Plant Circular RNA Database

Detail information of Os03g0307100_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0307100_circ_g.3
					
						ID in PlantcircBase
						osa_circ_019428
					
						Alias
						Os_ciR8450
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 10922046-10923296  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os03g0307100						
					
						Parent gene annotation
						
							Peptidase S9A, oligopeptidase, N-terminal beta-propeller domain 
containing protein. (Os03t0307100-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0307100_circ_g.4 Os03g0307100_circ_g.5 Os03g0307100_circ_g.6 Os03g0307100_circ_g.7 						
					
						Support reads
						2/20
					
						Tissues
						root/root, 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  
						
							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
						Os03t0307100-01:4

General Information
CircRNA Name	Os03g0307100_circ_g.3
ID in PlantcircBase	osa_circ_019428
Alias	Os_ciR8450
Organism	Oryza sativa
Position	chr3: 10922046-10923296 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	Os03g0307100
Parent gene annotation	Peptidase S9A, oligopeptidase, N-terminal beta-propeller domain containing protein. (Os03t0307100-01)
Parent gene strand	+
Alternative splicing	Os03g0307100_circ_g.4 Os03g0307100_circ_g.5 Os03g0307100_circ_g.6 Os03g0307100_circ_g.7
Support reads	2/20
Tissues	root/root, 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	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	Os03t0307100-01:4

			
						 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  
						
							ATGGTATTTATTATTTTAGTATTGCAAACTACCTTGTAGGTACGTGGAGCAGCTAGTAACTAGT
GCTGAGGCTGCAGCTGAGGAAGTTGTTAGGAGAGGGagggacctcttggtgtgatgaatctctt
gcattagtgtatgaatcttggtacaaaacacggaaaacaagaacatgggttatctccccagata
aaaaagat

									
								

					

						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: 883
Transcript exons: 10922046-10922342,10922434-10922892,10923063-10923128,10
923236-10923296
AGGGACCTCTTGGTGTGATGAATCTCTTGCATTAGTGTATGAATCTTGGTACAAAACACGGAAA
ACAAGAACATGGGTTATCTCCCCAGATAAAAAAGATGTCAGTCCACGCATCTTATTCGATAGAT
CTTCTGAAGATGTATATTCTGATCCTGGCTCACCAATGCTACGAAGAACTGCCATGGGGACATA
TGTTATTGCAAAAGTTAAGAAGCAAGATGAAAATACCTACATCTTGCTGAATGGGATGGGTGCC
ACACCAGAAGGAAATGTTCCGTTCCTTGATTTGTTTGATATAAATACTGGAAGTAAAGAGAGGA
TATGGCAAAGTGACAAGGAAAAGTACTATGAAACTGTTGTTGCACTTATGTCGGACAAAACTGA
TGGGGAACTGCCACTTGAGAAGTTAAAGATACTTACATCAAAAGAATCAAAAACAGAAAACACA
CAGTATTACCTGCAAATTTGGCCAGAAAAGAAGCAAGTTCAGATCACAGATTTTCCCCATCCAT
ATCCTCAGCTTGCTTCATTGTATAAGGAGATGATAAGATACCAACGGAAGGATGGGGTTCAACT
AACAGCTACATTGTACCTGCCCCCAGGCTATGATCCTTCACAGGATGGACCTTTGCCATGTTTA
GTTTGGTCCTACCCTGGTGAGTTTAAAAGCAAGGATGCTGCTGGACAAGTGCGTGGCTCACCTA
ATGAGTTTCCAGGGATTGGTGCTACATCCCCACTGCTTTGGTTGGCTAGAGGGTTTGCTATTTT
ATCAGGTCCAACCATCCCGATTATTGGAGAAGGCGATGAAGAGGCCAATGACAGGTACGTGGAG
CAGCTAGTAACTAGTGCTGAGGCTGCAGCTGAGGAAGTTGTTAGGAGAGGG
						
					

						Genomic sequence
						
							AGGGACCTCTTGGTGTGATGAATCTCTTGCATTAGTGTATGAATCTTGGTACAAAACACGGAAA
ACAAGAACATGGGTTATCTCCCCAGATAAAAAAGATGTCAGTCCACGCATCTTATTCGATAGAT
CTTCTGAAGATGTATATTCTGATCCTGGCTCACCAATGCTACGAAGAACTGCCATGGGGACATA
TGTTATTGCAAAAGTTAAGAAGCAAGATGAAAATACCTACATCTTGCTGAATGGGATGGGTGCC
ACACCAGAAGGAAATGTTCCGTTCCTTGATTTGTTTGATATGTATGTCTATATCCATCAATAGT
TATATGCCTTATAAGTATATGTTTGAACAATATGTGCCCGATCCTAGTTGACACCTTTGTTATT
GCAGAAATACTGGAAGTAAAGAGAGGATATGGCAAAGTGACAAGGAAAAGTACTATGAAACTGT
TGTTGCACTTATGTCGGACAAAACTGATGGGGAACTGCCACTTGAGAAGTTAAAGATACTTACA
TCAAAAGAATCAAAAACAGAAAACACACAGTATTACCTGCAAATTTGGCCAGAAAAGAAGCAAG
TTCAGATCACAGATTTTCCCCATCCATATCCTCAGCTTGCTTCATTGTATAAGGAGATGATAAG
ATACCAACGGAAGGATGGGGTTCAACTAACAGCTACATTGTACCTGCCCCCAGGCTATGATCCT
TCACAGGATGGACCTTTGCCATGTTTAGTTTGGTCCTACCCTGGTGAGTTTAAAAGCAAGGATG
CTGCTGGACAAGTGCGTGGCTCACCTAATGAGTTTCCAGGGATTGGTGCTACATCCCCACTGCT
TTGGTTGGCTAGAGGGTATTATTTTTCGTTCTATTCAAGAATATGCATACCACATTTCCTACTG
CTGTTTCTCAAGGACAACATCTTCTTCTCACCTTCAAATTGTTGATGCATTTATCACAAAATTA
TTATTTTTTGTTTCTGTTGCGTGTTGTCACTTAACAAGTCATCACTTCCGTTGCCAGGTTTGCT
ATTTTATCAGGTCCAACCATCCCGATTATTGGAGAAGGCGATGAAGAGGCCAATGACAGGTTTG
TTTTTTATACTTAACTCCATTCTTTTGTGGTTAGAAACTTCCAATCTATGCTACAGTTGTACCA
TGGTATTTATTATTTTAGTATTGCAAACTACCTTGTAGGTACGTGGAGCAGCTAGTAACTAGTG
CTGAGGCTGCAGCTGAGGAAGTTGTTAGGAGAGGG
						
					

			
		

Sequences
Splice junction sequence	ATGGTATTTATTATTTTAGTATTGCAAACTACCTTGTAGGTACGTGGAGCAGCTAGTAACTAGT GCTGAGGCTGCAGCTGAGGAAGTTGTTAGGAGAGGGagggacctcttggtgtgatgaatctctt gcattagtgtatgaatcttggtacaaaacacggaaaacaagaacatgggttatctccccagata aaaaagat
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: 883 Transcript exons: 10922046-10922342,10922434-10922892,10923063-10923128,10 923236-10923296 AGGGACCTCTTGGTGTGATGAATCTCTTGCATTAGTGTATGAATCTTGGTACAAAACACGGAAA ACAAGAACATGGGTTATCTCCCCAGATAAAAAAGATGTCAGTCCACGCATCTTATTCGATAGAT CTTCTGAAGATGTATATTCTGATCCTGGCTCACCAATGCTACGAAGAACTGCCATGGGGACATA TGTTATTGCAAAAGTTAAGAAGCAAGATGAAAATACCTACATCTTGCTGAATGGGATGGGTGCC ACACCAGAAGGAAATGTTCCGTTCCTTGATTTGTTTGATATAAATACTGGAAGTAAAGAGAGGA TATGGCAAAGTGACAAGGAAAAGTACTATGAAACTGTTGTTGCACTTATGTCGGACAAAACTGA TGGGGAACTGCCACTTGAGAAGTTAAAGATACTTACATCAAAAGAATCAAAAACAGAAAACACA CAGTATTACCTGCAAATTTGGCCAGAAAAGAAGCAAGTTCAGATCACAGATTTTCCCCATCCAT ATCCTCAGCTTGCTTCATTGTATAAGGAGATGATAAGATACCAACGGAAGGATGGGGTTCAACT AACAGCTACATTGTACCTGCCCCCAGGCTATGATCCTTCACAGGATGGACCTTTGCCATGTTTA GTTTGGTCCTACCCTGGTGAGTTTAAAAGCAAGGATGCTGCTGGACAAGTGCGTGGCTCACCTA ATGAGTTTCCAGGGATTGGTGCTACATCCCCACTGCTTTGGTTGGCTAGAGGGTTTGCTATTTT ATCAGGTCCAACCATCCCGATTATTGGAGAAGGCGATGAAGAGGCCAATGACAGGTACGTGGAG CAGCTAGTAACTAGTGCTGAGGCTGCAGCTGAGGAAGTTGTTAGGAGAGGG
Genomic sequence	AGGGACCTCTTGGTGTGATGAATCTCTTGCATTAGTGTATGAATCTTGGTACAAAACACGGAAA ACAAGAACATGGGTTATCTCCCCAGATAAAAAAGATGTCAGTCCACGCATCTTATTCGATAGAT CTTCTGAAGATGTATATTCTGATCCTGGCTCACCAATGCTACGAAGAACTGCCATGGGGACATA TGTTATTGCAAAAGTTAAGAAGCAAGATGAAAATACCTACATCTTGCTGAATGGGATGGGTGCC ACACCAGAAGGAAATGTTCCGTTCCTTGATTTGTTTGATATGTATGTCTATATCCATCAATAGT TATATGCCTTATAAGTATATGTTTGAACAATATGTGCCCGATCCTAGTTGACACCTTTGTTATT GCAGAAATACTGGAAGTAAAGAGAGGATATGGCAAAGTGACAAGGAAAAGTACTATGAAACTGT TGTTGCACTTATGTCGGACAAAACTGATGGGGAACTGCCACTTGAGAAGTTAAAGATACTTACA TCAAAAGAATCAAAAACAGAAAACACACAGTATTACCTGCAAATTTGGCCAGAAAAGAAGCAAG TTCAGATCACAGATTTTCCCCATCCATATCCTCAGCTTGCTTCATTGTATAAGGAGATGATAAG ATACCAACGGAAGGATGGGGTTCAACTAACAGCTACATTGTACCTGCCCCCAGGCTATGATCCT TCACAGGATGGACCTTTGCCATGTTTAGTTTGGTCCTACCCTGGTGAGTTTAAAAGCAAGGATG CTGCTGGACAAGTGCGTGGCTCACCTAATGAGTTTCCAGGGATTGGTGCTACATCCCCACTGCT TTGGTTGGCTAGAGGGTATTATTTTTCGTTCTATTCAAGAATATGCATACCACATTTCCTACTG CTGTTTCTCAAGGACAACATCTTCTTCTCACCTTCAAATTGTTGATGCATTTATCACAAAATTA TTATTTTTTGTTTCTGTTGCGTGTTGTCACTTAACAAGTCATCACTTCCGTTGCCAGGTTTGCT ATTTTATCAGGTCCAACCATCCCGATTATTGGAGAAGGCGATGAAGAGGCCAATGACAGGTTTG TTTTTTATACTTAACTCCATTCTTTTGTGGTTAGAAACTTCCAATCTATGCTACAGTTGTACCA TGGTATTTATTATTTTAGTATTGCAAACTACCTTGTAGGTACGTGGAGCAGCTAGTAACTAGTG CTGAGGCTGCAGCTGAGGAAGTTGTTAGGAGAGGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.300002265

Conservation Information
Conserved circRNAs	NA
PMCS	0.300002265

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10922210-10922060(+)
10922230-10923251(-)
10922121-10922787(-)
						
						Potential amino acid sequence
						
							MLRRTAMGTYVIAKVKKQDENTYILLNGMGATPEGNVPFLDLFDINTGSKERIWQSDKEKYYET
VVALMSDKTDGELPLEKLKILTSKESKTENTQYYLQIWPEKKQVQITDFPHPYPQLASLYKEMI
RYQRKDGVQLTATLYLPPGYDPSQDGPLPCLVWSYPGEFKSKDAAGQVRGSPNEFPGIGATSPL
LWLARGFAILSGPTIPIIGEGDEEANDRYVEQLVTSAEAAAEEVVRRGRDLLV*(+)
MAVLRSIGEPGSEYTSSEDLSNKMRGLTSFLSGEITHVLVFRVLYQDSYTNARDSSHQEVPPSP
NNFLSCSLSTSY*(-)
MFLFSVFCTKIHTLMQEIHHTKRSLPLLTTSSAAASALVTSCSTYLSLASSSPSPIIGMVGPDK
IANPLANQSSGDVAPIPGNSLGEPRTCPAASLLLNSPG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10922210-10922060(+) 10922230-10923251(-) 10922121-10922787(-)
Potential amino acid sequence	MLRRTAMGTYVIAKVKKQDENTYILLNGMGATPEGNVPFLDLFDINTGSKERIWQSDKEKYYET VVALMSDKTDGELPLEKLKILTSKESKTENTQYYLQIWPEKKQVQITDFPHPYPQLASLYKEMI RYQRKDGVQLTATLYLPPGYDPSQDGPLPCLVWSYPGEFKSKDAAGQVRGSPNEFPGIGATSPL LWLARGFAILSGPTIPIIGEGDEEANDRYVEQLVTSAEAAAEEVVRRGRDLLV(+) MAVLRSIGEPGSEYTSSEDLSNKMRGLTSFLSGEITHVLVFRVLYQDSYTNARDSSHQEVPPSP NNFLSCSLSTSY(-) MFLFSVFCTKIHTLMQEIHHTKRSLPLLTTSSAAASALVTSCSTYLSLASSSPSPIIGMVGPDK IANPLANQSSGDVAPIPGNSLGEPRTCPAASLLLNSPG*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os03g0307100_circ_g.3

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