Plant Circular RNA Database

Detail information of Os03g0401100_circ_g.16

			
						 General Information
					
						CircRNA Name
						Os03g0401100_circ_g.16
					
						ID in PlantcircBase
						osa_circ_020209
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 16285663-16286845  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0401100						
					
						Parent gene annotation
						
							Similar to Protein kinase domain containing protein, expressed. 
(Os03t0401100-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0401100_circ_g.17 Os03g0401100_circ_g.18 Os03g0401100_circ_g.19 Os03g0401100_circ_g.20 						
					
						Support reads
						1
					
						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
						Os03t0401100-01:2

General Information
CircRNA Name	Os03g0401100_circ_g.16
ID in PlantcircBase	osa_circ_020209
Alias	NA
Organism	Oryza sativa
Position	chr3: 16285663-16286845 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0401100
Parent gene annotation	Similar to Protein kinase domain containing protein, expressed. (Os03t0401100-01)
Parent gene strand	+
Alternative splicing	Os03g0401100_circ_g.17 Os03g0401100_circ_g.18 Os03g0401100_circ_g.19 Os03g0401100_circ_g.20
Support reads	1
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	Os03t0401100-01:2

			
						 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  
						
							GATGAAACAAGCGACTCTTGTTTCTGGTGGAATGAGAGGAACTCTTCCTTGGATGGCTCCAGAA
TTGCTGACAATGAGTGGCACAAAAGTATCCGAAAAGgtaataaacaatggggaccttgaagatc
tccgtgagataggctctggttcatttgggactgttttccatggaagatggaaggggacagatgt
tgccatta

									
								

					

						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: 1023
Transcript exons: 16285663-16286562,16286723-16286845
GTAATAAACAATGGGGACCTTGAAGATCTCCGTGAGATAGGCTCTGGTTCATTTGGGACTGTTT
TCCATGGAAGATGGAAGGGGACAGATGTTGCCATTAAGCGCATAAAGAACAGCTGTTTTATGTA
CCCATCGTCTCAGGCAGATAAACTGGTAAGCCTATATGAACTCACCCAGATGATTTGAAGTTGC
AATAGCTAGTTAGCTCCTGAGGTCTTGTACTCCAGTAATCCAACTTTTAAAAGATCCTCATGAT
TGTGCATGCCTATCACATGTAGTCATATTAATTTTATCTTACTCTTTGAATTGAAAAAAGAAAT
AAAACTATAGATCAACAATCCCACCAATATGTCCTATAAACCAACTACATTGGCCAATATCGGA
CCCAGACCAGGGAGCTCCTCACCAGGTGAGAACAGCTGGTATGGAATACGACCAAGAGCTGCAG
TGGCCAACTGGTTCCAGAAATAAGACACCTCTATGGCTCTGAAATCCTAGTATAGAAATTCAGT
ATTAACTAAAATTTAGCACTATAAAAAAAATGTGCTGCAAATATTACTGTGTTGCCCATCATGT
ATTGTCATGCAGATCACAGAATTTTGGAGAGAGGCTGCTATAATCTCAAAACTTCACCATCCAA
ATGTTCTAGCACTTTATGGTATTGTAAATAATGGACCTGGGGGAACATTAGCTACTGTAACAGA
ATTCATGATCAATGGATCCCTCAAGAAAGTCCTCCTTCACAAAAACAAATATCTTGATTGGCGC
AAGCGCATAATGGTTGCAAAGGATGCAGCCATTGGAATGGAATACTTGCACTCCAAGGACATTG
TCCACTTTGATCTGAAATGTGATAACTTGTTGGTGAATATTAAGGATCCCTCTCGTCCCATATG
CAAGGTTGCTGATTTTGGTTTGTCGAAGATGAAACAAGCGACTCTTGTTTCTGGTGGAATGAGA
GGAACTCTTCCTTGGATGGCTCCAGAATTGCTGACAATGAGTGGCACAAAAGTATCCGAAAAG
						
					

						Genomic sequence
						
							GTAATAAACAATGGGGACCTTGAAGATCTCCGTGAGATAGGCTCTGGTTCATTTGGGACTGTTT
TCCATGGAAGATGGAAGGGGACAGATGTTGCCATTAAGCGCATAAAGAACAGCTGTTTTATGTA
CCCATCGTCTCAGGCAGATAAACTGGTAAGCCTATATGAACTCACCCAGATGATTTGAAGTTGC
AATAGCTAGTTAGCTCCTGAGGTCTTGTACTCCAGTAATCCAACTTTTAAAAGATCCTCATGAT
TGTGCATGCCTATCACATGTAGTCATATTAATTTTATCTTACTCTTTGAATTGAAAAAAGAAAT
AAAACTATAGATCAACAATCCCACCAATATGTCCTATAAACCAACTACATTGGCCAATATCGGA
CCCAGACCAGGGAGCTCCTCACCAGGTGAGAACAGCTGGTATGGAATACGACCAAGAGCTGCAG
TGGCCAACTGGTTCCAGAAATAAGACACCTCTATGGCTCTGAAATCCTAGTATAGAAATTCAGT
ATTAACTAAAATTTAGCACTATAAAAAAAATGTGCTGCAAATATTACTGTGTTGCCCATCATGT
ATTGTCATGCAGATCACAGAATTTTGGAGAGAGGCTGCTATAATCTCAAAACTTCACCATCCAA
ATGTTCTAGCACTTTATGGTATTGTAAATAATGGACCTGGGGGAACATTAGCTACTGTAACAGA
ATTCATGATCAATGGATCCCTCAAGAAAGTCCTCCTTCACAAAAACAAATATCTTGATTGGCGC
AAGCGCATAATGGTTGCAAAGGATGCAGCCATTGGAATGGAATACTTGCACTCCAAGGACATTG
TCCACTTTGATCTGAAATGTGATAACTTGTTGGTGAATATTAAGGATCCCTCTCGTCCCATATG
CAAGGTATGTTCACTTAACGTTACAGTAGCATAGATTATGACAAAATTATCTTGTACATGCAAA
TGTGTGGATAAATATGTTTCACACCTTAGATTTGTTATATAAACTGAAGGATATTGTGTATAAA
ACTGGGGGCCGTAACAGACAAATAATGGTGCAACAGGTTGCTGATTTTGGTTTGTCGAAGATGA
AACAAGCGACTCTTGTTTCTGGTGGAATGAGAGGAACTCTTCCTTGGATGGCTCCAGAATTGCT
GACAATGAGTGGCACAAAAGTATCCGAAAAG
						
					

			
		

Sequences
Splice junction sequence	GATGAAACAAGCGACTCTTGTTTCTGGTGGAATGAGAGGAACTCTTCCTTGGATGGCTCCAGAA TTGCTGACAATGAGTGGCACAAAAGTATCCGAAAAGgtaataaacaatggggaccttgaagatc tccgtgagataggctctggttcatttgggactgttttccatggaagatggaaggggacagatgt tgccatta
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: 1023 Transcript exons: 16285663-16286562,16286723-16286845 GTAATAAACAATGGGGACCTTGAAGATCTCCGTGAGATAGGCTCTGGTTCATTTGGGACTGTTT TCCATGGAAGATGGAAGGGGACAGATGTTGCCATTAAGCGCATAAAGAACAGCTGTTTTATGTA CCCATCGTCTCAGGCAGATAAACTGGTAAGCCTATATGAACTCACCCAGATGATTTGAAGTTGC AATAGCTAGTTAGCTCCTGAGGTCTTGTACTCCAGTAATCCAACTTTTAAAAGATCCTCATGAT TGTGCATGCCTATCACATGTAGTCATATTAATTTTATCTTACTCTTTGAATTGAAAAAAGAAAT AAAACTATAGATCAACAATCCCACCAATATGTCCTATAAACCAACTACATTGGCCAATATCGGA CCCAGACCAGGGAGCTCCTCACCAGGTGAGAACAGCTGGTATGGAATACGACCAAGAGCTGCAG TGGCCAACTGGTTCCAGAAATAAGACACCTCTATGGCTCTGAAATCCTAGTATAGAAATTCAGT ATTAACTAAAATTTAGCACTATAAAAAAAATGTGCTGCAAATATTACTGTGTTGCCCATCATGT ATTGTCATGCAGATCACAGAATTTTGGAGAGAGGCTGCTATAATCTCAAAACTTCACCATCCAA ATGTTCTAGCACTTTATGGTATTGTAAATAATGGACCTGGGGGAACATTAGCTACTGTAACAGA ATTCATGATCAATGGATCCCTCAAGAAAGTCCTCCTTCACAAAAACAAATATCTTGATTGGCGC AAGCGCATAATGGTTGCAAAGGATGCAGCCATTGGAATGGAATACTTGCACTCCAAGGACATTG TCCACTTTGATCTGAAATGTGATAACTTGTTGGTGAATATTAAGGATCCCTCTCGTCCCATATG CAAGGTTGCTGATTTTGGTTTGTCGAAGATGAAACAAGCGACTCTTGTTTCTGGTGGAATGAGA GGAACTCTTCCTTGGATGGCTCCAGAATTGCTGACAATGAGTGGCACAAAAGTATCCGAAAAG
Genomic sequence	GTAATAAACAATGGGGACCTTGAAGATCTCCGTGAGATAGGCTCTGGTTCATTTGGGACTGTTT TCCATGGAAGATGGAAGGGGACAGATGTTGCCATTAAGCGCATAAAGAACAGCTGTTTTATGTA CCCATCGTCTCAGGCAGATAAACTGGTAAGCCTATATGAACTCACCCAGATGATTTGAAGTTGC AATAGCTAGTTAGCTCCTGAGGTCTTGTACTCCAGTAATCCAACTTTTAAAAGATCCTCATGAT TGTGCATGCCTATCACATGTAGTCATATTAATTTTATCTTACTCTTTGAATTGAAAAAAGAAAT AAAACTATAGATCAACAATCCCACCAATATGTCCTATAAACCAACTACATTGGCCAATATCGGA CCCAGACCAGGGAGCTCCTCACCAGGTGAGAACAGCTGGTATGGAATACGACCAAGAGCTGCAG TGGCCAACTGGTTCCAGAAATAAGACACCTCTATGGCTCTGAAATCCTAGTATAGAAATTCAGT ATTAACTAAAATTTAGCACTATAAAAAAAATGTGCTGCAAATATTACTGTGTTGCCCATCATGT ATTGTCATGCAGATCACAGAATTTTGGAGAGAGGCTGCTATAATCTCAAAACTTCACCATCCAA ATGTTCTAGCACTTTATGGTATTGTAAATAATGGACCTGGGGGAACATTAGCTACTGTAACAGA ATTCATGATCAATGGATCCCTCAAGAAAGTCCTCCTTCACAAAAACAAATATCTTGATTGGCGC AAGCGCATAATGGTTGCAAAGGATGCAGCCATTGGAATGGAATACTTGCACTCCAAGGACATTG TCCACTTTGATCTGAAATGTGATAACTTGTTGGTGAATATTAAGGATCCCTCTCGTCCCATATG CAAGGTATGTTCACTTAACGTTACAGTAGCATAGATTATGACAAAATTATCTTGTACATGCAAA TGTGTGGATAAATATGTTTCACACCTTAGATTTGTTATATAAACTGAAGGATATTGTGTATAAA ACTGGGGGCCGTAACAGACAAATAATGGTGCAACAGGTTGCTGATTTTGGTTTGTCGAAGATGA AACAAGCGACTCTTGTTTCTGGTGGAATGAGAGGAACTCTTCCTTGGATGGCTCCAGAATTGCT GACAATGAGTGGCACAAAAGTATCCGAAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.267344724

Conservation Information
Conserved circRNAs	NA
PMCS	0.267344724

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16286246-16285845(+)
16285771-16286405(-)
16285716-16286536(-)
						
						Potential amino acid sequence
						
							MQITEFWREAAIISKLHHPNVLALYGIVNNGPGGTLATVTEFMINGSLKKVLLHKNKYLDWRKR
IMVAKDAAIGMEYLHSKDIVHFDLKCDNLLVNIKDPSRPICKVADFGLSKMKQATLVSGGMRGT
LPWMAPELLTMSGTKVSEKVINNGDLEDLREIGSGSFGTVFHGRWKGTDVAIKRIKNSCFMYPS
SQADKLVSLYELTQMI*(+)
MRLMATSVPFHLPWKTVPNEPEPISRRSSRSPLFITFSDTFVPLIVSNSGAIQGRVPLIPPETR
VACFIFDKPKSATLHMGREGSLIFTNKLSHFRSKWTMSLECKYSIPMAASFATIMRLRQSRYLF
L*(-)
MNQSLSHGDLQGPHCLLPFRILLCHSLSAILEPSKEEFLSFHQKQESLVSSSTNQNQQPCIWDE
RDP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	16286246-16285845(+) 16285771-16286405(-) 16285716-16286536(-)
Potential amino acid sequence	MQITEFWREAAIISKLHHPNVLALYGIVNNGPGGTLATVTEFMINGSLKKVLLHKNKYLDWRKR IMVAKDAAIGMEYLHSKDIVHFDLKCDNLLVNIKDPSRPICKVADFGLSKMKQATLVSGGMRGT LPWMAPELLTMSGTKVSEKVINNGDLEDLREIGSGSFGTVFHGRWKGTDVAIKRIKNSCFMYPS SQADKLVSLYELTQMI(+) MRLMATSVPFHLPWKTVPNEPEPISRRSSRSPLFITFSDTFVPLIVSNSGAIQGRVPLIPPETR VACFIFDKPKSATLHMGREGSLIFTNKLSHFRSKWTMSLECKYSIPMAASFATIMRLRQSRYLF L(-) MNQSLSHGDLQGPHCLLPFRILLCHSLSAILEPSKEEFLSFHQKQESLVSSSTNQNQQPCIWDE RDP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0401100_circ_g.16

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