Plant Circular RNA Database

Detail information of Os04g0623300_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os04g0623300_circ_g.3
					
						ID in PlantcircBase
						osa_circ_025366
					
						Alias
						Os04circ14288
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 31671126-31674538  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os04g0623300						
					
						Parent gene annotation
						
							Polyamine oxidase, Seed germination (Os04t0623300-01);Similar to
 H0215F08.3 protein. (Os04t0623300-02);Similar to H0215F08.3 pro
tein. (Os04t0623300-03);Similar to H0215F08.3 protein. (Os04t062
3300-04)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os04g0623300_circ_g.2 Os04g0623300_circ_g.4 Os04g0623300_circ_g.5 Os04g0623300_circ_g.6 Os04g0623300_circ_g.7 Os04g0623300_circ_g.8 Os04g0623300_circ_g.9 Os04g0623300_circ_g.10 Os04g0623300_circ_g.11 						
					
						Support reads
						13
					
						Tissues
						leaf and panicle
					
						Exon boundary  
						
							No-No							"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
						Os04t0623300-03:2
Os04t0623300-02:3
Os04t0623300-01:6

General Information
CircRNA Name	Os04g0623300_circ_g.3
ID in PlantcircBase	osa_circ_025366
Alias	Os04circ14288
Organism	Oryza sativa
Position	chr4: 31671126-31674538 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os04g0623300
Parent gene annotation	Polyamine oxidase, Seed germination (Os04t0623300-01);Similar to H0215F08.3 protein. (Os04t0623300-02);Similar to H0215F08.3 pro tein. (Os04t0623300-03);Similar to H0215F08.3 protein. (Os04t062 3300-04)
Parent gene strand	-
Alternative splicing	Os04g0623300_circ_g.2 Os04g0623300_circ_g.4 Os04g0623300_circ_g.5 Os04g0623300_circ_g.6 Os04g0623300_circ_g.7 Os04g0623300_circ_g.8 Os04g0623300_circ_g.9 Os04g0623300_circ_g.10 Os04g0623300_circ_g.11
Support reads	13
Tissues	leaf and panicle
Exon boundary	No-No "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	Os04t0623300-03:2 Os04t0623300-02:3 Os04t0623300-01:6

			
						 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  
						
							TGCGGCGATCGATCGATCGATGGATCGGATGGTTTTCGCTGGATTTTTGGAGATTTTCGGAGAG
GGGGATTTGGTTTTGGGGAGAGGAGGAGAACGAGACcttccctatcttttctaccagctcttgg
ggaacttgatggcccttagtgtcatagagagcataactgagggaaaaaacatgttaaatggttg
attattat

									
								

					

						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
						
							CTTCCCTATCTTTTCTACCAGCTCTTGGGGAACTTGATGGCCCTTAGTGTCATAGAGAGCATAA
CTGAGGGAAAAAACATGTTAAATGGTTGATTATTATGGTCCATCATCTCTCAAGTTACATACAA
AATAAACTAGCTCTAGTAACCTCTCAAGGTCATGATCAAACAGCACAGAGTCATCTCCACTTGT
GCGATACAGTGGAAGTCCAAGCCTTCCAATAATTGGTGCCAGGGGATTTTCCTCACAAACACCA
TGAAGCCTGATGCTCACACAAAATGGAAGTGGATTAAAAATAATGGTTCCAGATAAACTTTTGC
CACCATTTCAAATAATTCAGAAAATATTGTCAGAGAGGAACCTCACCAGGATGCTCCCAGATCA
ACAGGAAAGCCAAAAGAGTAATCAGTGTGAATTCTACCACCTATCCTGTCACGAGATTCTAGAA
GAACAACCTGGAAAGAAACCACATTAGAATAACCAGTGGGGAAGAATTTCACAACATTTGAAAT
GCACTTCAAGGGATCATTGAACCTATATCATTACAATTAGGCCATAAACTGCATCACATATTAC
CTCAAATGATGCATTCCTGAGAGCGTTGGCTGCAGCAATGCCTGCAAACCCACTGCCGATAACA
ATAGCAGAAGGTGTGTGGGACTTTCTCCTAACATTTTCACCATATGAACCTGGATTTTACAAAA
AAAAAAGGAAAAAAAAAAGGAACCTCAATGAGAGTGACAAAGTGTAGTAATAAAAAGTTAAAAC
ATTATAAAATAATAATGATGTGTCAATTTTTGGTTATTATCTTGCCAAAATATTGCATTGAAAA
AGGAGCTCATTCAGCTTAAATCTAAAGTGCAAATACTGGCTGGCACATGTACCATCATATGTTC
TTTATATGACTGTCAACACAGGAAGCAACCTGAAAGTTTCACATGTTTGATGTAGTTGGATGGA
TGCTTGTGTTTCATGAATCTAAAGGTTTTGCACCTTAAGGCTAACGGTTTGCTTCATTGTGAAA
GGGGGTTTTATACCTCCAAATGATAAAAATCAGTTTATACAGAATTAACATAAAGAAGCCTACC
AAGTGATGAAATTGCCGATATCGCCTGTTCTTCTCACATCAACCCTCCTCTACCCCCTCCATCA
TGGAGGGTTAGTAGTGAGGCATGTTCCCCTGTCTCAGAACAATGATGGTGAGGTAAGACAGGAC
AATTTTAACATTCTGTTGATTCCCCACAGAAACCTAACCGCTTGGTCTGTAGCTACACATTGGA
AGCTGAGATGTAGGACTGATCAAATTTTTCGCTGGGCAGGCACACCAAAGACTCTCCGTTAAAA
CACAATGACCTCAAAGGATGTGCAAAAGGCAAGGACACAATATTATTATTGTACTGTTCTTTCT
AGTTATGTGGACATGGTGCAAATTCAGACTAATGGGCGATAGACATGACATGAATTTGTGGCTA
TATACTGTTTATCTTGGAATTATTTGGTGGCATACTATAAATTAGACAATCTTTTAGCGAGACA
ACCCTCTGCCGGATATGCTTCAGAGCACTTAACAAGCAAAAAATAATGGCCACCGAACATCTCA
CACAATGACTATAGGCGCACTAAAAGGCACAATCCAAAAGTAAAGATATCCATAAATGAGACAG
CAACGAAAGCCAACAGAAAAAACATTTTATAAGAGCTGAACAGTAAAATAAGAAAATGGTGGCA
TTGGAAGATAAAGAAACTTAGATAACTAGATCCACCAGCGAATATTCTCATATAATAATCTGCA
CCCTACATGCATTACAATACTATATGAATCATGCATGCATAGAATGTCCGCATGGCACTAAACT
TAACATGACATGCACTTTTGCTGATCTAATTTTAGAATAGTAAGTATATGATATTTAAAGTTCA
AGCACTACTGCATCTGCATGTTGTTAGACCTCAACTGCAACCAGTATGTGAGTGCTTGCATGAA
CGGTTTACACTAGAGTCTTACAAATTGCAAGCTCTTCAGGAACTAAAAGGCGCAGCAGGAGCCT
ACAACTCCACATGGAGGACTTTCTCTCGCCATGAGAAAAACCCTAGAAGGTTCCAATTGGTTGA
GGCGCTGGTACAACAGGTGTAAACAGCTAATGTTTTGTTTTCTCTTCCTACCACCGACAGAGGA
ATATGGGAACTCATCCACGATGGCTGATGTCTCTTTCATCTGGCCCACTAGGCACCTCCCAACA
ACCATAAGCAACTCAGTGTGTTTAGATTATCAAAGCAATTTTATCACTACAACCACCTAGAGAG
TGGAAAATTTCGGTTTTTGCACTAAGGTTGCATTAAGTGCACAAATCCCTAAAACAATACATGT
TCGATATTCTACTACTAGCAGAGGTATTAGCATACATCAGCAAACTTTATAAAACAGTTTCTTC
TAAATTCGATTTTCCACCTAACTTTACATTAACAGATGCAAAAAAAAAAAGTCTTGAACTGAGA
GGGGGACTTTATAATGGAATAAACAAAATAACATAAAAATCAGCAACAGAATCACCACAAAAAC
AATGGATGAGAAAATCTGCCAAACGAAGCCAGGAACTTACTGTTGTTCGCCATTGTTGGGGTTC
TGTTTCTCTCCTTCACGATTACTACTCGAATTCGAATTACAATTGGATGGATTTAACAGAAACT
GCGGGGAGAAATGCAGCAGGAAGATGATGAGGCAGGCCACGTAGTGGTTCGAGTTCGAGTTGAG
TCCCAGGTTCACGAAACAGTTCATGCAGTCGTGCAGCCAAATCGCCGCAACCTCCTAGCAATTT
GATGTCCAACCCTTTCACGATCTCACGTCAGCGCCGAGAATTCGCGCGATCCCATCAACTTCTC
AGGCAATCCGGTTTAAGTCTGGATCAACTCCCGCGTGATATCACTGCGAAAAAATCAAAGGAAA
CCAACCGTTTATTATTCACCCAAATTTATAAACCTTCAGTTTTAGTCACACAAAAACCGCTTCC
CAGCACACGAAATCCGCCGCAAAATCGAGAGATTTAAGCGATTCAAGAAAGCCGATGATTAAAA
CTAGACCAAAAATCAACCCCCTAAGTCATCAGGAAGCCAATCTCCGAATCCCACACCAGAAGCG
ATCGAATCGAGCCAAGGCAATCAACAAACCTAGGGCTCCCTATCTTTCCCCTCGCAAACCCAGT
CCAAAAATCGCACGCAAGCTATACGAAATCGCGCCACACACCCACCTCGAGATTTCGATTCGAG
GCGCACGCAGTCGATCGGAGCAAGAGCAAAAAAAAACCCGAAGCAGTCTTGCGGCGATCGATCG
ATCGATGGATCGGATGGTTTTCGCTGGATTTTTGGAGATTTTCGGAGAGGGGGATTTGGTTTTG
GGGAGAGGAGGAGAACGAGAC
						
					

			
		

Sequences
Splice junction sequence	TGCGGCGATCGATCGATCGATGGATCGGATGGTTTTCGCTGGATTTTTGGAGATTTTCGGAGAG GGGGATTTGGTTTTGGGGAGAGGAGGAGAACGAGACcttccctatcttttctaccagctcttgg ggaacttgatggcccttagtgtcatagagagcataactgagggaaaaaacatgttaaatggttg attattat
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	CTTCCCTATCTTTTCTACCAGCTCTTGGGGAACTTGATGGCCCTTAGTGTCATAGAGAGCATAA CTGAGGGAAAAAACATGTTAAATGGTTGATTATTATGGTCCATCATCTCTCAAGTTACATACAA AATAAACTAGCTCTAGTAACCTCTCAAGGTCATGATCAAACAGCACAGAGTCATCTCCACTTGT GCGATACAGTGGAAGTCCAAGCCTTCCAATAATTGGTGCCAGGGGATTTTCCTCACAAACACCA TGAAGCCTGATGCTCACACAAAATGGAAGTGGATTAAAAATAATGGTTCCAGATAAACTTTTGC CACCATTTCAAATAATTCAGAAAATATTGTCAGAGAGGAACCTCACCAGGATGCTCCCAGATCA ACAGGAAAGCCAAAAGAGTAATCAGTGTGAATTCTACCACCTATCCTGTCACGAGATTCTAGAA GAACAACCTGGAAAGAAACCACATTAGAATAACCAGTGGGGAAGAATTTCACAACATTTGAAAT GCACTTCAAGGGATCATTGAACCTATATCATTACAATTAGGCCATAAACTGCATCACATATTAC CTCAAATGATGCATTCCTGAGAGCGTTGGCTGCAGCAATGCCTGCAAACCCACTGCCGATAACA ATAGCAGAAGGTGTGTGGGACTTTCTCCTAACATTTTCACCATATGAACCTGGATTTTACAAAA AAAAAAGGAAAAAAAAAAGGAACCTCAATGAGAGTGACAAAGTGTAGTAATAAAAAGTTAAAAC ATTATAAAATAATAATGATGTGTCAATTTTTGGTTATTATCTTGCCAAAATATTGCATTGAAAA AGGAGCTCATTCAGCTTAAATCTAAAGTGCAAATACTGGCTGGCACATGTACCATCATATGTTC TTTATATGACTGTCAACACAGGAAGCAACCTGAAAGTTTCACATGTTTGATGTAGTTGGATGGA TGCTTGTGTTTCATGAATCTAAAGGTTTTGCACCTTAAGGCTAACGGTTTGCTTCATTGTGAAA GGGGGTTTTATACCTCCAAATGATAAAAATCAGTTTATACAGAATTAACATAAAGAAGCCTACC AAGTGATGAAATTGCCGATATCGCCTGTTCTTCTCACATCAACCCTCCTCTACCCCCTCCATCA TGGAGGGTTAGTAGTGAGGCATGTTCCCCTGTCTCAGAACAATGATGGTGAGGTAAGACAGGAC AATTTTAACATTCTGTTGATTCCCCACAGAAACCTAACCGCTTGGTCTGTAGCTACACATTGGA AGCTGAGATGTAGGACTGATCAAATTTTTCGCTGGGCAGGCACACCAAAGACTCTCCGTTAAAA CACAATGACCTCAAAGGATGTGCAAAAGGCAAGGACACAATATTATTATTGTACTGTTCTTTCT AGTTATGTGGACATGGTGCAAATTCAGACTAATGGGCGATAGACATGACATGAATTTGTGGCTA TATACTGTTTATCTTGGAATTATTTGGTGGCATACTATAAATTAGACAATCTTTTAGCGAGACA ACCCTCTGCCGGATATGCTTCAGAGCACTTAACAAGCAAAAAATAATGGCCACCGAACATCTCA CACAATGACTATAGGCGCACTAAAAGGCACAATCCAAAAGTAAAGATATCCATAAATGAGACAG CAACGAAAGCCAACAGAAAAAACATTTTATAAGAGCTGAACAGTAAAATAAGAAAATGGTGGCA TTGGAAGATAAAGAAACTTAGATAACTAGATCCACCAGCGAATATTCTCATATAATAATCTGCA CCCTACATGCATTACAATACTATATGAATCATGCATGCATAGAATGTCCGCATGGCACTAAACT TAACATGACATGCACTTTTGCTGATCTAATTTTAGAATAGTAAGTATATGATATTTAAAGTTCA AGCACTACTGCATCTGCATGTTGTTAGACCTCAACTGCAACCAGTATGTGAGTGCTTGCATGAA CGGTTTACACTAGAGTCTTACAAATTGCAAGCTCTTCAGGAACTAAAAGGCGCAGCAGGAGCCT ACAACTCCACATGGAGGACTTTCTCTCGCCATGAGAAAAACCCTAGAAGGTTCCAATTGGTTGA GGCGCTGGTACAACAGGTGTAAACAGCTAATGTTTTGTTTTCTCTTCCTACCACCGACAGAGGA ATATGGGAACTCATCCACGATGGCTGATGTCTCTTTCATCTGGCCCACTAGGCACCTCCCAACA ACCATAAGCAACTCAGTGTGTTTAGATTATCAAAGCAATTTTATCACTACAACCACCTAGAGAG TGGAAAATTTCGGTTTTTGCACTAAGGTTGCATTAAGTGCACAAATCCCTAAAACAATACATGT TCGATATTCTACTACTAGCAGAGGTATTAGCATACATCAGCAAACTTTATAAAACAGTTTCTTC TAAATTCGATTTTCCACCTAACTTTACATTAACAGATGCAAAAAAAAAAAGTCTTGAACTGAGA GGGGGACTTTATAATGGAATAAACAAAATAACATAAAAATCAGCAACAGAATCACCACAAAAAC AATGGATGAGAAAATCTGCCAAACGAAGCCAGGAACTTACTGTTGTTCGCCATTGTTGGGGTTC TGTTTCTCTCCTTCACGATTACTACTCGAATTCGAATTACAATTGGATGGATTTAACAGAAACT GCGGGGAGAAATGCAGCAGGAAGATGATGAGGCAGGCCACGTAGTGGTTCGAGTTCGAGTTGAG TCCCAGGTTCACGAAACAGTTCATGCAGTCGTGCAGCCAAATCGCCGCAACCTCCTAGCAATTT GATGTCCAACCCTTTCACGATCTCACGTCAGCGCCGAGAATTCGCGCGATCCCATCAACTTCTC AGGCAATCCGGTTTAAGTCTGGATCAACTCCCGCGTGATATCACTGCGAAAAAATCAAAGGAAA CCAACCGTTTATTATTCACCCAAATTTATAAACCTTCAGTTTTAGTCACACAAAAACCGCTTCC CAGCACACGAAATCCGCCGCAAAATCGAGAGATTTAAGCGATTCAAGAAAGCCGATGATTAAAA CTAGACCAAAAATCAACCCCCTAAGTCATCAGGAAGCCAATCTCCGAATCCCACACCAGAAGCG ATCGAATCGAGCCAAGGCAATCAACAAACCTAGGGCTCCCTATCTTTCCCCTCGCAAACCCAGT CCAAAAATCGCACGCAAGCTATACGAAATCGCGCCACACACCCACCTCGAGATTTCGATTCGAG GCGCACGCAGTCGATCGGAGCAAGAGCAAAAAAAAACCCGAAGCAGTCTTGCGGCGATCGATCG ATCGATGGATCGGATGGTTTTCGCTGGATTTTTGGAGATTTTCGGAGAGGGGGATTTGGTTTTG GGGAGAGGAGGAGAACGAGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.101955645

Conservation Information
Conserved circRNAs	NA
PMCS	0.101955645

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015

circRNA

Detail information of Os04g0623300_circ_g.3

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