Plant Circular RNA Database

Detail information of Os06g0149450_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os06g0149450_circ_g.5
					
						ID in PlantcircBase
						osa_circ_029686
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 2560762-2561643  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os06g0149400						
					
						Parent gene annotation
						
							Similar to Chitinase A. (Os06t0149400-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0149450_circ_g.1 Os06g0149450_circ_g.2 Os06g0149450_circ_g.3 Os06g0149450_circ_g.4 						
					
						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
						Os06t0149450-00:3
Os06t0149450-00:3
Os06t0149400-01:4

General Information
CircRNA Name	Os06g0149450_circ_g.5
ID in PlantcircBase	osa_circ_029686
Alias	NA
Organism	Oryza sativa
Position	chr6: 2560762-2561643 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os06g0149400
Parent gene annotation	Similar to Chitinase A. (Os06t0149400-01)
Parent gene strand	+
Alternative splicing	Os06g0149450_circ_g.1 Os06g0149450_circ_g.2 Os06g0149450_circ_g.3 Os06g0149450_circ_g.4
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	Os06t0149450-00:3 Os06t0149450-00:3 Os06t0149400-01:4

			
						 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  
						
							AGAAGATGATGAAGACGATGATGAAGATGAGGAGGAGGAAGAAGAGGATGAGGATGAAGACGAA
GACGATGAGGAAGAAAAAAGCAAGCCAAAGAAGAAGatccaagagcgtgacgagcctgctttga
aatatctgaaagatatcaagtgggctagaattgacgatcctaagggtttcaagctggatttttt
ctttgata

									
								

					

						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: 603
Transcript exons: 2560762-2560946,2561030-2561207,2561301-2561344,2561448-
2561643
ATCCAAGAGCGTGACGAGCCTGCTTTGAAATATCTGAAAGATATCAAGTGGGCTAGAATTGACG
ATCCTAAGGGTTTCAAGCTGGATTTTTTCTTTGATACGAACCCTTTCTTCAAGAACTCTGTCCT
AACAAAAACGTACCACATGGTTGATGAAGATGAACCAATTTTGGAGAAAGCAATTGGGACTGAA
ATTGAGTGGTATCCTGGTAAAAACCTGACACAGAAGATTCTAAAAAAGAAACCCAAGAAAGGTT
CAAAGAATGCAAAGCCTATTACCAAAACTGAAGTCTGTGAGAGCTTCTTCAACTTTTTCAGTCC
CCCGCAAGTACCCGATGATGATGAGGACATTGATGAAGACACTGCTGATGAGCTTCAGGGTCAA
ATGGAACATGATTATGACATTGGGACCACCATAAGGGATAAGATCATCCCACATGCTGTTTCCT
GGTTTACTGGTGAGGCTGTGCAAGCCGAGGATTTTGACGATATGGAGGATGATGAAGAAGATGA
TGAAGACGATGATGAAGATGAGGAGGAGGAAGAAGAGGATGAGGATGAAGACGAAGACGATGAG
GAAGAAAAAAGCAAGCCAAAGAAGAAG
						
					

						Genomic sequence
						
							ATCCAAGAGCGTGACGAGCCTGCTTTGAAATATCTGAAAGATATCAAGTGGGCTAGAATTGACG
ATCCTAAGGGTTTCAAGCTGGATTTTTTCTTTGATACGAACCCTTTCTTCAAGAACTCTGTCCT
AACAAAAACGTACCACATGGTTGATGAAGATGAACCAATTTTGGAGAAAGCAATTGGGTAAGTT
GTTTCATCCTCTGTTGAAACCTGTAACTGCACGTGTTGTTAAAACTAACCATGTTGGCATGTTA
TGTGCACTGCAGGACTGAAATTGAGTGGTATCCTGGTAAAAACCTGACACAGAAGATTCTAAAA
AAGAAACCCAAGAAAGGTTCAAAGAATGCAAAGCCTATTACCAAAACTGAAGTCTGTGAGAGCT
TCTTCAACTTTTTCAGTCCCCCGCAAGTACCCGATGATGATGAGGACATTGATGAAGACACTGT
ATGTTCTATTTTGATATTTGACATGCATTTGTTCAATGATATCATATTTGGTGTGCTTTGGTAG
TAAACTTGTTCCTTCAATTTATGATAGGCTGATGAGCTTCAGGGTCAAATGGAACATGATTATG
ACATTGGGTAAGTACTAGTCATTGCCTGCCACATACTAATGTTCTATCCGTCATGTTGATAAGC
TCTTATGGCTATTCTGATGATATTTTTGGTCGGAAATTACTTATAGGACCACCATAAGGGATAA
GATCATCCCACATGCTGTTTCCTGGTTTACTGGTGAGGCTGTGCAAGCCGAGGATTTTGACGAT
ATGGAGGATGATGAAGAAGATGATGAAGACGATGATGAAGATGAGGAGGAGGAAGAAGAGGATG
AGGATGAAGACGAAGACGATGAGGAAGAAAAAAGCAAGCCAAAGAAGAAG
						
					

			
		

Sequences
Splice junction sequence	AGAAGATGATGAAGACGATGATGAAGATGAGGAGGAGGAAGAAGAGGATGAGGATGAAGACGAA GACGATGAGGAAGAAAAAAGCAAGCCAAAGAAGAAGatccaagagcgtgacgagcctgctttga aatatctgaaagatatcaagtgggctagaattgacgatcctaagggtttcaagctggatttttt ctttgata
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: 603 Transcript exons: 2560762-2560946,2561030-2561207,2561301-2561344,2561448- 2561643 ATCCAAGAGCGTGACGAGCCTGCTTTGAAATATCTGAAAGATATCAAGTGGGCTAGAATTGACG ATCCTAAGGGTTTCAAGCTGGATTTTTTCTTTGATACGAACCCTTTCTTCAAGAACTCTGTCCT AACAAAAACGTACCACATGGTTGATGAAGATGAACCAATTTTGGAGAAAGCAATTGGGACTGAA ATTGAGTGGTATCCTGGTAAAAACCTGACACAGAAGATTCTAAAAAAGAAACCCAAGAAAGGTT CAAAGAATGCAAAGCCTATTACCAAAACTGAAGTCTGTGAGAGCTTCTTCAACTTTTTCAGTCC CCCGCAAGTACCCGATGATGATGAGGACATTGATGAAGACACTGCTGATGAGCTTCAGGGTCAA ATGGAACATGATTATGACATTGGGACCACCATAAGGGATAAGATCATCCCACATGCTGTTTCCT GGTTTACTGGTGAGGCTGTGCAAGCCGAGGATTTTGACGATATGGAGGATGATGAAGAAGATGA TGAAGACGATGATGAAGATGAGGAGGAGGAAGAAGAGGATGAGGATGAAGACGAAGACGATGAG GAAGAAAAAAGCAAGCCAAAGAAGAAG
Genomic sequence	ATCCAAGAGCGTGACGAGCCTGCTTTGAAATATCTGAAAGATATCAAGTGGGCTAGAATTGACG ATCCTAAGGGTTTCAAGCTGGATTTTTTCTTTGATACGAACCCTTTCTTCAAGAACTCTGTCCT AACAAAAACGTACCACATGGTTGATGAAGATGAACCAATTTTGGAGAAAGCAATTGGGTAAGTT GTTTCATCCTCTGTTGAAACCTGTAACTGCACGTGTTGTTAAAACTAACCATGTTGGCATGTTA TGTGCACTGCAGGACTGAAATTGAGTGGTATCCTGGTAAAAACCTGACACAGAAGATTCTAAAA AAGAAACCCAAGAAAGGTTCAAAGAATGCAAAGCCTATTACCAAAACTGAAGTCTGTGAGAGCT TCTTCAACTTTTTCAGTCCCCCGCAAGTACCCGATGATGATGAGGACATTGATGAAGACACTGT ATGTTCTATTTTGATATTTGACATGCATTTGTTCAATGATATCATATTTGGTGTGCTTTGGTAG TAAACTTGTTCCTTCAATTTATGATAGGCTGATGAGCTTCAGGGTCAAATGGAACATGATTATG ACATTGGGTAAGTACTAGTCATTGCCTGCCACATACTAATGTTCTATCCGTCATGTTGATAAGC TCTTATGGCTATTCTGATGATATTTTTGGTCGGAAATTACTTATAGGACCACCATAAGGGATAA GATCATCCCACATGCTGTTTCCTGGTTTACTGGTGAGGCTGTGCAAGCCGAGGATTTTGACGAT ATGGAGGATGATGAAGAAGATGATGAAGACGATGATGAAGATGAGGAGGAGGAAGAAGAGGATG AGGATGAAGACGAAGACGATGAGGAAGAAAAAAGCAAGCCAAAGAAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006532* osi_circ_016583 						
					
						PMCS
						0.567267923

Conservation Information
Conserved circRNAs	osi_circ_006532* osi_circ_016583
PMCS	0.567267923

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2560907-2561640(+)
2561478-2560786(+)
2561196-2561335(-)
						
						Potential amino acid sequence
						
							MVDEDEPILEKAIGTEIEWYPGKNLTQKILKKKPKKGSKNAKPITKTEVCESFFNFFSPPQVPD
DDEDIDEDTADELQGQMEHDYDIGTTIRDKIIPHAVSWFTGEAVQAEDFDDMEDDEEDDEDDDE
DEEEEEEDEDEDEDDEEEKSKPKKKIQERDEPALKYLKDIKWARIDDPKGFKLDFFFDTNPFFK
NSVLTKTYHMVDEDEPILEKAIGTEIEWYPGKNLTQKILKKKPKKGSKNAKPITKTEVCESFFN
FFSPPQVPDDDEDIDEDTADELQGQMEHDYDIGTTIRDKIIPHAVSWFTGEAVQAEDFDDMEDD
EEDDEDDDEDEEEEEEDEDEDEDDEEEKSKPKKKIQERDEPALKYLKDIKWARIDDPKGFKLDF
FFDTNPFFKNSVLTKTYHMVDEDEPILEKAIGTEIEWYPGKNLTQKILKKKPKKGSKNAKPITK
TEVCESFFNFFSPPQVPDDDEDIDEDTADELQGQMEHDYDIGTTIRDKIIPHAVSWFTGEAVQA
EDFDDMEDDEEDDEDDDEDEEEEEEDEDEDEDDEEEKSKPKKKIQERDEPALKYLKDIKWARID
DPKGFKLDFFFDTNPFFKNSVLTKTYHMVDEDEPILEKAIGTEIEWYPGKNLTQKILKKKPKKG
SKNAKPITKTEVCESFFNFFSPPQVPDDDEDIDEDTADELQGQMEHDYDIGTTIRDKIIPHAVS
WFTGEAVQAEDFDDMEDDEEDDEDDDEDEEEEEEDEDEDEDDEEEKSKPKKK(+)
MLFPGLLVRLCKPRILTIWRMMKKMMKTMMKMRRRKKRMRMKTKTMRKKKASQRRRSKSVTSLL
*(+)
MSSSSSGTCGGLKKLKKLSQTSVLVIGFAFFEPFLGFFFRIFCVRFLPGYHSISVPIAFSKIGS
SSSTMWYVFVRTEFLKKGFVSKKKSSLKPLGSSILAHLISFRYFKAGSSRSWIFFFGLLFSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSISSKSSACTASPVNQETACGMILSLMVVPMS*(-)
						
						Sponge-miRNAs
						
							osa-miR414 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2560907-2561640(+) 2561478-2560786(+) 2561196-2561335(-)
Potential amino acid sequence	MVDEDEPILEKAIGTEIEWYPGKNLTQKILKKKPKKGSKNAKPITKTEVCESFFNFFSPPQVPD DDEDIDEDTADELQGQMEHDYDIGTTIRDKIIPHAVSWFTGEAVQAEDFDDMEDDEEDDEDDDE DEEEEEEDEDEDEDDEEEKSKPKKKIQERDEPALKYLKDIKWARIDDPKGFKLDFFFDTNPFFK NSVLTKTYHMVDEDEPILEKAIGTEIEWYPGKNLTQKILKKKPKKGSKNAKPITKTEVCESFFN FFSPPQVPDDDEDIDEDTADELQGQMEHDYDIGTTIRDKIIPHAVSWFTGEAVQAEDFDDMEDD EEDDEDDDEDEEEEEEDEDEDEDDEEEKSKPKKKIQERDEPALKYLKDIKWARIDDPKGFKLDF FFDTNPFFKNSVLTKTYHMVDEDEPILEKAIGTEIEWYPGKNLTQKILKKKPKKGSKNAKPITK TEVCESFFNFFSPPQVPDDDEDIDEDTADELQGQMEHDYDIGTTIRDKIIPHAVSWFTGEAVQA EDFDDMEDDEEDDEDDDEDEEEEEEDEDEDEDDEEEKSKPKKKIQERDEPALKYLKDIKWARID DPKGFKLDFFFDTNPFFKNSVLTKTYHMVDEDEPILEKAIGTEIEWYPGKNLTQKILKKKPKKG SKNAKPITKTEVCESFFNFFSPPQVPDDDEDIDEDTADELQGQMEHDYDIGTTIRDKIIPHAVS WFTGEAVQAEDFDDMEDDEEDDEDDDEDEEEEEEDEDEDEDDEEEKSKPKKK(+) MLFPGLLVRLCKPRILTIWRMMKKMMKTMMKMRRRKKRMRMKTKTMRKKKASQRRRSKSVTSLL (+) MSSSSSGTCGGLKKLKKLSQTSVLVIGFAFFEPFLGFFFRIFCVRFLPGYHSISVPIAFSKIGS SSSTMWYVFVRTEFLKKGFVSKKKSSLKPLGSSILAHLISFRYFKAGSSRSWIFFFGLLFSSSS SSSSSSSSSSSSSSSSSSSSSSSSSSISSKSSACTASPVNQETACGMILSLMVVPMS(-)
Sponge-miRNAs	osa-miR414
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0149450_circ_g.5

Address

Any questions?

Supported by