Plant Circular RNA Database

Detail information of Os06g0147800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os06g0147800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_029676
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 2500667-2501827  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os06g0147800						
					
						Parent gene annotation
						
							Similar to Mitogen-activated protein kinase kinase 2. (Os06t0147
800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0147800_circ_g.1 Os06g0147800_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						shoot, 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  
						
							CT-AC							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
						Os06t0147800-01:4

General Information
CircRNA Name	Os06g0147800_circ_g.2
ID in PlantcircBase	osa_circ_029676
Alias	NA
Organism	Oryza sativa
Position	chr6: 2500667-2501827 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os06g0147800
Parent gene annotation	Similar to Mitogen-activated protein kinase kinase 2. (Os06t0147 800-01)
Parent gene strand	-
Alternative splicing	Os06g0147800_circ_g.1 Os06g0147800_circ_g.3
Support reads	1
Tissues	shoot, 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	CT-AC 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	Os06t0147800-01:4

			
						 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  
						
							CCAACTGCACGATTCCACTACTACCTTTACCGATAACTTTGATTGCGTCTAGATCATCTAGACT
CAACTGATTATGATCTAAAGGTTCTATAGGAGGGGCcatgcagagacgaatgaacagaattcct
ctgaaaactggtctgatggagcagaaggtggtgggtggtcgacaacagcttcaaggagttcata
aaagcttt

									
								

					

						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: 150
Transcript exons: 2500667-2500695,2501707-2501827
CATGCAGAGACGAATGAACAGAATTCCTCGGCCAGTCCATTTGTGGCGAACCAACTGCACGATT
CCACTACTACCTTTACCGATAACTTTGATTGCGTCTAGATCATCTAGACTCAACTGATTATGAT
CTAAAGGTTCTATAGGAGGGGC
Transcript length: 752
Transcript exons: 2500667-2500872,2500978-2501159,2501267-2501492,2501690-
2501827
CATGCAGAGACGAATGAACAGAATTCCTCTGAAAACTGGTCTGATGGAGCAGAAGGTGGTGGGT
GGTCGACAACAGCTTCAAGGAGTTCATAAAAGCTTTCACGAGGAGGATATGGAAATTCACCAGT
GGCCAATTCTAGCATAACGAGGCCCAAGCTCCAGATATCACTCATATAACCATGTTTTTGCCCA
CTGATTCTTTCTGGCGCCATGTAGTTATATGTCCCAGTAAATGTATCTCGTTGTGCCGAGGAAC
TAGCAATGATGGCACTAACACCAAAGTCGGATATTTTTACTTCACCCATATGATTTATTAATAT
ATTTGACGGCTTCAGATCTCGGTGTATGATGTGCTTCTCATGATGTAAGTACATCAGTCCTTTT
AGCACCTGCTTACAGATTGCAGCAAGGTAGGGCTCTGGAATGGTTTTAACTGTCTTCAGGAAAT
CTGAGAGAGAGCCACTGTCCATATACTCCAAAACAATTGAAATGACACCATTAACGTAAAAACA
CTGACAGCATGCAACAACATATTGGCACTGTGTTGACAAGCTGATTTTCAATTCCTGCGCAATC
TGTCTGCGTATATTCTCCTGGATATTGAGTTGTATTACCTTCAGAGCAAAAAACTGGCCAGTCC
ATTTGTGGCGAACCAACTGCACGATTCCACTACTACCTTTACCGATAACTTTGATTGCGTCTAG
ATCATCTAGACTCAACTGATTATGATCTAAAGGTTCTATAGGAGGGGC
						
					

						Genomic sequence
						
							CATGCAGAGACGAATGAACAGAATTCCTCTGAAAACTGGTCTGATGGAGCAGAAGGTGGTGGGT
GGTCGACAACAGCTTCAAGGAGTTCATAAAAGCTTTCACGAGGAGGATATGGAAATTCACCAGT
GGCCAATTCTAGCATAACGAGGCCCAAGCTCCAGATATCACTCATATAACCATGTTTTTGCCCA
CTGATTCTTTCTGGCTGTCAAGAACAGAATTTCCCTTTGGTTCAACAAGACAAACAAAATAGAT
AGCATTTCATGCAATAATCAGAGATACATTTCATGACACAGAAACTTTTACGCACCGCCATGTA
GTTATATGTCCCAGTAAATGTATCTCGTTGTGCCGAGGAACTAGCAATGATGGCACTAACACCA
AAGTCGGATATTTTTACTTCACCCATATGATTTATTAATATATTTGACGGCTTCAGATCTCGGT
GTATGATGTGCTTCTCATGATGTAAGTACATCAGTCCTTTTAGCACCTGCGCAGGAAAGATTTA
TTTATTTTTATTATAAAGTCCATGTGGTGCTTAAGTAACATTTGCAAAGCAAAGAAATTGTGTG
ATAGCTTCTACCACATGTCACTGGCCTGCTTACAGATTGCAGCAAGGTAGGGCTCTGGAATGGT
TTTAACTGTCTTCAGGAAATCTGAGAGAGAGCCACTGTCCATATACTCCAAAACAATTGAAATG
ACACCATTAACGTAAAAACACTGACAGCATGCAACAACATATTGGCACTGTGTTGACAAGCTGA
TTTTCAATTCCTGCGCAATCTGTCTGCGTATATTCTCCTGGATATTGAGTTGTATTACCTGTAA
ACGCAATAATATATCAATGGAGGTAAAGAACTAAAGATCCTTTGCAAGTGTTAGGCAAAAGACC
ACATGAAAAAACACTGGACTCACATGAAGCTATAACTATTGGGAACACTAAAAAGATTGTAGTT
AAAACTGGTAAGGGGAGAGTGGAAGAAATCATAAAAAGCAAAGAATGTACTTTCATATAATACC
TTCAGAGCAAAAAACTGGCCAGTCCATTTGTGGCGAACCAACTGCACGATTCCACTACTACCTT
TACCGATAACTTTGATTGCGTCTAGATCATCTAGACTCAACTGATTATGATCTAAAGGTTCTAT
AGGAGGGGC
						
					

			
		

Sequences
Splice junction sequence	CCAACTGCACGATTCCACTACTACCTTTACCGATAACTTTGATTGCGTCTAGATCATCTAGACT CAACTGATTATGATCTAAAGGTTCTATAGGAGGGGCcatgcagagacgaatgaacagaattcct ctgaaaactggtctgatggagcagaaggtggtgggtggtcgacaacagcttcaaggagttcata aaagcttt
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: 150 Transcript exons: 2500667-2500695,2501707-2501827 CATGCAGAGACGAATGAACAGAATTCCTCGGCCAGTCCATTTGTGGCGAACCAACTGCACGATT CCACTACTACCTTTACCGATAACTTTGATTGCGTCTAGATCATCTAGACTCAACTGATTATGAT CTAAAGGTTCTATAGGAGGGGC Transcript length: 752 Transcript exons: 2500667-2500872,2500978-2501159,2501267-2501492,2501690- 2501827 CATGCAGAGACGAATGAACAGAATTCCTCTGAAAACTGGTCTGATGGAGCAGAAGGTGGTGGGT GGTCGACAACAGCTTCAAGGAGTTCATAAAAGCTTTCACGAGGAGGATATGGAAATTCACCAGT GGCCAATTCTAGCATAACGAGGCCCAAGCTCCAGATATCACTCATATAACCATGTTTTTGCCCA CTGATTCTTTCTGGCGCCATGTAGTTATATGTCCCAGTAAATGTATCTCGTTGTGCCGAGGAAC TAGCAATGATGGCACTAACACCAAAGTCGGATATTTTTACTTCACCCATATGATTTATTAATAT ATTTGACGGCTTCAGATCTCGGTGTATGATGTGCTTCTCATGATGTAAGTACATCAGTCCTTTT AGCACCTGCTTACAGATTGCAGCAAGGTAGGGCTCTGGAATGGTTTTAACTGTCTTCAGGAAAT CTGAGAGAGAGCCACTGTCCATATACTCCAAAACAATTGAAATGACACCATTAACGTAAAAACA CTGACAGCATGCAACAACATATTGGCACTGTGTTGACAAGCTGATTTTCAATTCCTGCGCAATC TGTCTGCGTATATTCTCCTGGATATTGAGTTGTATTACCTTCAGAGCAAAAAACTGGCCAGTCC ATTTGTGGCGAACCAACTGCACGATTCCACTACTACCTTTACCGATAACTTTGATTGCGTCTAG ATCATCTAGACTCAACTGATTATGATCTAAAGGTTCTATAGGAGGGGC
Genomic sequence	CATGCAGAGACGAATGAACAGAATTCCTCTGAAAACTGGTCTGATGGAGCAGAAGGTGGTGGGT GGTCGACAACAGCTTCAAGGAGTTCATAAAAGCTTTCACGAGGAGGATATGGAAATTCACCAGT GGCCAATTCTAGCATAACGAGGCCCAAGCTCCAGATATCACTCATATAACCATGTTTTTGCCCA CTGATTCTTTCTGGCTGTCAAGAACAGAATTTCCCTTTGGTTCAACAAGACAAACAAAATAGAT AGCATTTCATGCAATAATCAGAGATACATTTCATGACACAGAAACTTTTACGCACCGCCATGTA GTTATATGTCCCAGTAAATGTATCTCGTTGTGCCGAGGAACTAGCAATGATGGCACTAACACCA AAGTCGGATATTTTTACTTCACCCATATGATTTATTAATATATTTGACGGCTTCAGATCTCGGT GTATGATGTGCTTCTCATGATGTAAGTACATCAGTCCTTTTAGCACCTGCGCAGGAAAGATTTA TTTATTTTTATTATAAAGTCCATGTGGTGCTTAAGTAACATTTGCAAAGCAAAGAAATTGTGTG ATAGCTTCTACCACATGTCACTGGCCTGCTTACAGATTGCAGCAAGGTAGGGCTCTGGAATGGT TTTAACTGTCTTCAGGAAATCTGAGAGAGAGCCACTGTCCATATACTCCAAAACAATTGAAATG ACACCATTAACGTAAAAACACTGACAGCATGCAACAACATATTGGCACTGTGTTGACAAGCTGA TTTTCAATTCCTGCGCAATCTGTCTGCGTATATTCTCCTGGATATTGAGTTGTATTACCTGTAA ACGCAATAATATATCAATGGAGGTAAAGAACTAAAGATCCTTTGCAAGTGTTAGGCAAAAGACC ACATGAAAAAACACTGGACTCACATGAAGCTATAACTATTGGGAACACTAAAAAGATTGTAGTT AAAACTGGTAAGGGGAGAGTGGAAGAAATCATAAAAAGCAAAGAATGTACTTTCATATAATACC TTCAGAGCAAAAAACTGGCCAGTCCATTTGTGGCGAACCAACTGCACGATTCCACTACTACCTT TACCGATAACTTTGATTGCGTCTAGATCATCTAGACTCAACTGATTATGATCTAAAGGTTCTAT AGGAGGGGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006527* osi_circ_016499 						
					
						PMCS
						0.315986707

Conservation Information
Conserved circRNAs	osi_circ_006527* osi_circ_016499
PMCS	0.315986707

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2501350-2501817(-)
2500759-2501801(-)
2500671-2501817(-)
						
						Potential amino acid sequence
						
							MDSGSLSDFLKTVKTIPEPYLAAICKQVLKGLMYLHHEKHIIHRDLKPSNILINHMGEVKISDF
GVSAIIASSSAQRDTFTGTYNYMAPERISGQKHGYMSDIWSLGLVMLELATGEFPYPPRESFYE
LLEAVVDHPPPSAPSDQFSEEFCSFVSAWPLL*(-)
MNSLKLLSTTHHLLLHQTSFQRNSVHSSLHGPSYRTFRS*(-)
MAPPIEPLDHNQLSLDDLDAIKVIGKGSSGIVQLVRHKWTGQFFALKVIQLNIQENIRRQIAQE
LKISLSTQCQYVVACCQCFYVNGVISIVLEYMDSGSLSDFLKTVKTIPEPYLAAICKQVLKGLM
YLHHEKHIIHRDLKPSNILINHMGEVKISDFGVSAIIASSSAQRDTFTGTYNYMAPERISGQKH
GYMSDIWSLGLVMLELATGEFPYPPRESFYELLEAVVDHPPPSAPSDQFSEEFCSFVSAWPLL*
(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2501350-2501817(-) 2500759-2501801(-) 2500671-2501817(-)
Potential amino acid sequence	MDSGSLSDFLKTVKTIPEPYLAAICKQVLKGLMYLHHEKHIIHRDLKPSNILINHMGEVKISDF GVSAIIASSSAQRDTFTGTYNYMAPERISGQKHGYMSDIWSLGLVMLELATGEFPYPPRESFYE LLEAVVDHPPPSAPSDQFSEEFCSFVSAWPLL(-) MNSLKLLSTTHHLLLHQTSFQRNSVHSSLHGPSYRTFRS(-) MAPPIEPLDHNQLSLDDLDAIKVIGKGSSGIVQLVRHKWTGQFFALKVIQLNIQENIRRQIAQE LKISLSTQCQYVVACCQCFYVNGVISIVLEYMDSGSLSDFLKTVKTIPEPYLAAICKQVLKGLM YLHHEKHIIHRDLKPSNILINHMGEVKISDFGVSAIIASSSAQRDTFTGTYNYMAPERISGQKH GYMSDIWSLGLVMLELATGEFPYPPRESFYELLEAVVDHPPPSAPSDQFSEEFCSFVSAWPLL* (-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0147800_circ_g.2

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