Plant Circular RNA Database

Detail information of Os03g0284900_circ_g.9

			
						 General Information
					
						CircRNA Name
						Os03g0284900_circ_g.9
					
						ID in PlantcircBase
						osa_circ_019233
					
						Alias
						Os_ciR9240
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 9817950-9820328  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0284900						
					
						Parent gene annotation
						
							Annexin repeat, conserved site domain containing protein. (Os03t
0284900-01);Annexin repeat, conserved site domain containing pro
tein. (Os03t0284900-02);Hypothetical conserved gene. (Os03t02849
00-03);Similar to cDNA clone:001-032-C02, full insert sequence. 
(Os03t0284900-04)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0284900_circ_g.6 Os03g0284900_circ_g.7 Os03g0284900_circ_g.8 						
					
						Support reads
						2/2
					
						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  
						
							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
						Os03t0284900-03:4
Os03t0284900-02:5
Os03t0284900-01:5
Os03t0284900-04:1

General Information
CircRNA Name	Os03g0284900_circ_g.9
ID in PlantcircBase	osa_circ_019233
Alias	Os_ciR9240
Organism	Oryza sativa
Position	chr3: 9817950-9820328 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0284900
Parent gene annotation	Annexin repeat, conserved site domain containing protein. (Os03t 0284900-01);Annexin repeat, conserved site domain containing pro tein. (Os03t0284900-02);Hypothetical conserved gene. (Os03t02849 00-03);Similar to cDNA clone:001-032-C02, full insert sequence. (Os03t0284900-04)
Parent gene strand	-
Alternative splicing	Os03g0284900_circ_g.6 Os03g0284900_circ_g.7 Os03g0284900_circ_g.8
Support reads	2/2
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	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	Os03t0284900-03:4 Os03t0284900-02:5 Os03t0284900-01:5 Os03t0284900-04:1

			
						 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  
						
							AGGCAGGCTCACCTTATTGCCATATTTGGGTCACGCTTCTTGACAAATATTTTCAATACATCCA
TCGGATCCACAATGCCTTGAACAAAGAATCCACACTctgaatagctccatccctgttttgagat
gacccataaatatccatcagaatagaccagctaataaggtcagggcaaaggccatttcgcctca
tttcattc

									
								

					

						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: 1121
Transcript exons: 9817950-9818504,9818587-9818751,9819004-9819111,9819799-
9820003,9820241-9820328
CTGAATAGCTCCATCCCTGTTTTGAGATGACCCATAAATATCCATCAGAATAGACCAGCTAATA
AGGTCAGGGCAAAGGCCATTTCGCCTCATTTCATTCATTACAGATTTTGCGCGTTCTCCATTTG
TGCCACAGGCCTTCATTAGAATATTATATGTTGTAACTGTTGGTCTAAATGGAACCACTAACAG
AGTACTGCTGTTACTTGTATGTTCTTCACAGTATGAGAAGTTGTCACCAAAACATCCTTTCTGT
TCAGGGGATAGAGATATCTTGACTCCATATTCTTTCCAGTCATAGAACAAGCGGAAAGCTCTAT
CATACTGGCATGACTTAACACAACCAGTAAGGATAATATTGAAGCATGGAGCAGTAGGTTGACA
ACCATCCCTTGTCATTTCTTCAAGTATCTCTATGGCACGGTCAACTAAACCAGAATTTGCATAG
GCGTTGATTAATGATGACCATGTGACTAGGTTAAGACGAACACCAGCTGATTGCATATCCTGTT
TGATGTCGGAAGCCAGCTTCCACATTTTTGCATCTGCAAACACCTTCATCATTGTACTGTATGT
AAAAACATCTAACTTTAAAAGACCGTTCTGTTCCTTTTTCTTAATTTCCTCATAAATTTCTTGA
GCCAACTTATACTCCTTAGCGTTGCAGCATGTCTTCAGAAGAATGTTATATGATGTCAAATCAG
GAGGGACGCCAAGATTTTGCATGTGCTTGTAGACTGAAAAGTTGTAGCTGAAGCTATGGGCATT
CACATTCATAAGGCTGTTGAAGACATAGACATTTGGAGTAATCTTATCAGCAAGAAGCCCCTCG
AATATAATTCGAGCCTGCACAGAAGAACCACAATGACCACATATGTCGATGATACTTCGGCATG
CAAACATATTGATACCTCCAAACTGATCCTTGAGTGCTCCAAAGACTGTTAGAGCATGCTTTAA
CTCCTTTCTTTTCCCAAAAGCTTCCATTGTATTGCACAGCAAAAGTTGGGATTGAGGAAATATA
CGTGCATACCTTATTGCCATATTTGGGTCACGCTTCTTGACAAATATTTTCAATACATCCATCG
GATCCACAATGCCTTGAACAAAGAATCCACACT
						
					

						Genomic sequence
						
							CTGAATAGCTCCATCCCTGTTTTGAGATGACCCATAAATATCCATCAGAATAGACCAGCTAATA
AGGTCAGGGCAAAGGCCATTTCGCCTCATTTCATTCATTACAGATTTTGCGCGTTCTCCATTTG
TGCCACAGGCCTTCATTAGAATATTATATGTTGTAACTGTTGGTCTAAATGGAACCACTAACAG
AGTACTGCTGTTACTTGTATGTTCTTCACAGTATGAGAAGTTGTCACCAAAACATCCTTTCTGT
TCAGGGGATAGAGATATCTTGACTCCATATTCTTTCCAGTCATAGAACAAGCGGAAAGCTCTAT
CATACTGGCATGACTTAACACAACCAGTAAGGATAATATTGAAGCATGGAGCAGTAGGTTGACA
ACCATCCCTTGTCATTTCTTCAAGTATCTCTATGGCACGGTCAACTAAACCAGAATTTGCATAG
GCGTTGATTAATGATGACCATGTGACTAGGTTAAGACGAACACCAGCTGATTGCATATCCTGTT
TGATGTCGGAAGCCAGCTTCCACATTTTTGCATCTGCAAACACCTGGAATTTAAAAGAGAGAAG
AATTCTGGAAACCATAAAAAGGCAGCAAAACTTATGGAAAACAATAACTGGAGCTCCATACCTT
CATCATTGTACTGTATGTAAAAACATCTAACTTTAAAAGACCGTTCTGTTCCTTTTTCTTAATT
TCCTCATAAATTTCTTGAGCCAACTTATACTCCTTAGCGTTGCAGCATGTCTTCAGAAGAATGT
TATATGATGTCAAATCAGGAGGGACGCCAAGATTCTGCATAAATGGAGTAAACGGGAGCATAAG
TTCGCTGCACTGTAACCCAAGTTATCCCATTATAAATGAAGATAAAATATGAATGCACGATCAA
ATGCAGAACACACATGGACAGATAACAACAAGGAAGAACATGAGTTGGAAAATGGATGTGTAGT
AGAAAAGGAATGATTATTGCAATGCAACATGTAATCGCTTAAAGCTAAAATGGCCTACCTATGG
ACAATGAGAAGAAGGTAGAAAATGCATTACTTGCATGTGCTTGTAGACTGAAAAGTTGTAGCTG
AAGCTATGGGCATTCACATTCATAAGGCTGTTGAAGACATAGACATTTGGAGTAATCTTATCAG
CAAGAAGCCCCTGCACAGAAGTCACAGACATGAGAGAAGGCTGAACCTCCCTACCTGAATTAGT
GTAGCATTAGTCTACAAATAATTGGTGAAACAGTAATCTCTCTATTTTATTGGATATAACCCTG
TTAGGTAGTTAGATATTCCTTTTCCCTAATTTTTGTAATTTCTCCTTTTGGTTGTAATTCACAA
TTAGATGTAAGAGCCAAAAGGAAAAGGCAAGAAAAGAAATACATAGAAGCCATGTCTGACTTGT
CTACCACCTCTAAGGAATATCTGATGATTGCCCACCAACAAGGGGCCTGTTCGGACGCCTGGAC
TGCGGCTGCGCCACAGCCAGCACGAACAGTGCCATAGGCACAAGGCAGCTGCAGCCAGCCAGCC
AGCCAGCAGCTGCTGTACCCCCTTGTTTAACAGGCCCAAGATTTTGGGAGCACAGATTTACGTA
ACTGTATAGGTGTACTAATCACTCACTAACATCCTTAAAATAGAGATTATCTAATTGATTTACA
AAAGGAGTTTCCAGATTGATAAATCACAATGGGACTAAAAGCAACTGTGATTCATGGTGGTTTG
AAATGCTTTCACCTGGATGTTATTTACGGTGGTGTAAAATGTTTCCTCATAGATCTTCCACTTT
TTCACTCTTACTTATGAAAGTAGAAACATAAAGTGTGATCTCAAAGAATATCTATACCTCGAAT
ATAATTCGAGCCTGCACAGAAGAACCACAATGACCACATATGTCGATGATACTTCGGCATGCAA
ACATATTGATACCTCCAAACTGATCCTTGAGTGCTCCAAAGACTGTTAGAGCATGCTTTAACTC
CTTTCTTTTCCCAAAAGCTTCCATTGTATTGCACAGCAAAAGTTGGGATTGAGGAAATATACGT
GCATACCTATGTCCAAAATATATGCATCAGCAGGTAGCAGTATAGCCAAGAGAAAAGTTATAAC
TTGTCCCAAGAATTTCAAGGATGAAATCATCAGATAATATTAATGGTTTGCATAGATTTTAAAA
GAACTCTTCAGGGGAAAGTGTCCCAGATATTAGAAACAACCTTGATGTGATCATTATTTGGGTA
AATCACTAAAAGTCAACACGTGATGAAGAGGTATGTAGCAGGCAGGCTCACCTTATTGCCATAT
TTGGGTCACGCTTCTTGACAAATATTTTCAATACATCCATCGGATCCACAATGCCTTGAACAAA
GAATCCACACT
						
					

			
		

Sequences
Splice junction sequence	AGGCAGGCTCACCTTATTGCCATATTTGGGTCACGCTTCTTGACAAATATTTTCAATACATCCA TCGGATCCACAATGCCTTGAACAAAGAATCCACACTctgaatagctccatccctgttttgagat gacccataaatatccatcagaatagaccagctaataaggtcagggcaaaggccatttcgcctca tttcattc
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: 1121 Transcript exons: 9817950-9818504,9818587-9818751,9819004-9819111,9819799- 9820003,9820241-9820328 CTGAATAGCTCCATCCCTGTTTTGAGATGACCCATAAATATCCATCAGAATAGACCAGCTAATA AGGTCAGGGCAAAGGCCATTTCGCCTCATTTCATTCATTACAGATTTTGCGCGTTCTCCATTTG TGCCACAGGCCTTCATTAGAATATTATATGTTGTAACTGTTGGTCTAAATGGAACCACTAACAG AGTACTGCTGTTACTTGTATGTTCTTCACAGTATGAGAAGTTGTCACCAAAACATCCTTTCTGT TCAGGGGATAGAGATATCTTGACTCCATATTCTTTCCAGTCATAGAACAAGCGGAAAGCTCTAT CATACTGGCATGACTTAACACAACCAGTAAGGATAATATTGAAGCATGGAGCAGTAGGTTGACA ACCATCCCTTGTCATTTCTTCAAGTATCTCTATGGCACGGTCAACTAAACCAGAATTTGCATAG GCGTTGATTAATGATGACCATGTGACTAGGTTAAGACGAACACCAGCTGATTGCATATCCTGTT TGATGTCGGAAGCCAGCTTCCACATTTTTGCATCTGCAAACACCTTCATCATTGTACTGTATGT AAAAACATCTAACTTTAAAAGACCGTTCTGTTCCTTTTTCTTAATTTCCTCATAAATTTCTTGA GCCAACTTATACTCCTTAGCGTTGCAGCATGTCTTCAGAAGAATGTTATATGATGTCAAATCAG GAGGGACGCCAAGATTTTGCATGTGCTTGTAGACTGAAAAGTTGTAGCTGAAGCTATGGGCATT CACATTCATAAGGCTGTTGAAGACATAGACATTTGGAGTAATCTTATCAGCAAGAAGCCCCTCG AATATAATTCGAGCCTGCACAGAAGAACCACAATGACCACATATGTCGATGATACTTCGGCATG CAAACATATTGATACCTCCAAACTGATCCTTGAGTGCTCCAAAGACTGTTAGAGCATGCTTTAA CTCCTTTCTTTTCCCAAAAGCTTCCATTGTATTGCACAGCAAAAGTTGGGATTGAGGAAATATA CGTGCATACCTTATTGCCATATTTGGGTCACGCTTCTTGACAAATATTTTCAATACATCCATCG GATCCACAATGCCTTGAACAAAGAATCCACACT
Genomic sequence	CTGAATAGCTCCATCCCTGTTTTGAGATGACCCATAAATATCCATCAGAATAGACCAGCTAATA AGGTCAGGGCAAAGGCCATTTCGCCTCATTTCATTCATTACAGATTTTGCGCGTTCTCCATTTG TGCCACAGGCCTTCATTAGAATATTATATGTTGTAACTGTTGGTCTAAATGGAACCACTAACAG AGTACTGCTGTTACTTGTATGTTCTTCACAGTATGAGAAGTTGTCACCAAAACATCCTTTCTGT TCAGGGGATAGAGATATCTTGACTCCATATTCTTTCCAGTCATAGAACAAGCGGAAAGCTCTAT CATACTGGCATGACTTAACACAACCAGTAAGGATAATATTGAAGCATGGAGCAGTAGGTTGACA ACCATCCCTTGTCATTTCTTCAAGTATCTCTATGGCACGGTCAACTAAACCAGAATTTGCATAG GCGTTGATTAATGATGACCATGTGACTAGGTTAAGACGAACACCAGCTGATTGCATATCCTGTT TGATGTCGGAAGCCAGCTTCCACATTTTTGCATCTGCAAACACCTGGAATTTAAAAGAGAGAAG AATTCTGGAAACCATAAAAAGGCAGCAAAACTTATGGAAAACAATAACTGGAGCTCCATACCTT CATCATTGTACTGTATGTAAAAACATCTAACTTTAAAAGACCGTTCTGTTCCTTTTTCTTAATT TCCTCATAAATTTCTTGAGCCAACTTATACTCCTTAGCGTTGCAGCATGTCTTCAGAAGAATGT TATATGATGTCAAATCAGGAGGGACGCCAAGATTCTGCATAAATGGAGTAAACGGGAGCATAAG TTCGCTGCACTGTAACCCAAGTTATCCCATTATAAATGAAGATAAAATATGAATGCACGATCAA ATGCAGAACACACATGGACAGATAACAACAAGGAAGAACATGAGTTGGAAAATGGATGTGTAGT AGAAAAGGAATGATTATTGCAATGCAACATGTAATCGCTTAAAGCTAAAATGGCCTACCTATGG ACAATGAGAAGAAGGTAGAAAATGCATTACTTGCATGTGCTTGTAGACTGAAAAGTTGTAGCTG AAGCTATGGGCATTCACATTCATAAGGCTGTTGAAGACATAGACATTTGGAGTAATCTTATCAG CAAGAAGCCCCTGCACAGAAGTCACAGACATGAGAGAAGGCTGAACCTCCCTACCTGAATTAGT GTAGCATTAGTCTACAAATAATTGGTGAAACAGTAATCTCTCTATTTTATTGGATATAACCCTG TTAGGTAGTTAGATATTCCTTTTCCCTAATTTTTGTAATTTCTCCTTTTGGTTGTAATTCACAA TTAGATGTAAGAGCCAAAAGGAAAAGGCAAGAAAAGAAATACATAGAAGCCATGTCTGACTTGT CTACCACCTCTAAGGAATATCTGATGATTGCCCACCAACAAGGGGCCTGTTCGGACGCCTGGAC TGCGGCTGCGCCACAGCCAGCACGAACAGTGCCATAGGCACAAGGCAGCTGCAGCCAGCCAGCC AGCCAGCAGCTGCTGTACCCCCTTGTTTAACAGGCCCAAGATTTTGGGAGCACAGATTTACGTA ACTGTATAGGTGTACTAATCACTCACTAACATCCTTAAAATAGAGATTATCTAATTGATTTACA AAAGGAGTTTCCAGATTGATAAATCACAATGGGACTAAAAGCAACTGTGATTCATGGTGGTTTG AAATGCTTTCACCTGGATGTTATTTACGGTGGTGTAAAATGTTTCCTCATAGATCTTCCACTTT TTCACTCTTACTTATGAAAGTAGAAACATAAAGTGTGATCTCAAAGAATATCTATACCTCGAAT ATAATTCGAGCCTGCACAGAAGAACCACAATGACCACATATGTCGATGATACTTCGGCATGCAA ACATATTGATACCTCCAAACTGATCCTTGAGTGCTCCAAAGACTGTTAGAGCATGCTTTAACTC CTTTCTTTTCCCAAAAGCTTCCATTGTATTGCACAGCAAAAGTTGGGATTGAGGAAATATACGT GCATACCTATGTCCAAAATATATGCATCAGCAGGTAGCAGTATAGCCAAGAGAAAAGTTATAAC TTGTCCCAAGAATTTCAAGGATGAAATCATCAGATAATATTAATGGTTTGCATAGATTTTAAAA GAACTCTTCAGGGGAAAGTGTCCCAGATATTAGAAACAACCTTGATGTGATCATTATTTGGGTA AATCACTAAAAGTCAACACGTGATGAAGAGGTATGTAGCAGGCAGGCTCACCTTATTGCCATAT TTGGGTCACGCTTCTTGACAAATATTTTCAATACATCCATCGGATCCACAATGCCTTGAACAAA GAATCCACACT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.167486094

Conservation Information
Conserved circRNAs	NA
PMCS	0.167486094

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9817986-9820261(-)
9820295-9820283(-)
						
						Potential amino acid sequence
						
							MGHLKTGMELFRVWILCSRHCGSDGCIENICQEA*(-)
MDVLKIFVKKRDPNMAIRYARIFPQSQLLLCNTMEAFGKRKELKHALTVFGALKDQFGGINMFA
CRSIIDICGHCGSSVQARIIFEGLLADKITPNVYVFNSLMNVNAHSFSYNFSVYKHMQNLGVPP
DLTSYNILLKTCCNAKEYKLAQEIYEEIKKKEQNGLLKLDVFTYSTMMKVFADAKMWKLASDIK
QDMQSAGVRLNLVTWSSLINAYANSGLVDRAIEILEEMTRDGCQPTAPCFNIILTGCVKSCQYD
RAFRLFYDWKEYGVKISLSPEQKGCFGDNFSYCEEHTSNSSTLLVVPFRPTVTTYNILMKACGT
NGERAKSVMNEMRRNGLCPDLISWSILMDIYGSSQNRDGAIQSVDSLFKALWIRWMY*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9817986-9820261(-) 9820295-9820283(-)
Potential amino acid sequence	MGHLKTGMELFRVWILCSRHCGSDGCIENICQEA(-) MDVLKIFVKKRDPNMAIRYARIFPQSQLLLCNTMEAFGKRKELKHALTVFGALKDQFGGINMFA CRSIIDICGHCGSSVQARIIFEGLLADKITPNVYVFNSLMNVNAHSFSYNFSVYKHMQNLGVPP DLTSYNILLKTCCNAKEYKLAQEIYEEIKKKEQNGLLKLDVFTYSTMMKVFADAKMWKLASDIK QDMQSAGVRLNLVTWSSLINAYANSGLVDRAIEILEEMTRDGCQPTAPCFNIILTGCVKSCQYD RAFRLFYDWKEYGVKISLSPEQKGCFGDNFSYCEEHTSNSSTLLVVPFRPTVTTYNILMKACGT NGERAKSVMNEMRRNGLCPDLISWSILMDIYGSSQNRDGAIQSVDSLFKALWIRWMY(-)
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 Os03g0284900_circ_g.9

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