcatcatttgtggtcttcttcgactggtgctccctggaa ctattcaa
Assembled circRNA sequence	NA 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	NA
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							39281407-39286423(+)
						
					

						Potential amino acid sequence
						
							MEQPSPSPYQPSASDHHLWSSSTGAPWNYSMNNSNQNTVYYDPQRDVSVPGSTENVTSGATHVV
QSAMGITGATDSYAPYSNSVQPGYNAPQYPNYYYNCPQSTNESSVQQGVDQSSGAAYQPLTSFQ
NSGSYVGPTSNTYYNAGAHQTAPGYATSNNYYQSNSWTGGSSGDNHVQSYQSYTPSDTNAAQSS
SSLPNNSYHYHQQYNQWPYYYDQSAPSSGGPAVAVSSVSDANTASVSSGYVYPSTQPPPPGTTW
RSDAGATAVPPPQAPGTPVFQNQHVNQAAGPPGYQNQYVNQAPGTPGFQNQYVNQAPAVPGFQN
QYANLAPTYQPGTTYYSQLPLSNQADQQKASRWQDPISNVSSVNHVSESSQPTFQGSATSDALR
VNKIQIPTNPRIAPTLPMAMPKVEKRNLEADSSKKPAYVSVAVQKNDVKAAQDGHEAVTQGSLP
VSLRTYVGRNVSRCKDDAQRSAVQNILKEIITKATADGILHTKNWDIEPLVPLPENITSTNLTS
SAKDLSPFSFSTSRRSPSRRAKSRWEPVVEEKVANKVELISKESAKTNTYNSSETTKRAGRSWD
IGKFLQSRQAPLSQYNQRPSKKKRIGGNSSLTENGNVSSDSDKEQDLTKYYANAITIANSPEEK
KRREHRSKRFERSQGAASSKSRSSVPDKDGTSNTYARRSMPMLLSRSNGDDVSFAVEDLDWDAL
TVKGTCQEIEKRYLRLTSAPDPATVRPEDVLEKALHMVETSQKNYLYKCDQLKSIRQDLTVQRI
QNELTVMGTGMEQPSPSPYQPSASDHHLWSSSTGAPWNYSMNNSNQNTVYYDPQRDVSVPGSTE
NVTSGATHVVQSAMGITGATDSYAPYSNSVQPGYNAPQYPNYYYNCPQSTNESSVQQGVDQSSG
AAYQPLTSFQNSGSYVGPTSNTYYNAGAHQTAPGYATSNNYYQSNSWTGGSSGDNHVQSYQSYT
PSDTNAAQSSSSLPNNSYHYHQQYNQWPYYYDQSAPSSGGPAVAVSSVSDANTASVSSGYVYPS
TQPPPPGTTWRSDAGATAVPPPQAPGTPVFQNQHVNQAAGPPGYQNQYVNQAPGTPGFQNQYVN
QAPAVPGFQNQYANLAPTYQPGTTYYSQLPLSNQADQQKASRWQDPISNVSSVNHVSESSQPTF
QGSATSDALRVNKIQIPTNPRIAPTLPMAMPKVEKRNLEADSSKKPAYVSVAVQKNDVKAAQDG
HEAVTQGSLPVSLRTYVGRNVSRCKDDAQRSAVQNILKEIITKATADGILHTKNWDIEPLVPLP
ENITSTNLTSSAKDLSPFSFSTSRRSPSRRAKSRWEPVVEEKVANKVELISKESAKTNTYNSSE
TTKRAGRSWDIGKFLQSRQAPLSQYNQRPSKKKRIGGNSSLTENGNVSSDSDKEQDLTKYYANA
ITIANSPEEKKRREHRSKRFERSQGAASSKSRSSVPDKDGTSNTYARRSMPMLLSRSNGDDVSF
AVEDLDWDALTVKGTCQEIEKRYLRLTSAPDPATVRPEDVLEKALHMVETSQKNYLYKCDQLKS
IRQDLTVQRIQNELTVMGTGMEQPSPSPYQPSASDHHLWSSSTGAPWNYSMNNSNQNTVYYDPQ
RDVSVPGSTENVTSGATHVVQSAMGITGATDSYAPYSNSVQPGYNAPQYPNYYYNCPQSTNESS
VQQGVDQSSGAAYQPLTSFQNSGSYVGPTSNTYYNAGAHQTAPGYATSNNYYQSNSWTGGSSGD
NHVQSYQSYTPSDTNAAQSSSSLPNNSYHYHQQYNQWPYYYDQSAPSSGGPAVAVSSVSDANTA
SVSSGYVYPSTQPPPPGTTWRSDAGATAVPPPQAPGTPVFQNQHVNQAAGPPGYQNQYVNQAPG
TPGFQNQYVNQAPAVPGFQNQYANLAPTYQPGTTYYSQLPLSNQADQQKASRWQDPISNVSSVN
HVSESSQPTFQGSATSDALRVNKIQIPTNPRIAPTLPMAMPKVEKRNLEADSSKKPAYVSVAVQ
KNDVKAAQDGHEAVTQGSLPVSLRTYVGRNVSRCKDDAQRSAVQNILKEIITKATADGILHTKN
WDIEPLVPLPENITSTNLTSSAKDLSPFSFSTSRRSPSRRAKSRWEPVVEEKVANKVELISKES
AKTNTYNSSETTKRAGRSWDIGKFLQSRQAPLSQYNQRPSKKKRIGGNSSLTENGNVSSDSDKE
QDLTKYYANAITIANSPEEKKRREHRSKRFERSQGAASSKSRSSVPDKDGTSNTYARRSMPMLL
SRSNGDDVSFAVEDLDWDALTVKGTCQEIEKRYLRLTSAPDPATVRPEDVLEKALHMVETSQKN
YLYKCDQLKSIRQDLTVQRIQNELTVMGTGMEQPSPSPYQPSASDHHLWSSSTGAPWNYSMNNS
NQNTVYYDPQRDVSVPGSTENVTSGATHVVQSAMGITGATDSYAPYSNSVQPGYNAPQYPNYYY
NCPQSTNESSVQQGVDQSSGAAYQPLTSFQNSGSYVGPTSNTYYNAGAHQTAPGYATSNNYYQS
NSWTGGSSGDNHVQSYQSYTPSDTNAAQSSSSLPNNSYHYHQQYNQWPYYYDQSAPSSGGPAVA
VSSVSDANTASVSSGYVYPSTQPPPPGTTWRSDAGATAVPPPQAPGTPVFQNQHVNQAAGPPGY
QNQYVNQAPGTPGFQNQYVNQAPAVPGFQNQYANLAPTYQPGTTYYSQLPLSNQADQQKASRWQ
DPISNVSSVNHVSESSQPTFQGSATSDALRVNKIQIPTNPRIAPTLPMAMPKVEKRNLEADSSK
KPAYVSVAVQKNDVKAAQDGHEAVTQGSLPVSLRTYVGRNVSRCKDDAQRSAVQNILKEIITKA
TADGILHTKNWDIEPLVPLPENITSTNLTSSAKDLSPFSFSTSRRSPSRRAKSRWEPVVEEKVA
NKVELISKESAKTNTYNSSETTKRAGRSWDIGKFLQSRQAPLSQYNQRPSKKKRIGGNSSLTEN
GNVSSDSDKEQDLTKYYANAITIANSPEEKKRREHRSKRFERSQGAASSKSRSSVPDKDGTSNT
YARRSMPMLLSRSNGDDVSFAVEDLDWDALTVKGTCQEIEKRYLRLTSAPDPATVRPEDVLEKA
LHMVETSQKNYLYKCDQLKSIRQDLTVQRIQNELTVM(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	39281407-39286423(+)
Potential amino acid sequence	MEQPSPSPYQPSASDHHLWSSSTGAPWNYSMNNSNQNTVYYDPQRDVSVPGSTENVTSGATHVV QSAMGITGATDSYAPYSNSVQPGYNAPQYPNYYYNCPQSTNESSVQQGVDQSSGAAYQPLTSFQ NSGSYVGPTSNTYYNAGAHQTAPGYATSNNYYQSNSWTGGSSGDNHVQSYQSYTPSDTNAAQSS SSLPNNSYHYHQQYNQWPYYYDQSAPSSGGPAVAVSSVSDANTASVSSGYVYPSTQPPPPGTTW RSDAGATAVPPPQAPGTPVFQNQHVNQAAGPPGYQNQYVNQAPGTPGFQNQYVNQAPAVPGFQN QYANLAPTYQPGTTYYSQLPLSNQADQQKASRWQDPISNVSSVNHVSESSQPTFQGSATSDALR VNKIQIPTNPRIAPTLPMAMPKVEKRNLEADSSKKPAYVSVAVQKNDVKAAQDGHEAVTQGSLP VSLRTYVGRNVSRCKDDAQRSAVQNILKEIITKATADGILHTKNWDIEPLVPLPENITSTNLTS SAKDLSPFSFSTSRRSPSRRAKSRWEPVVEEKVANKVELISKESAKTNTYNSSETTKRAGRSWD IGKFLQSRQAPLSQYNQRPSKKKRIGGNSSLTENGNVSSDSDKEQDLTKYYANAITIANSPEEK KRREHRSKRFERSQGAASSKSRSSVPDKDGTSNTYARRSMPMLLSRSNGDDVSFAVEDLDWDAL TVKGTCQEIEKRYLRLTSAPDPATVRPEDVLEKALHMVETSQKNYLYKCDQLKSIRQDLTVQRI QNELTVMGTGMEQPSPSPYQPSASDHHLWSSSTGAPWNYSMNNSNQNTVYYDPQRDVSVPGSTE NVTSGATHVVQSAMGITGATDSYAPYSNSVQPGYNAPQYPNYYYNCPQSTNESSVQQGVDQSSG AAYQPLTSFQNSGSYVGPTSNTYYNAGAHQTAPGYATSNNYYQSNSWTGGSSGDNHVQSYQSYT PSDTNAAQSSSSLPNNSYHYHQQYNQWPYYYDQSAPSSGGPAVAVSSVSDANTASVSSGYVYPS TQPPPPGTTWRSDAGATAVPPPQAPGTPVFQNQHVNQAAGPPGYQNQYVNQAPGTPGFQNQYVN QAPAVPGFQNQYANLAPTYQPGTTYYSQLPLSNQADQQKASRWQDPISNVSSVNHVSESSQPTF QGSATSDALRVNKIQIPTNPRIAPTLPMAMPKVEKRNLEADSSKKPAYVSVAVQKNDVKAAQDG HEAVTQGSLPVSLRTYVGRNVSRCKDDAQRSAVQNILKEIITKATADGILHTKNWDIEPLVPLP ENITSTNLTSSAKDLSPFSFSTSRRSPSRRAKSRWEPVVEEKVANKVELISKESAKTNTYNSSE TTKRAGRSWDIGKFLQSRQAPLSQYNQRPSKKKRIGGNSSLTENGNVSSDSDKEQDLTKYYANA ITIANSPEEKKRREHRSKRFERSQGAASSKSRSSVPDKDGTSNTYARRSMPMLLSRSNGDDVSF AVEDLDWDALTVKGTCQEIEKRYLRLTSAPDPATVRPEDVLEKALHMVETSQKNYLYKCDQLKS IRQDLTVQRIQNELTVMGTGMEQPSPSPYQPSASDHHLWSSSTGAPWNYSMNNSNQNTVYYDPQ RDVSVPGSTENVTSGATHVVQSAMGITGATDSYAPYSNSVQPGYNAPQYPNYYYNCPQSTNESS VQQGVDQSSGAAYQPLTSFQNSGSYVGPTSNTYYNAGAHQTAPGYATSNNYYQSNSWTGGSSGD NHVQSYQSYTPSDTNAAQSSSSLPNNSYHYHQQYNQWPYYYDQSAPSSGGPAVAVSSVSDANTA SVSSGYVYPSTQPPPPGTTWRSDAGATAVPPPQAPGTPVFQNQHVNQAAGPPGYQNQYVNQAPG TPGFQNQYVNQAPAVPGFQNQYANLAPTYQPGTTYYSQLPLSNQADQQKASRWQDPISNVSSVN HVSESSQPTFQGSATSDALRVNKIQIPTNPRIAPTLPMAMPKVEKRNLEADSSKKPAYVSVAVQ KNDVKAAQDGHEAVTQGSLPVSLRTYVGRNVSRCKDDAQRSAVQNILKEIITKATADGILHTKN WDIEPLVPLPENITSTNLTSSAKDLSPFSFSTSRRSPSRRAKSRWEPVVEEKVANKVELISKES AKTNTYNSSETTKRAGRSWDIGKFLQSRQAPLSQYNQRPSKKKRIGGNSSLTENGNVSSDSDKE QDLTKYYANAITIANSPEEKKRREHRSKRFERSQGAASSKSRSSVPDKDGTSNTYARRSMPMLL SRSNGDDVSFAVEDLDWDALTVKGTCQEIEKRYLRLTSAPDPATVRPEDVLEKALHMVETSQKN YLYKCDQLKSIRQDLTVQRIQNELTVMGTGMEQPSPSPYQPSASDHHLWSSSTGAPWNYSMNNS NQNTVYYDPQRDVSVPGSTENVTSGATHVVQSAMGITGATDSYAPYSNSVQPGYNAPQYPNYYY NCPQSTNESSVQQGVDQSSGAAYQPLTSFQNSGSYVGPTSNTYYNAGAHQTAPGYATSNNYYQS NSWTGGSSGDNHVQSYQSYTPSDTNAAQSSSSLPNNSYHYHQQYNQWPYYYDQSAPSSGGPAVA VSSVSDANTASVSSGYVYPSTQPPPPGTTWRSDAGATAVPPPQAPGTPVFQNQHVNQAAGPPGY QNQYVNQAPGTPGFQNQYVNQAPAVPGFQNQYANLAPTYQPGTTYYSQLPLSNQADQQKASRWQ DPISNVSSVNHVSESSQPTFQGSATSDALRVNKIQIPTNPRIAPTLPMAMPKVEKRNLEADSSK KPAYVSVAVQKNDVKAAQDGHEAVTQGSLPVSLRTYVGRNVSRCKDDAQRSAVQNILKEIITKA TADGILHTKNWDIEPLVPLPENITSTNLTSSAKDLSPFSFSTSRRSPSRRAKSRWEPVVEEKVA NKVELISKESAKTNTYNSSETTKRAGRSWDIGKFLQSRQAPLSQYNQRPSKKKRIGGNSSLTEN GNVSSDSDKEQDLTKYYANAITIANSPEEKKRREHRSKRFERSQGAASSKSRSSVPDKDGTSNT YARRSMPMLLSRSNGDDVSFAVEDLDWDALTVKGTCQEIEKRYLRLTSAPDPATVRPEDVLEKA LHMVETSQKNYLYKCDQLKSIRQDLTVQRIQNELTVM(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA004755_circ_g.2

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