Plant Circular RNA Database

Detail information of Os05g0135800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0135800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_026491
					
						Alias
						Os_ciR9927
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 2098293-2099741  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os05g0135800						
					
						Parent gene annotation
						
							Ser/Thr protein kinase, Negative regulator of innate immunity (O
s05t0135800-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0135800_circ_g.3 						
					
						Support reads
						2/1
					
						Tissues
						root/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
						Os05t0135800-01:6

General Information
CircRNA Name	Os05g0135800_circ_g.2
ID in PlantcircBase	osa_circ_026491
Alias	Os_ciR9927
Organism	Oryza sativa
Position	chr5: 2098293-2099741 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os05g0135800
Parent gene annotation	Ser/Thr protein kinase, Negative regulator of innate immunity (O s05t0135800-01)
Parent gene strand	+
Alternative splicing	Os05g0135800_circ_g.3
Support reads	2/1
Tissues	root/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	Os05t0135800-01:6

			
						 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  
						
							TCAACATTGGCAGGCCACCCCAAGGCTTAGTGAAGACAAGGTTAGGCAATGTGTTGACTCAAGA
CTTGGAGGGGACTATCCTCCTAAAGCTGTCGCAAAGggtttgtttctagtagaatatgtcgtgc
tttgcatgctgtggtgatgaagatactcaaggagtaccagacaacaggaatccatacccaggga
accatcca

									
								

					

						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: 973
Transcript exons: 2098293-2098396,2098500-2098747,2098824-2098950,2099070-
2099343,2099425-2099557,2099655-2099741
GGTTTGTTTCTAGTAGAATATGTCGTGCTTTGCATGCTGTGGTGATGAAGATACTCAAGGAGTA
CCAGACAACAGGAATCCATACCCAGGGAACCATCCAGCAAGGAGCGATGCATATCGCACAGCTG
ATCCAACTCCAAGAGGTCCTCAACCTGTGAAAGTGCAACCAATTGCAGTCCCCATCATTCCTGT
TGATGAAATTAGGGAAGTGACTAAGAATTTTGGTGATGAAGCTTTGATTGGTGAAGGTTCCTTT
GGCAGAGTGTATTTTGGTGTTCTAAGAAATGGTAGAAGTGCAGCGGTCAAAAAGCTAGACTCTA
GTAAGCAGCCAGACCAAGAATTTTTGGCACAGGTATCTATGGTGTCGAGGCTTAAGCATGAACA
TGTTGTTGAGCTGCTTGGTTATTGTGTTGATGGAAATCTCCGTGTCCTTGCTTATGAGTTTGCG
ACTATGGGTTCTCTTCATGATATGCTTCATGGAAGGAAGGGTGTTAAAGGAGCTCAACCTGGTC
CAGTCTTATCATGGGCACAACGTGTGAAGATAGCTGTTGGGGCAGCAAAAGGCCTGGAGTATCT
TCATGAGAAAGCACAGCCTCATATCATACACAGGGACATCAAGTCCAGCAATGTTCTCCTTTTC
GATGATGATGTTGCTAAAATAGCTGACTTTGATTTGTCAAACCAAGCTCCTGACATGGCAGCTC
GGCTTCACTCTACTAGGGTTCTTGGAACCTTTGGATATCATGCACCTGAGTATGCAATGACTGG
ACAGCTTAGCTCCAAGAGTGATGTGTACAGTTTTGGAGTTGTTCTTCTTGAGCTATTGACCGGA
AGGAAACCTGTTGACCATACATTACCAAGGGGACAGCAGAGTCTTGTGACTTGGGCCACCCCAA
GGCTTAGTGAAGACAAGGTTAGGCAATGTGTTGACTCAAGACTTGGAGGGGACTATCCTCCTAA
AGCTGTCGCAAAG
						
					

						Genomic sequence
						
							GGTTTGTTTCTAGTAGAATATGTCGTGCTTTGCATGCTGTGGTGATGAAGATACTCAAGGAGTA
CCAGACAACAGGAATCCATACCCAGGGAACCATCCAGCAAGTAATGGCACTGGGCCTTTTGTTA
TAATCATCTGCATTGTCCCATTACATACTGTGGTTTACAGATGGTGCTCAAGTTTTACTGAACT
GCAATTTGTCTGCAGGGAGCGATGCATATCGCACAGCTGATCCAACTCCAAGAGGTCCTCAACC
TGTGAAAGTGCAACCAATTGCAGTCCCCATCATTCCTGTTGATGAAATTAGGGAAGTGACTAAG
AATTTTGGTGATGAAGCTTTGATTGGTGAAGGTTCCTTTGGCAGAGTGTATTTTGGTGTTCTAA
GAAATGGTAGAAGTGCAGCGGTCAAAAAGCTAGACTCTAGTAAGCAGCCAGACCAAGAATTTTT
GGCACAGGTCTGTGTTTATCTCTGTTAGGAATTCTGCAACAAGTTTTCTTTTTCTTGCAACTCA
TTTCAAAATGCATCCACAGGTATCTATGGTGTCGAGGCTTAAGCATGAACATGTTGTTGAGCTG
CTTGGTTATTGTGTTGATGGAAATCTCCGTGTCCTTGCTTATGAGTTTGCGACTATGGGTTCTC
TTCATGATATGCTTCATGGTATGGTCTTTGCACATCTGTGCTTTTGTTTCCTTTATTCATATCT
TGAACTCTTGATAGAATTATGGTGTTATTTTAAACTTTGAATACCATTAAATGTGGAAATTGTA
TGTTTACAGGAAGGAAGGGTGTTAAAGGAGCTCAACCTGGTCCAGTCTTATCATGGGCACAACG
TGTGAAGATAGCTGTTGGGGCAGCAAAAGGCCTGGAGTATCTTCATGAGAAAGCACAGCCTCAT
ATCATACACAGGGACATCAAGTCCAGCAATGTTCTCCTTTTCGATGATGATGTTGCTAAAATAG
CTGACTTTGATTTGTCAAACCAAGCTCCTGACATGGCAGCTCGGCTTCACTCTACTAGGGTTCT
TGGAACCTTTGGATATCATGCACCTGAGTATGTTCTGGTTTTCTTCAATTCTCTATAAACCTTC
AGAATTATATCAACTACTAATGTTGGTCTAAATTCTGTGGCCAGGTATGCAATGACTGGACAGC
TTAGCTCCAAGAGTGATGTGTACAGTTTTGGAGTTGTTCTTCTTGAGCTATTGACCGGAAGGAA
ACCTGTTGACCATACATTACCAAGGGGACAGCAGAGTCTTGTGACTTGGGTAAGTTTCAATCGC
ATATGCTATTCGCGGTTATTGGAATATTCTGGCTTGCATTCTATTTGGTGGGCTGAATTAATGG
TTTATTCAACATTGGCAGGCCACCCCAAGGCTTAGTGAAGACAAGGTTAGGCAATGTGTTGACT
CAAGACTTGGAGGGGACTATCCTCCTAAAGCTGTCGCAAAG
						
					

			
		

Sequences
Splice junction sequence	TCAACATTGGCAGGCCACCCCAAGGCTTAGTGAAGACAAGGTTAGGCAATGTGTTGACTCAAGA CTTGGAGGGGACTATCCTCCTAAAGCTGTCGCAAAGggtttgtttctagtagaatatgtcgtgc tttgcatgctgtggtgatgaagatactcaaggagtaccagacaacaggaatccatacccaggga accatcca
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: 973 Transcript exons: 2098293-2098396,2098500-2098747,2098824-2098950,2099070- 2099343,2099425-2099557,2099655-2099741 GGTTTGTTTCTAGTAGAATATGTCGTGCTTTGCATGCTGTGGTGATGAAGATACTCAAGGAGTA CCAGACAACAGGAATCCATACCCAGGGAACCATCCAGCAAGGAGCGATGCATATCGCACAGCTG ATCCAACTCCAAGAGGTCCTCAACCTGTGAAAGTGCAACCAATTGCAGTCCCCATCATTCCTGT TGATGAAATTAGGGAAGTGACTAAGAATTTTGGTGATGAAGCTTTGATTGGTGAAGGTTCCTTT GGCAGAGTGTATTTTGGTGTTCTAAGAAATGGTAGAAGTGCAGCGGTCAAAAAGCTAGACTCTA GTAAGCAGCCAGACCAAGAATTTTTGGCACAGGTATCTATGGTGTCGAGGCTTAAGCATGAACA TGTTGTTGAGCTGCTTGGTTATTGTGTTGATGGAAATCTCCGTGTCCTTGCTTATGAGTTTGCG ACTATGGGTTCTCTTCATGATATGCTTCATGGAAGGAAGGGTGTTAAAGGAGCTCAACCTGGTC CAGTCTTATCATGGGCACAACGTGTGAAGATAGCTGTTGGGGCAGCAAAAGGCCTGGAGTATCT TCATGAGAAAGCACAGCCTCATATCATACACAGGGACATCAAGTCCAGCAATGTTCTCCTTTTC GATGATGATGTTGCTAAAATAGCTGACTTTGATTTGTCAAACCAAGCTCCTGACATGGCAGCTC GGCTTCACTCTACTAGGGTTCTTGGAACCTTTGGATATCATGCACCTGAGTATGCAATGACTGG ACAGCTTAGCTCCAAGAGTGATGTGTACAGTTTTGGAGTTGTTCTTCTTGAGCTATTGACCGGA AGGAAACCTGTTGACCATACATTACCAAGGGGACAGCAGAGTCTTGTGACTTGGGCCACCCCAA GGCTTAGTGAAGACAAGGTTAGGCAATGTGTTGACTCAAGACTTGGAGGGGACTATCCTCCTAA AGCTGTCGCAAAG
Genomic sequence	GGTTTGTTTCTAGTAGAATATGTCGTGCTTTGCATGCTGTGGTGATGAAGATACTCAAGGAGTA CCAGACAACAGGAATCCATACCCAGGGAACCATCCAGCAAGTAATGGCACTGGGCCTTTTGTTA TAATCATCTGCATTGTCCCATTACATACTGTGGTTTACAGATGGTGCTCAAGTTTTACTGAACT GCAATTTGTCTGCAGGGAGCGATGCATATCGCACAGCTGATCCAACTCCAAGAGGTCCTCAACC TGTGAAAGTGCAACCAATTGCAGTCCCCATCATTCCTGTTGATGAAATTAGGGAAGTGACTAAG AATTTTGGTGATGAAGCTTTGATTGGTGAAGGTTCCTTTGGCAGAGTGTATTTTGGTGTTCTAA GAAATGGTAGAAGTGCAGCGGTCAAAAAGCTAGACTCTAGTAAGCAGCCAGACCAAGAATTTTT GGCACAGGTCTGTGTTTATCTCTGTTAGGAATTCTGCAACAAGTTTTCTTTTTCTTGCAACTCA TTTCAAAATGCATCCACAGGTATCTATGGTGTCGAGGCTTAAGCATGAACATGTTGTTGAGCTG CTTGGTTATTGTGTTGATGGAAATCTCCGTGTCCTTGCTTATGAGTTTGCGACTATGGGTTCTC TTCATGATATGCTTCATGGTATGGTCTTTGCACATCTGTGCTTTTGTTTCCTTTATTCATATCT TGAACTCTTGATAGAATTATGGTGTTATTTTAAACTTTGAATACCATTAAATGTGGAAATTGTA TGTTTACAGGAAGGAAGGGTGTTAAAGGAGCTCAACCTGGTCCAGTCTTATCATGGGCACAACG TGTGAAGATAGCTGTTGGGGCAGCAAAAGGCCTGGAGTATCTTCATGAGAAAGCACAGCCTCAT ATCATACACAGGGACATCAAGTCCAGCAATGTTCTCCTTTTCGATGATGATGTTGCTAAAATAG CTGACTTTGATTTGTCAAACCAAGCTCCTGACATGGCAGCTCGGCTTCACTCTACTAGGGTTCT TGGAACCTTTGGATATCATGCACCTGAGTATGTTCTGGTTTTCTTCAATTCTCTATAAACCTTC AGAATTATATCAACTACTAATGTTGGTCTAAATTCTGTGGCCAGGTATGCAATGACTGGACAGC TTAGCTCCAAGAGTGATGTGTACAGTTTTGGAGTTGTTCTTCTTGAGCTATTGACCGGAAGGAA ACCTGTTGACCATACATTACCAAGGGGACAGCAGAGTCTTGTGACTTGGGTAAGTTTCAATCGC ATATGCTATTCGCGGTTATTGGAATATTCTGGCTTGCATTCTATTTGGTGGGCTGAATTAATGG TTTATTCAACATTGGCAGGCCACCCCAAGGCTTAGTGAAGACAAGGTTAGGCAATGTGTTGACT CAAGACTTGGAGGGGACTATCCTCCTAAAGCTGTCGCAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.458833172

Conservation Information
Conserved circRNAs	NA
PMCS	0.458833172

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2098313-2098334(+)
2098391-2099727(-)
2098513-2099719(-)
						
						Potential amino acid sequence
						
							MSCFACCGDEDTQGVPDNRNPYPGNHPARSDAYRTADPTPRGPQPVKVQPIAVPIIPVDEIREV
TKNFGDEALIGEGSFGRVYFGVLRNGRSAAVKKLDSSKQPDQEFLAQVSMVSRLKHEHVVELLG
YCVDGNLRVLAYEFATMGSLHDMLHGRKGVKGAQPGPVLSWAQRVKIAVGAAKGLEYLHEKAQP
HIIHRDIKSSNVLLFDDDVAKIADFDLSNQAPDMAARLHSTRVLGTFGYHAPEYAMTGQLSSKS
DVYSFGVVLLELLTGRKPVDHTLPRGQQSLVTWATPRLSEDKVRQCVDSRLGGDYPPKAVAKGL
FLVEYVVLCMLW*(+)
MVPWVWIPVVWYSLSIFITTACKARHILLETNPLRQL*(-)
MHRSLLDGSLGMDSCCLVLLEYLHHHSMQSTTYSTRNKPFATALGG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2098313-2098334(+) 2098391-2099727(-) 2098513-2099719(-)
Potential amino acid sequence	MSCFACCGDEDTQGVPDNRNPYPGNHPARSDAYRTADPTPRGPQPVKVQPIAVPIIPVDEIREV TKNFGDEALIGEGSFGRVYFGVLRNGRSAAVKKLDSSKQPDQEFLAQVSMVSRLKHEHVVELLG YCVDGNLRVLAYEFATMGSLHDMLHGRKGVKGAQPGPVLSWAQRVKIAVGAAKGLEYLHEKAQP HIIHRDIKSSNVLLFDDDVAKIADFDLSNQAPDMAARLHSTRVLGTFGYHAPEYAMTGQLSSKS DVYSFGVVLLELLTGRKPVDHTLPRGQQSLVTWATPRLSEDKVRQCVDSRLGGDYPPKAVAKGL FLVEYVVLCMLW(+) MVPWVWIPVVWYSLSIFITTACKARHILLETNPLRQL(-) MHRSLLDGSLGMDSCCLVLLEYLHHHSMQSTTYSTRNKPFATALGG*(-)
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 Os05g0135800_circ_g.2

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