Plant Circular RNA Database

Detail information of Os09g0437900_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os09g0437900_circ_g.3
					
						ID in PlantcircBase
						osa_circ_039312
					
						Alias
						Os_ciR11820
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 16172247-16175285  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os09g0437900						
					
						Parent gene annotation
						
							Similar to Adrenodoxin. (Os09t0437900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os09g0437900_circ_g.2 						
					
						Support reads
						2
					
						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  
						
							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
						Os09t0437900-01:4

General Information
CircRNA Name	Os09g0437900_circ_g.3
ID in PlantcircBase	osa_circ_039312
Alias	Os_ciR11820
Organism	Oryza sativa
Position	chr9: 16172247-16175285 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os09g0437900
Parent gene annotation	Similar to Adrenodoxin. (Os09t0437900-01)
Parent gene strand	+
Alternative splicing	Os09g0437900_circ_g.2
Support reads	2
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	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	Os09t0437900-01:4

			
						 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  
						
							AAGAAAGTTCTCTTCAGGATGTTGACTACTACAACAAATTGGAAGATCCTGTGGATGAGGAGAA
CGATATGCTGGACCTTGCATTTGGGCTTACAGAGACgggaagactttcttctgttcgaacacaa
atgctacatccagtgataggagcagcgagtcagaagctaagtaagttgtattaagtattaactc
tgtgggct

									
								

					

						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
						
							GGGAAGACTTTCTTCTGTTCGAACACAAATGCTACATCCAGTGATAGGAGCAGCGAGTCAGAAG
CTAAGTAAGTTGTATTAAGTATTAACTCTGTGGGCTTGACCAGTGTAACTCGTTATCCATTTTA
AGCTAGGCCCCATTCTTTTCAACTAATTCACAGGATTATTTCTGCAGATTATTTGCTCCATGCC
TCTAAAAATATGTTTTCTCAAAAATATTTCTTCTACTGTGTGCCTAGACCACATGTTCTAAGCT
ATTTGTTAAGTTTATTTCTTGAAATATTTTAATTTATCCCTATAATCAAGTGGATAATCCAAGA
CAATAATGCAGTTAATAATCTGTTTCAAATGGGCCCTAAGGGTGTGTTAATTTCAATGTTTCAG
CCAATTAACCGGGTTTCTTACCTGACAAGACACTCAATTAGATCATGATTAATTAATTAAGTAT
TAGCTATTATAAATTTGAAAAATATATTTATTTTAGATTTGTAGAAACTTCTAAATATTTTTTT
TTTCAAAAATCACACTGTTTAGCAGCTTGGGAACCGTGCCAACGATAATCTAGTAGCTAGTAGC
CAAAAAGAAATGAGCCTAAGTTAGATATATATCTAGGTTTGTGACAAAAAAGTTTGATATGCTA
TTTGTAGATTACTTTCTGGAACACAAATTTACTCTGGTGATGTCTGTAAATCTGGTAATTAACA
TGAACGGCATTCATGTTTATGAAGCTTTTGGGCCTTTGGGAATGCTTTTGGTTTGGAAGTTGGC
AAACTTCAGATAAAACTTCTCCAAGATGAATAGTTAAGTACCACTCAAGAATAGGAGGCACTTA
AAAACATTCCATTATCATTCAACTCTTTTAGTTTAGGGGCAATTTCGTTCTTTCCCCTACTTTG
ATGTCCAATATTGATTTTGCCCATGTTTTTAGGGTTTTCGTTTTTGCCCCTACGTTTTTGAAAC
GAAACAGCCATTTGCCCCTGTTCCGTTAGTTCTTGCTAATGGTGTTAAATGTGGGGTAAAAAGG
ACCAAGTATACCCTTAGATATTTCCGGTACTTTTGTACACCACTTTCAAATTTGATCCAAATCT
TGGCAAACTTTCACAAATTGTTGACAAATTAAATTACTGATAGAGTATTGCATCAATAGATTTG
TATTTTGATTATGTCAAAAGTACGGGAAAATATCTAAGGGTATACTTGTCTTTTTAACCCCCCC
CTCCAAACACACACACACATTTAACACCGTTAGGAAGAATTAACGGAACAGGGGCAAACGGTTG
TTTCGTTTCAAAAAAGTAGGGGTAAAAACGAAAACCCTAAAAAACAGGGGCAAAATCAATATTG
GACATCAAAGTAGGGGCAAGAACGAAATTGTATAATCAATGGTAGTTTACTAGTTTAGTTAACT
AGCCTTGGTCTTGTATTATCAGATCTCTTTAGAGGTAGAGCTTGTATAATTCTGCCCTTCTGCA
CATGAGTATCATCTTTGTCTATATTGGAGTTATGCAATTCTACTTTCTGTGTGTTGTCATAGAG
GCAACTATTAGGGAGCAAAGAGAGTAGAAGAATGAGATGTTAAACATTATATGGGGGCTCAATT
AGAAATATAAATAGGTGGGATTAACGGAATAAAACGGGTAATTGGGAGGCCCATATGGGTTTCC
TGCTCCAAAATTGTTTCTCAAGTTCTTACATGATGCAGCATTGGTCAACCTAGAAGCCATCATC
TTGCCTGGGTGATTCTACCACTTCCATTGGACTTGACATGGTTATGGGATTTCTCTGTATGATT
TTCATGTTTACATATGCTGTCAACCTCAAAATGTGCTTAGCCTTGGTAATCGTCTCCTTTGATG
CCCATCTTCCCGCAAGTTTTTTTTTTCTTTTCTCCTTTTATTTTGAAGCCAACTTTCCTCCAAA
GATGCAGAGTGTGTTCACTTCATATTATTCTGAATATGAGTGTGGTTCATCCTCACTGAATAAT
GCAATTACTCTTACTCCATGCAACTGTGAATGTATGCTGTCTAAGTATAGATTGTGCTGTTGAC
CTTTTGAACACCAGCAAGGCCATTATGAGTGTCTATTCCATATCATGTATGGAATTTATCCTGA
AGCTTGTGTCACAAACTTAATTTAGGTAAAAAGGTTTGCGATTTTTGCAGTTTTACTGGTCCAT
CTCTTTTTTGATGAGCATAGGGTATTCGTTTGAGGTCTACTTGCTTCACGTTGCTGCCTATTTG
AATTTTTCTCAGCATGTCAACTTTCTGAATTTAAGTACATGACACATTACATGTTTTACAGTGA
GCATAAATGTCATTCCAATGGGGCGCTACTGTTTTTTATCTGTTGGCTCATGTGTGATTTTGGT
TATAAAGTCCATGTTGTTTTATTCTACAATTTGAACTTGAATATCAAATATTATAATTTAATTT
GCAGGATATCTGTGACTTTTGTTGATAAGGATGGCGAGGAAAAGCTTGTTAAAGTACCTATAGG
AATGTCAATGCTAGAGGCAGCACATGAGAATGACATAGAACTTGAAGGTCATTTGAAATGCCGA
GTCTTAATGTTTGCTCATTTTGATTTAAATCAATTTTTAAGTACATTTATGCTTGTGCATGTTT
CATGTTGTGTTGGACAAAATCTATCGTTCTGTTATACCTATCATTCTGAGCCTTGGCATTGTCA
CCGTGCCACCTTAACTATTCTGTTATGTTGATCTGTCTTATTGAAGTACAAAAATGATTTTCCT
AGCTCCATTTCTGGTACCACTAAAATAACTGTATTTTTTCTAATATATCATCTGAATTGCCCCC
TGTTGTCATGATAACAGGGGCATGTGAGGGCTCTCTTGCATGTTCGACATGCCATGTGATTGTA
ACGGTATGATGTTATTCTTAAAGGTTCAATTGGATTGGATGGTAAAAGTGTAGTTTGATAAGAA
AGTTCTCTTCAGGATGTTGACTACTACAACAAATTGGAAGATCCTGTGGATGAGGAGAACGATA
TGCTGGACCTTGCATTTGGGCTTACAGAGAC
						
					

			
		

Sequences
Splice junction sequence	AAGAAAGTTCTCTTCAGGATGTTGACTACTACAACAAATTGGAAGATCCTGTGGATGAGGAGAA CGATATGCTGGACCTTGCATTTGGGCTTACAGAGACgggaagactttcttctgttcgaacacaa atgctacatccagtgataggagcagcgagtcagaagctaagtaagttgtattaagtattaactc tgtgggct
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	GGGAAGACTTTCTTCTGTTCGAACACAAATGCTACATCCAGTGATAGGAGCAGCGAGTCAGAAG CTAAGTAAGTTGTATTAAGTATTAACTCTGTGGGCTTGACCAGTGTAACTCGTTATCCATTTTA AGCTAGGCCCCATTCTTTTCAACTAATTCACAGGATTATTTCTGCAGATTATTTGCTCCATGCC TCTAAAAATATGTTTTCTCAAAAATATTTCTTCTACTGTGTGCCTAGACCACATGTTCTAAGCT ATTTGTTAAGTTTATTTCTTGAAATATTTTAATTTATCCCTATAATCAAGTGGATAATCCAAGA CAATAATGCAGTTAATAATCTGTTTCAAATGGGCCCTAAGGGTGTGTTAATTTCAATGTTTCAG CCAATTAACCGGGTTTCTTACCTGACAAGACACTCAATTAGATCATGATTAATTAATTAAGTAT TAGCTATTATAAATTTGAAAAATATATTTATTTTAGATTTGTAGAAACTTCTAAATATTTTTTT TTTCAAAAATCACACTGTTTAGCAGCTTGGGAACCGTGCCAACGATAATCTAGTAGCTAGTAGC CAAAAAGAAATGAGCCTAAGTTAGATATATATCTAGGTTTGTGACAAAAAAGTTTGATATGCTA TTTGTAGATTACTTTCTGGAACACAAATTTACTCTGGTGATGTCTGTAAATCTGGTAATTAACA TGAACGGCATTCATGTTTATGAAGCTTTTGGGCCTTTGGGAATGCTTTTGGTTTGGAAGTTGGC AAACTTCAGATAAAACTTCTCCAAGATGAATAGTTAAGTACCACTCAAGAATAGGAGGCACTTA AAAACATTCCATTATCATTCAACTCTTTTAGTTTAGGGGCAATTTCGTTCTTTCCCCTACTTTG ATGTCCAATATTGATTTTGCCCATGTTTTTAGGGTTTTCGTTTTTGCCCCTACGTTTTTGAAAC GAAACAGCCATTTGCCCCTGTTCCGTTAGTTCTTGCTAATGGTGTTAAATGTGGGGTAAAAAGG ACCAAGTATACCCTTAGATATTTCCGGTACTTTTGTACACCACTTTCAAATTTGATCCAAATCT TGGCAAACTTTCACAAATTGTTGACAAATTAAATTACTGATAGAGTATTGCATCAATAGATTTG TATTTTGATTATGTCAAAAGTACGGGAAAATATCTAAGGGTATACTTGTCTTTTTAACCCCCCC CTCCAAACACACACACACATTTAACACCGTTAGGAAGAATTAACGGAACAGGGGCAAACGGTTG TTTCGTTTCAAAAAAGTAGGGGTAAAAACGAAAACCCTAAAAAACAGGGGCAAAATCAATATTG GACATCAAAGTAGGGGCAAGAACGAAATTGTATAATCAATGGTAGTTTACTAGTTTAGTTAACT AGCCTTGGTCTTGTATTATCAGATCTCTTTAGAGGTAGAGCTTGTATAATTCTGCCCTTCTGCA CATGAGTATCATCTTTGTCTATATTGGAGTTATGCAATTCTACTTTCTGTGTGTTGTCATAGAG GCAACTATTAGGGAGCAAAGAGAGTAGAAGAATGAGATGTTAAACATTATATGGGGGCTCAATT AGAAATATAAATAGGTGGGATTAACGGAATAAAACGGGTAATTGGGAGGCCCATATGGGTTTCC TGCTCCAAAATTGTTTCTCAAGTTCTTACATGATGCAGCATTGGTCAACCTAGAAGCCATCATC TTGCCTGGGTGATTCTACCACTTCCATTGGACTTGACATGGTTATGGGATTTCTCTGTATGATT TTCATGTTTACATATGCTGTCAACCTCAAAATGTGCTTAGCCTTGGTAATCGTCTCCTTTGATG CCCATCTTCCCGCAAGTTTTTTTTTTCTTTTCTCCTTTTATTTTGAAGCCAACTTTCCTCCAAA GATGCAGAGTGTGTTCACTTCATATTATTCTGAATATGAGTGTGGTTCATCCTCACTGAATAAT GCAATTACTCTTACTCCATGCAACTGTGAATGTATGCTGTCTAAGTATAGATTGTGCTGTTGAC CTTTTGAACACCAGCAAGGCCATTATGAGTGTCTATTCCATATCATGTATGGAATTTATCCTGA AGCTTGTGTCACAAACTTAATTTAGGTAAAAAGGTTTGCGATTTTTGCAGTTTTACTGGTCCAT CTCTTTTTTGATGAGCATAGGGTATTCGTTTGAGGTCTACTTGCTTCACGTTGCTGCCTATTTG AATTTTTCTCAGCATGTCAACTTTCTGAATTTAAGTACATGACACATTACATGTTTTACAGTGA GCATAAATGTCATTCCAATGGGGCGCTACTGTTTTTTATCTGTTGGCTCATGTGTGATTTTGGT TATAAAGTCCATGTTGTTTTATTCTACAATTTGAACTTGAATATCAAATATTATAATTTAATTT GCAGGATATCTGTGACTTTTGTTGATAAGGATGGCGAGGAAAAGCTTGTTAAAGTACCTATAGG AATGTCAATGCTAGAGGCAGCACATGAGAATGACATAGAACTTGAAGGTCATTTGAAATGCCGA GTCTTAATGTTTGCTCATTTTGATTTAAATCAATTTTTAAGTACATTTATGCTTGTGCATGTTT CATGTTGTGTTGGACAAAATCTATCGTTCTGTTATACCTATCATTCTGAGCCTTGGCATTGTCA CCGTGCCACCTTAACTATTCTGTTATGTTGATCTGTCTTATTGAAGTACAAAAATGATTTTCCT AGCTCCATTTCTGGTACCACTAAAATAACTGTATTTTTTCTAATATATCATCTGAATTGCCCCC TGTTGTCATGATAACAGGGGCATGTGAGGGCTCTCTTGCATGTTCGACATGCCATGTGATTGTA ACGGTATGATGTTATTCTTAAAGGTTCAATTGGATTGGATGGTAAAAGTGTAGTTTGATAAGAA AGTTCTCTTCAGGATGTTGACTACTACAACAAATTGGAAGATCCTGTGGATGAGGAGAACGATA TGCTGGACCTTGCATTTGGGCTTACAGAGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.102354653

Conservation Information
Conserved circRNAs	NA
PMCS	0.102354653

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16174745-16174690(+)
16175205-16172287(+)
16174780-16175278(-)
						
						Potential amino acid sequence
						
							MSMLEAAHENDIELEGACEGSLACSTCHVIVTDVDYYNKLEDPVDEENDMLDLAFGLTETGRLS
SVRTQMLHPVIGAASQKLRYL*(+)
MLTTTTNWKILWMRRTICWTLHLGLQRREDFLLFEHKCYIQ*(+)
MSFSCAASSIDIPIGTLTSFSSPSLSTKVTDILASDSLLLSLDVAFVFEQKKVFPSL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	16174745-16174690(+) 16175205-16172287(+) 16174780-16175278(-)
Potential amino acid sequence	MSMLEAAHENDIELEGACEGSLACSTCHVIVTDVDYYNKLEDPVDEENDMLDLAFGLTETGRLS SVRTQMLHPVIGAASQKLRYL(+) MLTTTTNWKILWMRRTICWTLHLGLQRREDFLLFEHKCYIQ(+) MSFSCAASSIDIPIGTLTSFSSPSLSTKVTDILASDSLLLSLDVAFVFEQKKVFPSL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os09g0437900_circ_g.3

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