Plant Circular RNA Database

Detail information of Os09g0509500_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os09g0509500_circ_g.4
					
						ID in PlantcircBase
						osa_circ_039773
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 19776476-19778878  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0509500						
					
						Parent gene annotation
						
							Diacylglycerol acyltransferase domain containing protein. (Os09t
0509500-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0509500_circ_g.1 Os09g0509500_circ_g.2 Os09g0509500_circ_g.3 Os09g0509500_circ_g.5 Os09g0509500_circ_g.6 Os09g0509500_circ_g.7 						
					
						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  
						
							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
						Os09t0509500-00:8

General Information
CircRNA Name	Os09g0509500_circ_g.4
ID in PlantcircBase	osa_circ_039773
Alias	NA
Organism	Oryza sativa
Position	chr9: 19776476-19778878 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0509500
Parent gene annotation	Diacylglycerol acyltransferase domain containing protein. (Os09t 0509500-00)
Parent gene strand	-
Alternative splicing	Os09g0509500_circ_g.1 Os09g0509500_circ_g.2 Os09g0509500_circ_g.3 Os09g0509500_circ_g.5 Os09g0509500_circ_g.6 Os09g0509500_circ_g.7
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	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	Os09t0509500-00:8

			
						 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  
						
							GCAATGCATGCTCCAACGGATTCTCCGACTAGATAGACTGGTCTGTCTCTTGCTCTCTGGCCCT
CTGATTTCACTGCACTCTCCACATACTCAACTAGTCatcacatatatcatcttctccaactact
ccaaatggtattattgttgctccaaaccttgatgccatcctcacaaattcagactgctctggcc
aaaacaac

									
								

					

						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: 1219
Transcript exons: 19776476-19776589,19776763-19777106,19777253-19777412,19
777694-19777801,19777967-19778088,19778179-19778285,1977
8513-19778617,19778720-19778878
ATCACATATATCATCTTCTCCAACTACTCCAAATGGTATTATTGTTGCTCCAAACCTTGATGCC
ATCCTCACAAATTCAGACTGCTCTGGCCAAAACAACTTATACTCCTCTCCCTTTCTATGAAGCG
CTTCTCGCGCGCCTCCCGGGTACAGCAACACGAAGTGCTTCTCCGCGAGAAGCTTGTAAAAATT
GCCTGCGGTGACAGGCACGGCGCCCATGATCCGATGCATATCGTAGTAGGACGGATCCGGCATG
ATCTTCTCCTTCTTCTTGTCAAACATGAAGGGATGAGCCAAGCCTCTGATGTGGATCCCAGAGC
TTCTCAGCACTCCGGTCACCAGAGGTCCGAGCTCAAACCCCAACAGCATGTGGTACCCAACAAT
CACTGCAGGACCTTGCTTGGGTAGGCCTGACAAACCCCTCACAATCTTTCCATCAGGCAGTGTT
GATAGCATCACAAGCTTAAGTTGTTTTGAGAGATGGTACCTGATGTGATCAGTTGCCTTCTGAA
ATTCATCAGGAGTCAGTGGCAGATAGTCCGAAACAAAGTCCGTCTCCAACGAGCGGCGATAGTA
CCCAGCTCCTTTGATGGCCGTTGCCAGATCAAATTCAGCTTCCAGCAATATTTTGTGACCGTTG
TCTTTGAAATTACGGATTCTGCATTTCTCTAGAGCGTCACGTAGCCTTTCAGCTTCTTCTCGGC
TTGGTAGCAGTTCATCATTCCACTAGCAAGCACCAAAGTCTGCGCTTTAACTGCATGCAAACGG
GAATTGACAAATGATGACGCTGTTCTCAGCATTTTCAACTTCCAAACAATAGATTCCTTTGGCA
GAACATCAAGCAAAGACATAAGAGAAGGCAATAGACTAGTGGTGATCTCTGATAGTGCTTGACC
AGCTTCTTGAAATGAAAAACCACGCCCAACAATAGTCGACGGTATCTTCATGAAGTTGCCTGTC
AGGAAATTCAGCAACTGCGGTGTGGTTAAATGGAACGGTTCAGGGACCAAATCCAAGAAGACTG
AGAGAGACTGCAGCTGAGACTTATGGAAAGATGTTCCTGGGTTGACTAGGATCAATACCAAATC
GATATCTGGATTTCGCGCCGCCACGGCAAGAGCAATGCATGCTCCAACGGATTCTCCGACTAGA
TAGACTGGTCTGTCTCTTGCTCTCTGGCCCTCTGATTTCACTGCACTCTCCACATACTCAACTA
GTC
						
					

						Genomic sequence
						
							ATCACATATATCATCTTCTCCAACTACTCCAAATGGTATTATTGTTGCTCCAAACCTTGATGCC
ATCCTCACAAATTCAGACTGCTCTGGCCAAAACAACTTATACTCCTCTCCCTGAAGAACAGCCA
ATCCTCTAGTCAGTAGATTGATTTCATGATCTCACAGGTTCTATATGCCAAATTCAGATTGATT
TCATGGTATCACTGACTCTATGATCTATCTGCCAAATTCAAACTGATTTCATGATAACACTGGC
TCTATGATCCATCTGCCAAAACTGTTGCTACCTTTCTATGAAGCGCTTCTCGCGCGCCTCCCGG
GTACAGCAACACGAAGTGCTTCTCCGCGAGAAGCTTGTAAAAATTGCCTGCGGTGACAGGCACG
GCGCCCATGATCCGATGCATATCGTAGTAGGACGGATCCGGCATGATCTTCTCCTTCTTCTTGT
CAAACATGAAGGGATGAGCCAAGCCTCTGATGTGGATCCCAGAGCTTCTCAGCACTCCGGTCAC
CAGAGGTCCGAGCTCAAACCCCAACAGCATGTGGTACCCAACAATCACTGCAGGACCTTGCTTG
GGTAGGCCTGACAAACCCCTCACAATCTTTCCATCAGGCAGTGTTGATAGCATCACTGGGTTTG
CTATGTACTGCAACATCCTGAAAGTTTCAGAAATCCAGTAGAAAATGTTCAGTTTCATGTGACA
ATTTGTTAGTTATTACTCCAACAGTAGGAAATTTGCTCCCTGTAAAGGGGAATTGCATGGATTC
TGAATTGACCAAGCTTAAGTTGTTTTGAGAGATGGTACCTGATGTGATCAGTTGCCTTCTGAAA
TTCATCAGGAGTCAGTGGCAGATAGTCCGAAACAAAGTCCGTCTCCAACGAGCGGCGATAGTAC
CCAGCTCCTTTGATGGCCGTTGCCAGATCAAATTCAGCTTCCTATCCAATATTTTAAGGAGTTA
ACATGGACATGCCAAAGATGAAAATAGTGTCAAAGTAGGCTTAAGCTTAACATGGACATGGCAA
GGATGGACATAGTTATCTAAGCAATTTGGACTACGGATGGAATTTGCTCGATGTGTAGGACAAG
AACAGACTTGAAAATTGAATTGACAAATAAAAAACACTTTTTCTCTTCCTTGGACCAGTGAGAT
CTTAACATCAATACATTTTCTAAGACGCCTGGAATATGTAATGCAGAGAAACATGAGCTTTCAT
ACCAGCAATATTTTGTGACCGTTGTCTTTGAAATTACGGATTCTGCATTTCTCTAGAGCGTCAC
GTAGCCTTTCAGCTTCTTCTCGGCTTGGTAGCAGTTCATCATTCCAACTGGAAAAGAAAAGGAG
AATAGAATCTTCAGATCCAGTCCGAAGGAGGACCATAAGTTTCAGTATTACTTAATATCATATA
ATCCATGGAAAGACAGCATCAAGAGCAATGTGCACATTGCTAATTGCAAGGACATGATAAAAGT
TATCAGGAGCTAAACATACCTAGCAAGCACCAAAGTCTGCGCTTTAACTGCATGCAAACGGGAA
TTGACAAATGATGACGCTGTTCTCAGCATTTTCAACTTCCAAACAATAGATTCCTTTGGCAGAA
CATCAAGCAAAGACTGCATAAACAAGGGCATAAAATTAGTATTATGATGATTCAGACATGAACT
GACAAAGAAATTGGAGCAATGGTTAGATTCGAGTCTCACCATAAGAGAAGGCAATAGACTAGTG
GTGATCTCTGATAGTGCTTGACCAGCTTCTTGAAATGAAAAACCACGCCCAACAATAGTCGACG
GTATCTTCATGAAGTTGCCTAAAAACATTTTTTGGTCACTAATAAGCATTACATCTTATAATCA
GCTATAGGCGAAGCGATGGGTGAGCTTGGCTTCAAATGAGTCTACTCATTAATTTCATAAAGGC
TCAAAGTGCAGAAAAGTGAGCTAAACATGCAATTATACTTCTTCCCCAGTTGAGTAAAATAAAA
TCATTTATCCATCAAACAAGTCATAAATATTCTCATAGAGAAGTTAACCGAACCTGTCAGGAAA
TTCAGCAACTGCGGTGTGGTTAAATGGAACGGTTCAGGGACCAAATCCAAGAAGACTGAGAGAG
ACTGCAGCTGAGACTTATGGAAAGATGTTCCTGCAAGAAAACCATACAACAGAAGATAAGTCAG
TAATCACTTGTCACTGAAAGAAGATAAACAGAGAAAGAACAGAAAACTATGGCTAATGGCAGCA
AGACCTGGGTTGACTAGGATCAATACCAAATCGATATCTGGATTTCGCGCCGCCACGGCAAGAG
CAATGCATGCTCCAACGGATTCTCCGACTAGATAGACTGGTCTGTCTCTTGCTCTCTGGCCCTC
TGATTTCACTGCACTCTCCACATACTCAACTAGTC
						
					

			
		

Sequences
Splice junction sequence	GCAATGCATGCTCCAACGGATTCTCCGACTAGATAGACTGGTCTGTCTCTTGCTCTCTGGCCCT CTGATTTCACTGCACTCTCCACATACTCAACTAGTCatcacatatatcatcttctccaactact ccaaatggtattattgttgctccaaaccttgatgccatcctcacaaattcagactgctctggcc aaaacaac
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: 1219 Transcript exons: 19776476-19776589,19776763-19777106,19777253-19777412,19 777694-19777801,19777967-19778088,19778179-19778285,1977 8513-19778617,19778720-19778878 ATCACATATATCATCTTCTCCAACTACTCCAAATGGTATTATTGTTGCTCCAAACCTTGATGCC ATCCTCACAAATTCAGACTGCTCTGGCCAAAACAACTTATACTCCTCTCCCTTTCTATGAAGCG CTTCTCGCGCGCCTCCCGGGTACAGCAACACGAAGTGCTTCTCCGCGAGAAGCTTGTAAAAATT GCCTGCGGTGACAGGCACGGCGCCCATGATCCGATGCATATCGTAGTAGGACGGATCCGGCATG ATCTTCTCCTTCTTCTTGTCAAACATGAAGGGATGAGCCAAGCCTCTGATGTGGATCCCAGAGC TTCTCAGCACTCCGGTCACCAGAGGTCCGAGCTCAAACCCCAACAGCATGTGGTACCCAACAAT CACTGCAGGACCTTGCTTGGGTAGGCCTGACAAACCCCTCACAATCTTTCCATCAGGCAGTGTT GATAGCATCACAAGCTTAAGTTGTTTTGAGAGATGGTACCTGATGTGATCAGTTGCCTTCTGAA ATTCATCAGGAGTCAGTGGCAGATAGTCCGAAACAAAGTCCGTCTCCAACGAGCGGCGATAGTA CCCAGCTCCTTTGATGGCCGTTGCCAGATCAAATTCAGCTTCCAGCAATATTTTGTGACCGTTG TCTTTGAAATTACGGATTCTGCATTTCTCTAGAGCGTCACGTAGCCTTTCAGCTTCTTCTCGGC TTGGTAGCAGTTCATCATTCCACTAGCAAGCACCAAAGTCTGCGCTTTAACTGCATGCAAACGG GAATTGACAAATGATGACGCTGTTCTCAGCATTTTCAACTTCCAAACAATAGATTCCTTTGGCA GAACATCAAGCAAAGACATAAGAGAAGGCAATAGACTAGTGGTGATCTCTGATAGTGCTTGACC AGCTTCTTGAAATGAAAAACCACGCCCAACAATAGTCGACGGTATCTTCATGAAGTTGCCTGTC AGGAAATTCAGCAACTGCGGTGTGGTTAAATGGAACGGTTCAGGGACCAAATCCAAGAAGACTG AGAGAGACTGCAGCTGAGACTTATGGAAAGATGTTCCTGGGTTGACTAGGATCAATACCAAATC GATATCTGGATTTCGCGCCGCCACGGCAAGAGCAATGCATGCTCCAACGGATTCTCCGACTAGA TAGACTGGTCTGTCTCTTGCTCTCTGGCCCTCTGATTTCACTGCACTCTCCACATACTCAACTA GTC
Genomic sequence	ATCACATATATCATCTTCTCCAACTACTCCAAATGGTATTATTGTTGCTCCAAACCTTGATGCC ATCCTCACAAATTCAGACTGCTCTGGCCAAAACAACTTATACTCCTCTCCCTGAAGAACAGCCA ATCCTCTAGTCAGTAGATTGATTTCATGATCTCACAGGTTCTATATGCCAAATTCAGATTGATT TCATGGTATCACTGACTCTATGATCTATCTGCCAAATTCAAACTGATTTCATGATAACACTGGC TCTATGATCCATCTGCCAAAACTGTTGCTACCTTTCTATGAAGCGCTTCTCGCGCGCCTCCCGG GTACAGCAACACGAAGTGCTTCTCCGCGAGAAGCTTGTAAAAATTGCCTGCGGTGACAGGCACG GCGCCCATGATCCGATGCATATCGTAGTAGGACGGATCCGGCATGATCTTCTCCTTCTTCTTGT CAAACATGAAGGGATGAGCCAAGCCTCTGATGTGGATCCCAGAGCTTCTCAGCACTCCGGTCAC CAGAGGTCCGAGCTCAAACCCCAACAGCATGTGGTACCCAACAATCACTGCAGGACCTTGCTTG GGTAGGCCTGACAAACCCCTCACAATCTTTCCATCAGGCAGTGTTGATAGCATCACTGGGTTTG CTATGTACTGCAACATCCTGAAAGTTTCAGAAATCCAGTAGAAAATGTTCAGTTTCATGTGACA ATTTGTTAGTTATTACTCCAACAGTAGGAAATTTGCTCCCTGTAAAGGGGAATTGCATGGATTC TGAATTGACCAAGCTTAAGTTGTTTTGAGAGATGGTACCTGATGTGATCAGTTGCCTTCTGAAA TTCATCAGGAGTCAGTGGCAGATAGTCCGAAACAAAGTCCGTCTCCAACGAGCGGCGATAGTAC CCAGCTCCTTTGATGGCCGTTGCCAGATCAAATTCAGCTTCCTATCCAATATTTTAAGGAGTTA ACATGGACATGCCAAAGATGAAAATAGTGTCAAAGTAGGCTTAAGCTTAACATGGACATGGCAA GGATGGACATAGTTATCTAAGCAATTTGGACTACGGATGGAATTTGCTCGATGTGTAGGACAAG AACAGACTTGAAAATTGAATTGACAAATAAAAAACACTTTTTCTCTTCCTTGGACCAGTGAGAT CTTAACATCAATACATTTTCTAAGACGCCTGGAATATGTAATGCAGAGAAACATGAGCTTTCAT ACCAGCAATATTTTGTGACCGTTGTCTTTGAAATTACGGATTCTGCATTTCTCTAGAGCGTCAC GTAGCCTTTCAGCTTCTTCTCGGCTTGGTAGCAGTTCATCATTCCAACTGGAAAAGAAAAGGAG AATAGAATCTTCAGATCCAGTCCGAAGGAGGACCATAAGTTTCAGTATTACTTAATATCATATA ATCCATGGAAAGACAGCATCAAGAGCAATGTGCACATTGCTAATTGCAAGGACATGATAAAAGT TATCAGGAGCTAAACATACCTAGCAAGCACCAAAGTCTGCGCTTTAACTGCATGCAAACGGGAA TTGACAAATGATGACGCTGTTCTCAGCATTTTCAACTTCCAAACAATAGATTCCTTTGGCAGAA CATCAAGCAAAGACTGCATAAACAAGGGCATAAAATTAGTATTATGATGATTCAGACATGAACT GACAAAGAAATTGGAGCAATGGTTAGATTCGAGTCTCACCATAAGAGAAGGCAATAGACTAGTG GTGATCTCTGATAGTGCTTGACCAGCTTCTTGAAATGAAAAACCACGCCCAACAATAGTCGACG GTATCTTCATGAAGTTGCCTAAAAACATTTTTTGGTCACTAATAAGCATTACATCTTATAATCA GCTATAGGCGAAGCGATGGGTGAGCTTGGCTTCAAATGAGTCTACTCATTAATTTCATAAAGGC TCAAAGTGCAGAAAAGTGAGCTAAACATGCAATTATACTTCTTCCCCAGTTGAGTAAAATAAAA TCATTTATCCATCAAACAAGTCATAAATATTCTCATAGAGAAGTTAACCGAACCTGTCAGGAAA TTCAGCAACTGCGGTGTGGTTAAATGGAACGGTTCAGGGACCAAATCCAAGAAGACTGAGAGAG ACTGCAGCTGAGACTTATGGAAAGATGTTCCTGCAAGAAAACCATACAACAGAAGATAAGTCAG TAATCACTTGTCACTGAAAGAAGATAAACAGAGAAAGAACAGAAAACTATGGCTAATGGCAGCA AGACCTGGGTTGACTAGGATCAATACCAAATCGATATCTGGATTTCGCGCCGCCACGGCAAGAG CAATGCATGCTCCAACGGATTCTCCGACTAGATAGACTGGTCTGTCTCTTGCTCTCTGGCCCTC TGATTTCACTGCACTCTCCACATACTCAACTAGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.104710744

Conservation Information
Conserved circRNAs	NA
PMCS	0.104710744

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19778787-19776532(+)
19777106-19778875(-)
						
						Potential amino acid sequence
						
							MLQRILRLDRLVCLLLSGPLISLHSPHTQLVITYIIFSNYSKWYYCCSKP*(+)
MLSTLPDGKIVRGLSGLPKQGPAVIVGYHMLLGFELGPLVTGVLRSSGIHIRGLAHPFMFDKKK
EKIMPDPSYYDMHRIMGAVPVTAGNFYKLLAEKHFVLLYPGGAREALHRKGEEYKLFWPEQSEF
VRMASRFGATIIPFGVVGEDDICDD*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19778787-19776532(+) 19777106-19778875(-)
Potential amino acid sequence	MLQRILRLDRLVCLLLSGPLISLHSPHTQLVITYIIFSNYSKWYYCCSKP(+) MLSTLPDGKIVRGLSGLPKQGPAVIVGYHMLLGFELGPLVTGVLRSSGIHIRGLAHPFMFDKKK EKIMPDPSYYDMHRIMGAVPVTAGNFYKLLAEKHFVLLYPGGAREALHRKGEEYKLFWPEQSEF VRMASRFGATIIPFGVVGEDDICDD(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0509500_circ_g.4

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