Plant Circular RNA Database

Detail information of Os06g0645400_circ_g.11

			
						 General Information
					
						CircRNA Name
						Os06g0645400_circ_g.11
					
						ID in PlantcircBase
						osa_circ_031737
					
						Alias
						Os_ciR4913
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 26342484-26343804  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os06g0645400						
					
						Parent gene annotation
						
							Similar to Isoleucine-tRNA ligase-like protein. (Os06t0645400-01
);Similar to ATP binding protein (Fragment). (Os06t0645400-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0645400_circ_g.12 						
					
						Support reads
						4
					
						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
						Os06t0645400-01:5
Os06t0645400-02:3

General Information
CircRNA Name	Os06g0645400_circ_g.11
ID in PlantcircBase	osa_circ_031737
Alias	Os_ciR4913
Organism	Oryza sativa
Position	chr6: 26342484-26343804 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Os06g0645400
Parent gene annotation	Similar to Isoleucine-tRNA ligase-like protein. (Os06t0645400-01 );Similar to ATP binding protein (Fragment). (Os06t0645400-02)
Parent gene strand	+
Alternative splicing	Os06g0645400_circ_g.12
Support reads	4
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	Os06t0645400-01:5 Os06t0645400-02:3

			
						 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  
						
							GTCATATTATCATTACTTTTTTTTTCATGTAGGTGATGTGTTAGTCGTTTTGGATCTTCGAGCT
GATCAATCATTGTTTGAAGCTGGAGTTGCTCGAGAGggagatggtgattgttcatcctgacaat
gaatttcttgaagacataacgggaaagctaaaagaggtttgtttataagtacttgtcagcagtg
cctataag

									
								

					

						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: 427
Transcript exons: 26342484-26342547,26342881-26342969,26343045-26343186,26
343589-26343652,26343737-26343804
GGAGATGGTGATTGTTCATCCTGACAATGAATTTCTTGAAGACATAACGGGAAAGCTAAAAGAG
TATGTCATGGAAGAAATGAATGTTAAGACTGTCACTCCATGTAATGATCCCATGTTGTATGCTT
CTCTCCGGGCAGAACCCAATTTTAGTGTGCTAGGAAAAAGACTGGGAAAGGACATGGGCAAAGT
GTCAAATGAAGTGAAGAAAATGACACAGGAACAGATCTTAGCCTTTGAACAAAGTGGAGAAATT
TCATTCTTTGGTCATTGCTTGAAGTTAGACGATATTAAGGTGATCCGGCAATTTAAACGTCCTG
CAAATGTGGCAGAGAATGAAATTGATGCTGCGGGAGATGGTGATGTGTTAGTCGTTTTGGATCT
TCGAGCTGATCAATCATTGTTTGAAGCTGGAGTTGCTCGAGAG
						
					

						Genomic sequence
						
							GGAGATGGTGATTGTTCATCCTGACAATGAATTTCTTGAAGACATAACGGGAAAGCTAAAAGAG
GTTTGTTTATAAGTACTTGTCAGCAGTGCCTATAAGTCATCTGTTATGGAATTATATGACTGCA
TTTGCAATTAGTTGTAACCAAAGTCTCCTGTACACTTTTATGTTCCATATTCATTGCTTTCTCA
CTGTTGGCATGTCCCTTCCTGAGATCAATATTTGCCAAGGAATCTGCTTGCCCATATTTCTAGG
AGTTGATAATCTTGATTATTGAGCAATGAGAATACGAGATTGATCAATTCATCTTCAATATTTG
CCACTTAGTGTTTATTTTATAAATGGACATGTTTCTTCAGTGTTGAGTCTTGACATACTTTACT
TTCCAATATACAGTATGTCATGGAAGAAATGAATGTTAAGACTGTCACTCCATGTAATGATCCC
ATGTTGTATGCTTCTCTCCGGGCAGAACCCAATTTTAGGTATGTGTACCTAATAGCGTGAGAAA
CTTTGCATTTTTTTTTATCTACTGCTCAGCACTTGTGTTATTTTCTTAGTGTGCTAGGAAAAAG
ACTGGGAAAGGACATGGGCAAAGTGTCAAATGAAGTGAAGAAAATGACACAGGAACAGATCTTA
GCCTTTGAACAAAGTGGAGAAATTTCATTCTTTGGTCATTGCTTGAAGTTAGACGATATTAAGG
TAACATTCCATGCTTCTGATGGATGTTAATTTAAAGGTTTAAATGATTGCTTGCATGTCAGTTT
TGAAGATTAATATTTGGTAATTGTGCTAGTATATGTTCTCAGAATGATATGTTAGTAAGATTAT
ATTGATTTGCTTTTTACATATATTGTAAAATACAAACACATCATTTCCAAGTTCTGCTTTGGCA
TTTCCAGATCATATCTGTCTAGCAAATGGTTTGCAAGCACACCTATTCTAAAAATTAGATTTGA
CATTTGTTTTATTTTGGGGGCATTATTTCTGATCATCATGATGAATGACATGATGCTACACTTT
AGTTTGCACAGGTTTGCATTTAGTGGACTTATTTTTCCAACCTGCTGCATCTTTAATTCTCTGA
AACATTTTACCCTCTAGGTGATCCGGCAATTTAAACGTCCTGCAAATGTGGCAGAGAATGAAAT
TGATGCTGCGGGAGATGGTATGTCAAATATGTTTCCATATGAGTAGTTTGTATGCTATCTGTCT
ATTTTGTCATATTATCATTACTTTTTTTTTCATGTAGGTGATGTGTTAGTCGTTTTGGATCTTC
GAGCTGATCAATCATTGTTTGAAGCTGGAGTTGCTCGAGAG
						
					

			
		

Sequences
Splice junction sequence	GTCATATTATCATTACTTTTTTTTTCATGTAGGTGATGTGTTAGTCGTTTTGGATCTTCGAGCT GATCAATCATTGTTTGAAGCTGGAGTTGCTCGAGAGggagatggtgattgttcatcctgacaat gaatttcttgaagacataacgggaaagctaaaagaggtttgtttataagtacttgtcagcagtg cctataag
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: 427 Transcript exons: 26342484-26342547,26342881-26342969,26343045-26343186,26 343589-26343652,26343737-26343804 GGAGATGGTGATTGTTCATCCTGACAATGAATTTCTTGAAGACATAACGGGAAAGCTAAAAGAG TATGTCATGGAAGAAATGAATGTTAAGACTGTCACTCCATGTAATGATCCCATGTTGTATGCTT CTCTCCGGGCAGAACCCAATTTTAGTGTGCTAGGAAAAAGACTGGGAAAGGACATGGGCAAAGT GTCAAATGAAGTGAAGAAAATGACACAGGAACAGATCTTAGCCTTTGAACAAAGTGGAGAAATT TCATTCTTTGGTCATTGCTTGAAGTTAGACGATATTAAGGTGATCCGGCAATTTAAACGTCCTG CAAATGTGGCAGAGAATGAAATTGATGCTGCGGGAGATGGTGATGTGTTAGTCGTTTTGGATCT TCGAGCTGATCAATCATTGTTTGAAGCTGGAGTTGCTCGAGAG
Genomic sequence	GGAGATGGTGATTGTTCATCCTGACAATGAATTTCTTGAAGACATAACGGGAAAGCTAAAAGAG GTTTGTTTATAAGTACTTGTCAGCAGTGCCTATAAGTCATCTGTTATGGAATTATATGACTGCA TTTGCAATTAGTTGTAACCAAAGTCTCCTGTACACTTTTATGTTCCATATTCATTGCTTTCTCA CTGTTGGCATGTCCCTTCCTGAGATCAATATTTGCCAAGGAATCTGCTTGCCCATATTTCTAGG AGTTGATAATCTTGATTATTGAGCAATGAGAATACGAGATTGATCAATTCATCTTCAATATTTG CCACTTAGTGTTTATTTTATAAATGGACATGTTTCTTCAGTGTTGAGTCTTGACATACTTTACT TTCCAATATACAGTATGTCATGGAAGAAATGAATGTTAAGACTGTCACTCCATGTAATGATCCC ATGTTGTATGCTTCTCTCCGGGCAGAACCCAATTTTAGGTATGTGTACCTAATAGCGTGAGAAA CTTTGCATTTTTTTTTATCTACTGCTCAGCACTTGTGTTATTTTCTTAGTGTGCTAGGAAAAAG ACTGGGAAAGGACATGGGCAAAGTGTCAAATGAAGTGAAGAAAATGACACAGGAACAGATCTTA GCCTTTGAACAAAGTGGAGAAATTTCATTCTTTGGTCATTGCTTGAAGTTAGACGATATTAAGG TAACATTCCATGCTTCTGATGGATGTTAATTTAAAGGTTTAAATGATTGCTTGCATGTCAGTTT TGAAGATTAATATTTGGTAATTGTGCTAGTATATGTTCTCAGAATGATATGTTAGTAAGATTAT ATTGATTTGCTTTTTACATATATTGTAAAATACAAACACATCATTTCCAAGTTCTGCTTTGGCA TTTCCAGATCATATCTGTCTAGCAAATGGTTTGCAAGCACACCTATTCTAAAAATTAGATTTGA CATTTGTTTTATTTTGGGGGCATTATTTCTGATCATCATGATGAATGACATGATGCTACACTTT AGTTTGCACAGGTTTGCATTTAGTGGACTTATTTTTCCAACCTGCTGCATCTTTAATTCTCTGA AACATTTTACCCTCTAGGTGATCCGGCAATTTAAACGTCCTGCAAATGTGGCAGAGAATGAAAT TGATGCTGCGGGAGATGGTATGTCAAATATGTTTCCATATGAGTAGTTTGTATGCTATCTGTCT ATTTTGTCATATTATCATTACTTTTTTTTTCATGTAGGTGATGTGTTAGTCGTTTTGGATCTTC GAGCTGATCAATCATTGTTTGAAGCTGGAGTTGCTCGAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.249943565

Conservation Information
Conserved circRNAs	NA
PMCS	0.249943565

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26342489-26342504(+)
26342504-26343604(-)
						
						Potential amino acid sequence
						
							MVIVHPDNEFLEDITGKLKEYVMEEMNVKTVTPCNDPMLYASLRAEPNFSVLGKRLGKDMGKVS
NEVKKMTQEQILAFEQSGEISFFGHCLKLDDIKVIRQFKRPANVAENEIDAAGDGDVLVVLDLR
ADQSLFEAGVAREGDGDCSS*(+)
MNNHHLPLEQLQLQTMIDQLEDPKRLTHHHLPQHQFHSLPHLQDV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	26342489-26342504(+) 26342504-26343604(-)
Potential amino acid sequence	MVIVHPDNEFLEDITGKLKEYVMEEMNVKTVTPCNDPMLYASLRAEPNFSVLGKRLGKDMGKVS NEVKKMTQEQILAFEQSGEISFFGHCLKLDDIKVIRQFKRPANVAENEIDAAGDGDVLVVLDLR ADQSLFEAGVAREGDGDCSS(+) MNNHHLPLEQLQLQTMIDQLEDPKRLTHHHLPQHQFHSLPHLQDV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os06g0645400_circ_g.11

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