Plant Circular RNA Database

Detail information of Os03g0367000_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os03g0367000_circ_g.4
					
						ID in PlantcircBase
						osa_circ_019963
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 14366640-14369154  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0367000						
					
						Parent gene annotation
						
							Similar to Pasticcino 1-A. (Os03t0367000-01);Hypothetical conser
ved gene. (Os03t0367000-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0367000_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os03t0367000-01:6
Os03t0367000-02:6

General Information
CircRNA Name	Os03g0367000_circ_g.4
ID in PlantcircBase	osa_circ_019963
Alias	NA
Organism	Oryza sativa
Position	chr3: 14366640-14369154 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0367000
Parent gene annotation	Similar to Pasticcino 1-A. (Os03t0367000-01);Hypothetical conser ved gene. (Os03t0367000-02)
Parent gene strand	+
Alternative splicing	Os03g0367000_circ_g.5
Support reads	1
Tissues	shoot
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	Os03t0367000-01:6 Os03t0367000-02:6

			
						 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  
						
							TGAGATGTTTTCAAACCTTCTCTGCCTGCAGGTGCTTAGAGAGTACAACCATGTGCATCCTCAA
GATGATGATGAGGGGAAAATCTTTGCTAATTCAAGAgtgaatttcctatggactgtcctcttca
tgatagcttgctaagagtgcattataaagggatgctccttgatgaaccaaagtcaatattttat
gatacccg

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							GTGAATTTCCTATGGACTGTCCTCTTCATGATAGCTTGCTAAGAGTGCATTATAAAGGGATGCT
CCTTGATGAACCAAAGTCAATATTTTATGATACCCGAGTTGATAATCATGGTGAACCATTGGAG
TTCTGTTCTGGAGAAGGCCTGGTAAACTTTCACTTAAATCTTTATTGCTGCAATTATTAACTGC
ATCAGTTCTTCATGTCAGGTCATAAACTGACAAGTAGGAGGTGCTGGTTGTTATTTCTGGACTA
GCATTCTCCTAAAATCTGTTCCCATTTCTTATAAAGTTAAAGCTTCCTGGTGAATCTGCATTAC
AAAAATGAGGACTTAAATAAACTTAAAGAACGATGAACAAGTATGCATTCACCTTTAAATATTG
TACATGATAATAATGGCAACTCCCAGTAGGGTTTCAGGTGACAGTTCTATATACTTATTGCCCT
CTCTGTACAGACATTTTTCCTCTGAGAAAAGGGTGGAAAAATGACTTTGCTAGCATTCTACAGC
TATATATGCACCTCATTACATATATCTTGGTGTTCATGTATACTTCTCATACTTCCAATTAAAT
AAGAGTACCTTTGAACATTTTCATAGGTACCTGAAGGATTTGAAATGTGCGTTCGACTAATGCT
TCCTGGTGAAAAATCTATTGTGACCTGCCCTCCAGATTTTGCATACGATAAATTTCCAAGGTTG
TATGTGGCTTTACATTAGAATCTTTTTTCTTGTAATATAGCGTGCTGAATAATCTAATGATTGC
AACAGGCCAGCGAATGTTCCTGAAGGAGCTCATGTTCAATGGGAAATTGAATTACTTGGATTTG
AAATGCCCAAGGTAGTGACTAAAAAACAGTCACAAACCTTTTTGTATTTCCATGTTGCTTGTGC
AGTGTTAGAAACTAGAATGTTTGTGATGCTATTCCTGCTCTCTATTGCGGGGAACACTTGGGAT
TACAAGTAGCTGTTAATTTCAACCCGCAATCGGATCGGTTTGAAAGTTGTCCTGGTTCTTGTGA
GTCTGTAGCTGTGTCCCGTGATCCTTTATTGCTTCTAGCTTTTCAGCGAACTTGCATTATGTTT
TCATGTATTGAATAGCAGAAGAAAGTAATAAGCATTACATGTCATTCTGAATATTTCACTAGAT
GAACACCTTGTCTTGTGTGGTTCAACACTATTTCAGCTATGGCTTCTTTATGATTATATTATAT
CTTTTCCCTTTCGTTTTTTTATTAAGTTCTGTCTGACAAATCTTCTGACTTCTCATATAATACA
AATGTAGGATTGGACTGGTTTCACCTTCCAAGAAATCATGGATGACGCAGAAAAAATAAAAACC
ACGGTATATCGATTGAGATTGTTGAGTGAATCATTACATTTTGTTTTGTTTTTGGTGTTTTTTC
CACTTAGTATCTCCCTGAACCTATCATGAATGCATTTTTCCAGAAATGCAGTGCACTTCAAGAA
ACTGTTGAGATGTCTTTAATTGAAAAACATAAAACTACTTTTATTTGTGTTCTATGTGTGCAAG
CTGTGTTTCTCAATTGTCAAGATGGCCAATTGTTTAGTATGATCATATGAAAATCCTGGAGTTC
CCATAATGCCATCATCTAGGTCTAATTTTGTGGTGATGTCCAATTCCACCTTGTGGACCACTGC
AAAATTGTGATCATAGGCCCCTTTTGAAACAAAGGAAAAACCATTGGAGTTTTAGAGAATTTTA
TCCTATGGGAAATAATCCTATGGAGCCCTTTGAAACAAAGGATTGTTTCCTACCCATTCCTTTG
AAATTCCTATGGAATGAGGTCTAACCTCATGTTTTCCTCTTCATGTGTCTAGAATTCCTGCGTT
TTTCAGGTGTGCTAATCAAATGACAGTTTTAAAACTTTCATGTGTTTCAAAATCCTGTAGGAAT
CCAATAAGTATGACATTGTATTCCTATGTTTTTCCTATTACTGTGTTTTCTCAATCCTGCGTTT
CAAAGGGGCCCTAAATATCTATACCTGTTGTCCACTTGGCTGGTTTTGATGTGTCTTTTTTCAC
TAATAATTAGCTCTAAACTGAAGTTCTCTCTCAGGGTAATCGACTGTTTAAAGAAGGGAAGTTT
GAGCTAGCTAAGGCGAAGTATGAAAAGGTATGCCCTTCACATGATTCAGCATTCAATATTAAGG
GCAATCTCGGAACATTTTTTTTCTTCTCCATTGCTATGTTGGTCTGGATATTATCTCTTTCCCG
CTATTGTTACCACTCCATATGGTTACCAATTTGGCAGTCTATACTATGAATGATTTTACCTTAT
AATTTCTTGTACATGTAAAGGGCATAAATTTACACGTATCCATGACTTCATTCTGTCAATTTTT
TGGGTGCACACGTTTTTCTTTTATTTATTTTTGTGCAAGGATATGGGTGAGATGTTTTCAAACC
TTCTCTGCCTGCAGGTGCTTAGAGAGTACAACCATGTGCATCCTCAAGATGATGATGAGGGGAA
AATCTTTGCTAATTCAAGA
						
					

			
		

Sequences
Splice junction sequence	TGAGATGTTTTCAAACCTTCTCTGCCTGCAGGTGCTTAGAGAGTACAACCATGTGCATCCTCAA GATGATGATGAGGGGAAAATCTTTGCTAATTCAAGAgtgaatttcctatggactgtcctcttca tgatagcttgctaagagtgcattataaagggatgctccttgatgaaccaaagtcaatattttat gatacccg
Assembled circRNA sequence	NA 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	NA
Genomic sequence	GTGAATTTCCTATGGACTGTCCTCTTCATGATAGCTTGCTAAGAGTGCATTATAAAGGGATGCT CCTTGATGAACCAAAGTCAATATTTTATGATACCCGAGTTGATAATCATGGTGAACCATTGGAG TTCTGTTCTGGAGAAGGCCTGGTAAACTTTCACTTAAATCTTTATTGCTGCAATTATTAACTGC ATCAGTTCTTCATGTCAGGTCATAAACTGACAAGTAGGAGGTGCTGGTTGTTATTTCTGGACTA GCATTCTCCTAAAATCTGTTCCCATTTCTTATAAAGTTAAAGCTTCCTGGTGAATCTGCATTAC AAAAATGAGGACTTAAATAAACTTAAAGAACGATGAACAAGTATGCATTCACCTTTAAATATTG TACATGATAATAATGGCAACTCCCAGTAGGGTTTCAGGTGACAGTTCTATATACTTATTGCCCT CTCTGTACAGACATTTTTCCTCTGAGAAAAGGGTGGAAAAATGACTTTGCTAGCATTCTACAGC TATATATGCACCTCATTACATATATCTTGGTGTTCATGTATACTTCTCATACTTCCAATTAAAT AAGAGTACCTTTGAACATTTTCATAGGTACCTGAAGGATTTGAAATGTGCGTTCGACTAATGCT TCCTGGTGAAAAATCTATTGTGACCTGCCCTCCAGATTTTGCATACGATAAATTTCCAAGGTTG TATGTGGCTTTACATTAGAATCTTTTTTCTTGTAATATAGCGTGCTGAATAATCTAATGATTGC AACAGGCCAGCGAATGTTCCTGAAGGAGCTCATGTTCAATGGGAAATTGAATTACTTGGATTTG AAATGCCCAAGGTAGTGACTAAAAAACAGTCACAAACCTTTTTGTATTTCCATGTTGCTTGTGC AGTGTTAGAAACTAGAATGTTTGTGATGCTATTCCTGCTCTCTATTGCGGGGAACACTTGGGAT TACAAGTAGCTGTTAATTTCAACCCGCAATCGGATCGGTTTGAAAGTTGTCCTGGTTCTTGTGA GTCTGTAGCTGTGTCCCGTGATCCTTTATTGCTTCTAGCTTTTCAGCGAACTTGCATTATGTTT TCATGTATTGAATAGCAGAAGAAAGTAATAAGCATTACATGTCATTCTGAATATTTCACTAGAT GAACACCTTGTCTTGTGTGGTTCAACACTATTTCAGCTATGGCTTCTTTATGATTATATTATAT CTTTTCCCTTTCGTTTTTTTATTAAGTTCTGTCTGACAAATCTTCTGACTTCTCATATAATACA AATGTAGGATTGGACTGGTTTCACCTTCCAAGAAATCATGGATGACGCAGAAAAAATAAAAACC ACGGTATATCGATTGAGATTGTTGAGTGAATCATTACATTTTGTTTTGTTTTTGGTGTTTTTTC CACTTAGTATCTCCCTGAACCTATCATGAATGCATTTTTCCAGAAATGCAGTGCACTTCAAGAA ACTGTTGAGATGTCTTTAATTGAAAAACATAAAACTACTTTTATTTGTGTTCTATGTGTGCAAG CTGTGTTTCTCAATTGTCAAGATGGCCAATTGTTTAGTATGATCATATGAAAATCCTGGAGTTC CCATAATGCCATCATCTAGGTCTAATTTTGTGGTGATGTCCAATTCCACCTTGTGGACCACTGC AAAATTGTGATCATAGGCCCCTTTTGAAACAAAGGAAAAACCATTGGAGTTTTAGAGAATTTTA TCCTATGGGAAATAATCCTATGGAGCCCTTTGAAACAAAGGATTGTTTCCTACCCATTCCTTTG AAATTCCTATGGAATGAGGTCTAACCTCATGTTTTCCTCTTCATGTGTCTAGAATTCCTGCGTT TTTCAGGTGTGCTAATCAAATGACAGTTTTAAAACTTTCATGTGTTTCAAAATCCTGTAGGAAT CCAATAAGTATGACATTGTATTCCTATGTTTTTCCTATTACTGTGTTTTCTCAATCCTGCGTTT CAAAGGGGCCCTAAATATCTATACCTGTTGTCCACTTGGCTGGTTTTGATGTGTCTTTTTTCAC TAATAATTAGCTCTAAACTGAAGTTCTCTCTCAGGGTAATCGACTGTTTAAAGAAGGGAAGTTT GAGCTAGCTAAGGCGAAGTATGAAAAGGTATGCCCTTCACATGATTCAGCATTCAATATTAAGG GCAATCTCGGAACATTTTTTTTCTTCTCCATTGCTATGTTGGTCTGGATATTATCTCTTTCCCG CTATTGTTACCACTCCATATGGTTACCAATTTGGCAGTCTATACTATGAATGATTTTACCTTAT AATTTCTTGTACATGTAAAGGGCATAAATTTACACGTATCCATGACTTCATTCTGTCAATTTTT TGGGTGCACACGTTTTTCTTTTATTTATTTTTGTGCAAGGATATGGGTGAGATGTTTTCAAACC TTCTCTGCCTGCAGGTGCTTAGAGAGTACAACCATGTGCATCCTCAAGATGATGATGAGGGGAA AATCTTTGCTAATTCAAGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.21862825

Conservation Information
Conserved circRNAs	NA
PMCS	0.21862825

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14368772-14366640(+)
14366652-14366678(+)
14366670-14369117(-)
						
						Potential amino acid sequence
						
							MKRCLESTTMCILKMMMRGKSLLIQE*(+)
MDCPLHDSLLRVHYKGMLLDEPKSIFYDTRVDNHGEPLEFCSGEGLVPEGFEMCVRLMLPGEKS
IVTCPPDFAYDKFPRPANVPEGAHVQWEIELLGFEMPKDWTGFTFQEIMDDAEKIKTTGNRLFK
EGKFELAKAKYEKVLREYNHVHPQDDDEGKIFANSRVNFLWTVLFMIAC*(+)
MKRTVHRKFTLELAKIFPSSSS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14368772-14366640(+) 14366652-14366678(+) 14366670-14369117(-)
Potential amino acid sequence	MKRCLESTTMCILKMMMRGKSLLIQE(+) MDCPLHDSLLRVHYKGMLLDEPKSIFYDTRVDNHGEPLEFCSGEGLVPEGFEMCVRLMLPGEKS IVTCPPDFAYDKFPRPANVPEGAHVQWEIELLGFEMPKDWTGFTFQEIMDDAEKIKTTGNRLFK EGKFELAKAKYEKVLREYNHVHPQDDDEGKIFANSRVNFLWTVLFMIAC(+) MKRTVHRKFTLELAKIFPSSSS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0367000_circ_g.4

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