Plant Circular RNA Database

Detail information of Os03g0845500_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0845500_circ_g.3
					
						ID in PlantcircBase
						osa_circ_022683
					
						Alias
						Os_ciR5379
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 35550028-35551483  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os03g0845500						
					
						Parent gene annotation
						
							Similar to Acyl-CoA synthetase-like protein. (Os03t0845500-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0845500_circ_g.1 Os03g0845500_circ_g.2 Os03g0845500_circ_g.4 Os03g0845500_circ_g.5 Os03g0845500_circ_g.6 						
					
						Support reads
						3/7
					
						Tissues
						root/root, seed
					
						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
						Os03t0845500-01:4

General Information
CircRNA Name	Os03g0845500_circ_g.3
ID in PlantcircBase	osa_circ_022683
Alias	Os_ciR5379
Organism	Oryza sativa
Position	chr3: 35550028-35551483 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	Os03g0845500
Parent gene annotation	Similar to Acyl-CoA synthetase-like protein. (Os03t0845500-01)
Parent gene strand	-
Alternative splicing	Os03g0845500_circ_g.1 Os03g0845500_circ_g.2 Os03g0845500_circ_g.4 Os03g0845500_circ_g.5 Os03g0845500_circ_g.6
Support reads	3/7
Tissues	root/root, seed
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	Os03t0845500-01:4

			
						 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  
						
							TCACAACCCCCTTTGAACCATCTGGAAGAACCTCACCAGTCTCCATATCCACAACCTTGATTTC
CGTGTGCTTTACTGGGTGGCCAACTGTGCCAAGAACcaagttctcagctcatcatatagcaagt
tcaaaaccttatctttggctagttcgttattcccatcaagaatggacttccttttagctgttgc
tagaactt

									
								

					

						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: 206
Transcript exons: 35550028-35550163,35551414-35551483
CAAGTTCTCAGCTCATCATATAGCAAGTTCAAAACCTTATCTTTGGCTAGTTCGTTATTCCCAT
CAAGAATGGACTTCCTTTTAGCTGTTGCTAGAACTTCATCATAGTTGGGAACGATAAGAGCACC
AATTCGCCCCTCACCAGTCTCCATATCCACAACCTTGATTTCCGTGTGCTTTACTGGGTGGCCA
ACTGTGCCAAGAAC
Transcript length: 227
Transcript exons: 35550028-35550164,35551394-35551483
CAAGTTCTCAGCTCATCATATAGCAAGTTCAAAACCTTATCTTTGGCTAGTTCGTTATTCCCAT
CAAGAATGGACTTCCTTTTAGCTGTTGCTAGAACTTCATCATAGTTGGGAACGATAAGAGCACC
AATTCGCCGCTTTGAACCATCTGGAAGAACCTCACCAGTCTCCATATCCACAACCTTGATTTCC
GTGTGCTTTACTGGGTGGCCAACTGTGCCAAGAAC
Transcript length: 521
Transcript exons: 35550028-35550170,35550439-35550518,35550731-35550890,35
551346-35551483
CAAGTTCTCAGCTCATCATATAGCAAGTTCAAAACCTTATCTTTGGCTAGTTCGTTATTCCCAT
CAAGAATGGACTTCCTTTTAGCTGTTGCTAGAACTTCATCATAGTTGGGAACGATAAGAGCACC
AATTCGCCGCTTGTCCTGGCCAACAACAACTATCTGATTAATCAAGTCACTCCTGCTGGCTGCT
TCCTCAATCTCAGCAGGTTCAACATTTTCACCTGTTGTGAGAACTATTGTATCTTTTGCACGCC
CTTCAAGAACAAGCATCCCTCCACACTTCCGACTTGGCCCTGTTGGACAGTGAGGTGCAATCCA
ACCAATATCCCCTGTGTCAAACCAACCTTCTTGATCCAAAACTTTATTTGTAGCTGACGGATTC
TTGTAATATCCCTTCATCACTTGGGGTCCTCTGACTTTCACAACCCCCTTTGAACCATCTGGAA
GAACCTCACCAGTCTCCATATCCACAACCTTGATTTCCGTGTGCTTTACTGGGTGGCCAACTGT
GCCAAGAAC
						
					

						Genomic sequence
						
							CAAGTTCTCAGCTCATCATATAGCAAGTTCAAAACCTTATCTTTGGCTAGTTCGTTATTCCCAT
CAAGAATGGACTTCCTTTTAGCTGTTGCTAGAACTTCATCATAGTTGGGAACGATAAGAGCACC
AATTCGCCGCTTGTCCTATGCAAAGAACAAACACATAAAGTTCATGATTTTGCTGGTGCACTAA
TATTTTTCATCACTCAATCTTCAAATAAAATTCCATCATAGACAACAATTAAGGTGGTCAAGGT
TACAAGTTTCAAATAATGGTGACCCAGTGATTCTACAAATTATATTTCCTTACCGATTGAAGAA
CAAATATTTACCCACATAAAGGAGCCTAAAGTGACAGATGTAATAATAACGACAATACATATGT
ATCTCTATTCTTTAGATCATCTCATACCTGGCCAACAACAACTATCTGATTAATCAAGTCACTC
CTGCTGGCTGCTTCCTCAATCTCAGCAGGTTCAACATTTTCACCTGCAAATCAGAACATTCAAG
AGCAATCAGCTCTAATTAAATATTCAAGGGCAAGAAGATCCATATATGATTTCCAACCGCACAT
AAATTCAAGTTTAATAGTGGTACATCACAGTACCATATATTCATAATCAACAATAAAAACAATA
AAATATTTTAGAAAATACATAAGGTTACATTGTGAAAAGCAGAAACCAATTACAATCTTTAACC
TGTTGTGAGAACTATTGTATCTTTTGCACGCCCTTCAAGAACAAGCATCCCTCCACACTTCCGA
CTTGGCCCTGTTGGACAGTGAGGTGCAATCCAACCAATATCCCCTGTGTCAAACCAACCTTCTT
GATCCAAAACTTTATTTGTAGCTGACGGATTCTGTGACAACAGAAATTTTAGGCGATAATATGG
AATTCCTAATAAAGTTGAATACTCAAATGGCATAACTTCATTGAGCATGGTGCCTTGACATAGA
TTATAAGATTGAACTAATTGGGTTCTCACTCTTCATTTTGGTTTGGGTGATATCCGTCAACACC
ATCTCATACTAGCTTAGTGACTCTTTTATGAGAAAAGGTATTTCCAGAATACCACAAGCCTGAC
CTTTTGTCAAATATTTTATGGAAGATATATCAGGTTGCTAAACTATGTCCAATATGAACTAGTC
AGTGCTACAACTATGATGTACCTACAGCATTACGTCTTACCAAGATATATAATCTGATGTTCAT
TTCAGCCCAATATTGTGTTCGTCTTGACCCAAACATGTTTACTGCTCAAACTTAATTTATAGTT
AAAAGCTTAATGGTATCAGTAAACTGAGAAAATTGAACCTTGTAATATCCCTTCATCACTTGGG
GTCCTCTGACTTTCACAACCCCCTTTGAACCATCTGGAAGAACCTCACCAGTCTCCATATCCAC
AACCTTGATTTCCGTGTGCTTTACTGGGTGGCCAACTGTGCCAAGAAC
						
					

			
		

Sequences
Splice junction sequence	TCACAACCCCCTTTGAACCATCTGGAAGAACCTCACCAGTCTCCATATCCACAACCTTGATTTC CGTGTGCTTTACTGGGTGGCCAACTGTGCCAAGAACcaagttctcagctcatcatatagcaagt tcaaaaccttatctttggctagttcgttattcccatcaagaatggacttccttttagctgttgc tagaactt
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: 206 Transcript exons: 35550028-35550163,35551414-35551483 CAAGTTCTCAGCTCATCATATAGCAAGTTCAAAACCTTATCTTTGGCTAGTTCGTTATTCCCAT CAAGAATGGACTTCCTTTTAGCTGTTGCTAGAACTTCATCATAGTTGGGAACGATAAGAGCACC AATTCGCCCCTCACCAGTCTCCATATCCACAACCTTGATTTCCGTGTGCTTTACTGGGTGGCCA ACTGTGCCAAGAAC Transcript length: 227 Transcript exons: 35550028-35550164,35551394-35551483 CAAGTTCTCAGCTCATCATATAGCAAGTTCAAAACCTTATCTTTGGCTAGTTCGTTATTCCCAT CAAGAATGGACTTCCTTTTAGCTGTTGCTAGAACTTCATCATAGTTGGGAACGATAAGAGCACC AATTCGCCGCTTTGAACCATCTGGAAGAACCTCACCAGTCTCCATATCCACAACCTTGATTTCC GTGTGCTTTACTGGGTGGCCAACTGTGCCAAGAAC Transcript length: 521 Transcript exons: 35550028-35550170,35550439-35550518,35550731-35550890,35 551346-35551483 CAAGTTCTCAGCTCATCATATAGCAAGTTCAAAACCTTATCTTTGGCTAGTTCGTTATTCCCAT CAAGAATGGACTTCCTTTTAGCTGTTGCTAGAACTTCATCATAGTTGGGAACGATAAGAGCACC AATTCGCCGCTTGTCCTGGCCAACAACAACTATCTGATTAATCAAGTCACTCCTGCTGGCTGCT TCCTCAATCTCAGCAGGTTCAACATTTTCACCTGTTGTGAGAACTATTGTATCTTTTGCACGCC CTTCAAGAACAAGCATCCCTCCACACTTCCGACTTGGCCCTGTTGGACAGTGAGGTGCAATCCA ACCAATATCCCCTGTGTCAAACCAACCTTCTTGATCCAAAACTTTATTTGTAGCTGACGGATTC TTGTAATATCCCTTCATCACTTGGGGTCCTCTGACTTTCACAACCCCCTTTGAACCATCTGGAA GAACCTCACCAGTCTCCATATCCACAACCTTGATTTCCGTGTGCTTTACTGGGTGGCCAACTGT GCCAAGAAC
Genomic sequence	CAAGTTCTCAGCTCATCATATAGCAAGTTCAAAACCTTATCTTTGGCTAGTTCGTTATTCCCAT CAAGAATGGACTTCCTTTTAGCTGTTGCTAGAACTTCATCATAGTTGGGAACGATAAGAGCACC AATTCGCCGCTTGTCCTATGCAAAGAACAAACACATAAAGTTCATGATTTTGCTGGTGCACTAA TATTTTTCATCACTCAATCTTCAAATAAAATTCCATCATAGACAACAATTAAGGTGGTCAAGGT TACAAGTTTCAAATAATGGTGACCCAGTGATTCTACAAATTATATTTCCTTACCGATTGAAGAA CAAATATTTACCCACATAAAGGAGCCTAAAGTGACAGATGTAATAATAACGACAATACATATGT ATCTCTATTCTTTAGATCATCTCATACCTGGCCAACAACAACTATCTGATTAATCAAGTCACTC CTGCTGGCTGCTTCCTCAATCTCAGCAGGTTCAACATTTTCACCTGCAAATCAGAACATTCAAG AGCAATCAGCTCTAATTAAATATTCAAGGGCAAGAAGATCCATATATGATTTCCAACCGCACAT AAATTCAAGTTTAATAGTGGTACATCACAGTACCATATATTCATAATCAACAATAAAAACAATA AAATATTTTAGAAAATACATAAGGTTACATTGTGAAAAGCAGAAACCAATTACAATCTTTAACC TGTTGTGAGAACTATTGTATCTTTTGCACGCCCTTCAAGAACAAGCATCCCTCCACACTTCCGA CTTGGCCCTGTTGGACAGTGAGGTGCAATCCAACCAATATCCCCTGTGTCAAACCAACCTTCTT GATCCAAAACTTTATTTGTAGCTGACGGATTCTGTGACAACAGAAATTTTAGGCGATAATATGG AATTCCTAATAAAGTTGAATACTCAAATGGCATAACTTCATTGAGCATGGTGCCTTGACATAGA TTATAAGATTGAACTAATTGGGTTCTCACTCTTCATTTTGGTTTGGGTGATATCCGTCAACACC ATCTCATACTAGCTTAGTGACTCTTTTATGAGAAAAGGTATTTCCAGAATACCACAAGCCTGAC CTTTTGTCAAATATTTTATGGAAGATATATCAGGTTGCTAAACTATGTCCAATATGAACTAGTC AGTGCTACAACTATGATGTACCTACAGCATTACGTCTTACCAAGATATATAATCTGATGTTCAT TTCAGCCCAATATTGTGTTCGTCTTGACCCAAACATGTTTACTGCTCAAACTTAATTTATAGTT AAAAGCTTAATGGTATCAGTAAACTGAGAAAATTGAACCTTGTAATATCCCTTCATCACTTGGG GTCCTCTGACTTTCACAACCCCCTTTGAACCATCTGGAAGAACCTCACCAGTCTCCATATCCAC AACCTTGATTTCCGTGTGCTTTACTGGGTGGCCAACTGTGCCAAGAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_013889 						
					
						PMCS
						0.332920833

Conservation Information
Conserved circRNAs	osi_circ_013889
PMCS	0.332920833

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							35551431-35551458(-)
						
						Potential amino acid sequence
						
							METGEVLPDGSKGVVKVRGPQVMKGYYKNPSATNKVLDQEGWFDTGDIGWIAPHCPTGPSRKCG
GMLVLEGRAKDTIVLTTGENVEPAEIEEAASRSDLINQIVVVGQDKRRIGALIVPNYDEVLATA
KRKSILDGNNELAKDKVLNLLYDELRTWFLAQLATQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	35551431-35551458(-)
Potential amino acid sequence	METGEVLPDGSKGVVKVRGPQVMKGYYKNPSATNKVLDQEGWFDTGDIGWIAPHCPTGPSRKCG GMLVLEGRAKDTIVLTTGENVEPAEIEEAASRSDLINQIVVVGQDKRRIGALIVPNYDEVLATA KRKSILDGNNELAKDKVLNLLYDELRTWFLAQLATQ*(-)
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 Os03g0845500_circ_g.3

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