Plant Circular RNA Database

Detail information of Os03g0732100_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os03g0732100_circ_g.4
					
						ID in PlantcircBase
						osa_circ_021657
					
						Alias
						Os03circ25441/Os_ciR1681
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 30006457-30008701  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os03g0732100						
					
						Parent gene annotation
						
							Similar to Homeodomain protein JUBEL1. (Os03t0732100-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0732100_circ_g.2 Os03g0732100_circ_g.3 Os03g0732100_circ_g.5 Os03g0732100_circ_g.6 						
					
						Support reads
						8/6/26
					
						Tissues
						leaf and panicle/root/shoot, root, seed
					
						Exon boundary  
						
							No-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
						Os03t0732100-01:2

General Information
CircRNA Name	Os03g0732100_circ_g.4
ID in PlantcircBase	osa_circ_021657
Alias	Os03circ25441/Os_ciR1681
Organism	Oryza sativa
Position	chr3: 30006457-30008701 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, SMALT, Segemehl, find_circ
Parent gene	Os03g0732100
Parent gene annotation	Similar to Homeodomain protein JUBEL1. (Os03t0732100-01)
Parent gene strand	+
Alternative splicing	Os03g0732100_circ_g.2 Os03g0732100_circ_g.3 Os03g0732100_circ_g.5 Os03g0732100_circ_g.6
Support reads	8/6/26
Tissues	leaf and panicle/root/shoot, root, seed
Exon boundary	No-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	Os03t0732100-01:2

			
						 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  
						
							CGTGATTTCCCGTGCTGTGTGTGTCTGAATGTTATGCAGGTACCCGAGCGATGCAGATAAGCAC
CTGTTGGCGAGGCAGACCGGGCTGTCCAGGAACCAGgtggacaggaggtacaaccactactgcg
accagatgcagatggtggtgaacttcttcgactcggtgatggggttcggggcggcgacgccgta
cacggcgc

									
								

					

						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: 261
Transcript exons: 30006457-30006637,30006808-30006844,30008659-30008701
GTGGACAGGAGGTACAACCACTACTGCGACCAGATGCAGATGGTGGTGAACTTCTTCGACTCGG
TGATGGGGTTCGGGGCGGCGACGCCGTACACGGCGCTGGCGCAGAAGGCCATGTCGAGGCACTT
CCGGTGCCTCAAGGACGCGATCGCGGCGCAGCTGAGGGGGACGTGCGAGGCGCCTCCGCTCCTG
GCTCTTCGAACACTTCCTCCACCCGTTAAGCACCTGTTGGCGAGGCAGACCGGGCTGTCCAGGA
ACCAG
Transcript length: 268
Transcript exons: 30006457-30006610,30006777-30006844,30008656-30008701
GTGGACAGGAGGTACAACCACTACTGCGACCAGATGCAGATGGTGGTGAACTTCTTCGACTCGG
TGATGGGGTTCGGGGCGGCGACGCCGTACACGGCGCTGGCGCAGAAGGCCATGTCGAGGCACTT
CCGGTGCCTCAAGGACGCGATCGCGGGCGCGGCCTCCCCGAGCGCTCCGTCAACATCCTCCGCT
CCTGGCTCTTCGAACACTTCCTCCACCCGTAGATAAGCACCTGTTGGCGAGGCAGACCGGGCTG
TCCAGGAACCAG
Transcript length: 349
Transcript exons: 30006457-30006654,30006741-30006844,30008655-30008701
GTGGACAGGAGGTACAACCACTACTGCGACCAGATGCAGATGGTGGTGAACTTCTTCGACTCGG
TGATGGGGTTCGGGGCGGCGACGCCGTACACGGCGCTGGCGCAGAAGGCCATGTCGAGGCACTT
CCGGTGCCTCAAGGACGCGATCGCGGCGCAGCTGAGGGGGACGTGCGAGGCGCTGGGGGAGAAG
GACGCCCATGGGGATCATGGAGCAGGAGGCGTGGCGCCCCCAGCGCGGCCTCCCCGAGCGCTCC
GTCAACATCCTCCGCTCCTGGCTCTTCGAACACTTCCTCCACCCGTCAGATAAGCACCTGTTGG
CGAGGCAGACCGGGCTGTCCAGGAACCAG
						
					

						Genomic sequence
						
							GTGGACAGGAGGTACAACCACTACTGCGACCAGATGCAGATGGTGGTGAACTTCTTCGACTCGG
TGATGGGGTTCGGGGCGGCGACGCCGTACACGGCGCTGGCGCAGAAGGCCATGTCGAGGCACTT
CCGGTGCCTCAAGGACGCGATCGCGGCGCAGCTGAGGGGGACGTGCGAGGCGCTGGGGGAGAAG
GACGCCGGCACGGGGTCGGGGCTGACCAAGGGGGAGACGCCGCGGCTGCGGGCCATCGACCAGA
GCCTCCGGCAGCAGCGCGCCTTCCACCACATGGGGATCATGGAGCAGGAGGCGTGGCGCCCCCA
GCGCGGCCTCCCCGAGCGCTCCGTCAACATCCTCCGCTCCTGGCTCTTCGAACACTTCCTCCAC
CCGTATGTCCCATTCTTCTTCCCCTCCCTCCTTTACATACATACATCTTCGGTCTCTGTCGTCA
GGCAGGCGGAATTATGGTATCTCCTACTTCCTCCGTTTCAAAAAAACGATTCTAGAACTGGATG
TGACATACTCTAGTACAATGAATCTGGATAGAGGTATATCCAGATTCGTAGTACTAGGATATGT
CACATCCAGTACTAGATTGATTTTTTTATGGGATGGAGGAAGTATTTCGTTTTTAATAACAGGA
ATGGTTTACATCTCTGGCTTCTAGTGTTGCACGTACAGCTAGAATAATCCCATATAGCCATGCA
TGCATTGAACACTTCCTCCAACCGTATGTCCCTCCTCCCTCTCCTTACATATATCTCCGGTCTC
AACCCGTATGTCCCTTCCCCCTCTCCTTACATATAGATAGACGGAATTTTAGTATATTTTTTTT
TCATCCTCTGCTGTTAGGTTTGTAGCCAAATTCTTCCAAGCATACTATACGTGATCAGAATTTT
ATCTCTATTTTCTTTTTAATAATTGAAAGGATTTACATCTTCGGGCCAGGGCCGTTAGACACGC
AGCTAGCTAGCTAGAATCCCATATGGCCATGCATGCATGGAGCTAAGGCAGCTGTTGTTGCCGG
CAGTTGCATGTTAGGATATGATCATTTGGTGGCGATGTTGAGCTGCATTGCGCTGTGCATGGTG
GTGCATGCCGTACGTTGGCGGCATGGTAGGAGCGAGTAGGGGAGGGGGAGTAGTAGTACCACAC
TGCACTCATCACGGGCAGCTTCTGCTTTGCTTTTGCTGCTTCTCTCTCTCTCTCGCCTCTCTTT
CTGGTTAGCTGCTGACTGCTGCTGCTGCTACGCTTTAGCAAAAGCAGTAATTTTTTCGAGATCT
ACGCTATAAATCAGGGGCAGCATGCCGGGGACTGTACATGTGCGCCTGTGTGTATATTCCTCTC
ATCCCCTCCCTTTTGCTTCCGTCCTCTCCCAGATTTTACTTTCCCATCATTGCAGAAATTTACC
TTTTTTAGTTTTACTGCGGTTAGTGTACGTATGCACGTAGCAGCAGCAGCAGCTGCTGCAGCGA
GCACAGTACACCAGGAATTCTTCCTCCATCTCCTTTGTGCCAAGCTTTAGAGAGTGCCCATGCA
AACAAAAGCTTAGCTCAGCTACATGCCCCTACACCGTACTACATGGCTCTCTCTGCACTGCACA
GCCTGCATATCTGCAAAATATTCTGCGTGCCTAGGAGAGCCTTTCTGCAATGCCTTGCCGTGCC
ACGCATGCAGCAGCATGATCTAGGTTAGTTTCTGAGCTTTTTTACAGCATATTTTTTCAGGCTT
TCAGCTCCCCTCATTCATCCTGCCTGCCTGTAAAACCCAGATCTGATGCTCACTTTGCGCATTG
CTGTGATCTGCGAGAGGATCAAGATGGCAGCCGAGGGGAATATATCTAGGAATCCGTTTTGCTT
CTCGTTGTTGCTGTTGCATCATATTCTTTGCATGCAGGGGGCAAGCCAGCCACCACGCATGCAT
GAATAGCTAGCAGAGTGGTAGTAACACATGCATACATATCAGTGTGTTTTGTGCGCAATTATAA
TGCGTCTATGATTGGTGAATAGTAGTGCTCCTGCGCAGAATGCAGCTAGCTAGCTAGCTGCTGT
TCCTGAATGCTGCTGCTGCAGTATCAGTAGATAGTGCATGCAGATTAGCTGCAAGAAATGCAGC
CTTTTGGCGAGTGGTTTTCTCTGTGTGCTCACGCGTGATTTCCCGTGCTGTGTGTGTCTGAATG
TTATGCAGGTACCCGAGCGATGCAGATAAGCACCTGTTGGCGAGGCAGACCGGGCTGTCCAGGA
ACCAG
						
					

			
		

Sequences
Splice junction sequence	CGTGATTTCCCGTGCTGTGTGTGTCTGAATGTTATGCAGGTACCCGAGCGATGCAGATAAGCAC CTGTTGGCGAGGCAGACCGGGCTGTCCAGGAACCAGgtggacaggaggtacaaccactactgcg accagatgcagatggtggtgaacttcttcgactcggtgatggggttcggggcggcgacgccgta cacggcgc
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: 261 Transcript exons: 30006457-30006637,30006808-30006844,30008659-30008701 GTGGACAGGAGGTACAACCACTACTGCGACCAGATGCAGATGGTGGTGAACTTCTTCGACTCGG TGATGGGGTTCGGGGCGGCGACGCCGTACACGGCGCTGGCGCAGAAGGCCATGTCGAGGCACTT CCGGTGCCTCAAGGACGCGATCGCGGCGCAGCTGAGGGGGACGTGCGAGGCGCCTCCGCTCCTG GCTCTTCGAACACTTCCTCCACCCGTTAAGCACCTGTTGGCGAGGCAGACCGGGCTGTCCAGGA ACCAG Transcript length: 268 Transcript exons: 30006457-30006610,30006777-30006844,30008656-30008701 GTGGACAGGAGGTACAACCACTACTGCGACCAGATGCAGATGGTGGTGAACTTCTTCGACTCGG TGATGGGGTTCGGGGCGGCGACGCCGTACACGGCGCTGGCGCAGAAGGCCATGTCGAGGCACTT CCGGTGCCTCAAGGACGCGATCGCGGGCGCGGCCTCCCCGAGCGCTCCGTCAACATCCTCCGCT CCTGGCTCTTCGAACACTTCCTCCACCCGTAGATAAGCACCTGTTGGCGAGGCAGACCGGGCTG TCCAGGAACCAG Transcript length: 349 Transcript exons: 30006457-30006654,30006741-30006844,30008655-30008701 GTGGACAGGAGGTACAACCACTACTGCGACCAGATGCAGATGGTGGTGAACTTCTTCGACTCGG TGATGGGGTTCGGGGCGGCGACGCCGTACACGGCGCTGGCGCAGAAGGCCATGTCGAGGCACTT CCGGTGCCTCAAGGACGCGATCGCGGCGCAGCTGAGGGGGACGTGCGAGGCGCTGGGGGAGAAG GACGCCCATGGGGATCATGGAGCAGGAGGCGTGGCGCCCCCAGCGCGGCCTCCCCGAGCGCTCC GTCAACATCCTCCGCTCCTGGCTCTTCGAACACTTCCTCCACCCGTCAGATAAGCACCTGTTGG CGAGGCAGACCGGGCTGTCCAGGAACCAG
Genomic sequence	GTGGACAGGAGGTACAACCACTACTGCGACCAGATGCAGATGGTGGTGAACTTCTTCGACTCGG TGATGGGGTTCGGGGCGGCGACGCCGTACACGGCGCTGGCGCAGAAGGCCATGTCGAGGCACTT CCGGTGCCTCAAGGACGCGATCGCGGCGCAGCTGAGGGGGACGTGCGAGGCGCTGGGGGAGAAG GACGCCGGCACGGGGTCGGGGCTGACCAAGGGGGAGACGCCGCGGCTGCGGGCCATCGACCAGA GCCTCCGGCAGCAGCGCGCCTTCCACCACATGGGGATCATGGAGCAGGAGGCGTGGCGCCCCCA GCGCGGCCTCCCCGAGCGCTCCGTCAACATCCTCCGCTCCTGGCTCTTCGAACACTTCCTCCAC CCGTATGTCCCATTCTTCTTCCCCTCCCTCCTTTACATACATACATCTTCGGTCTCTGTCGTCA GGCAGGCGGAATTATGGTATCTCCTACTTCCTCCGTTTCAAAAAAACGATTCTAGAACTGGATG TGACATACTCTAGTACAATGAATCTGGATAGAGGTATATCCAGATTCGTAGTACTAGGATATGT CACATCCAGTACTAGATTGATTTTTTTATGGGATGGAGGAAGTATTTCGTTTTTAATAACAGGA ATGGTTTACATCTCTGGCTTCTAGTGTTGCACGTACAGCTAGAATAATCCCATATAGCCATGCA TGCATTGAACACTTCCTCCAACCGTATGTCCCTCCTCCCTCTCCTTACATATATCTCCGGTCTC AACCCGTATGTCCCTTCCCCCTCTCCTTACATATAGATAGACGGAATTTTAGTATATTTTTTTT TCATCCTCTGCTGTTAGGTTTGTAGCCAAATTCTTCCAAGCATACTATACGTGATCAGAATTTT ATCTCTATTTTCTTTTTAATAATTGAAAGGATTTACATCTTCGGGCCAGGGCCGTTAGACACGC AGCTAGCTAGCTAGAATCCCATATGGCCATGCATGCATGGAGCTAAGGCAGCTGTTGTTGCCGG CAGTTGCATGTTAGGATATGATCATTTGGTGGCGATGTTGAGCTGCATTGCGCTGTGCATGGTG GTGCATGCCGTACGTTGGCGGCATGGTAGGAGCGAGTAGGGGAGGGGGAGTAGTAGTACCACAC TGCACTCATCACGGGCAGCTTCTGCTTTGCTTTTGCTGCTTCTCTCTCTCTCTCGCCTCTCTTT CTGGTTAGCTGCTGACTGCTGCTGCTGCTACGCTTTAGCAAAAGCAGTAATTTTTTCGAGATCT ACGCTATAAATCAGGGGCAGCATGCCGGGGACTGTACATGTGCGCCTGTGTGTATATTCCTCTC ATCCCCTCCCTTTTGCTTCCGTCCTCTCCCAGATTTTACTTTCCCATCATTGCAGAAATTTACC TTTTTTAGTTTTACTGCGGTTAGTGTACGTATGCACGTAGCAGCAGCAGCAGCTGCTGCAGCGA GCACAGTACACCAGGAATTCTTCCTCCATCTCCTTTGTGCCAAGCTTTAGAGAGTGCCCATGCA AACAAAAGCTTAGCTCAGCTACATGCCCCTACACCGTACTACATGGCTCTCTCTGCACTGCACA GCCTGCATATCTGCAAAATATTCTGCGTGCCTAGGAGAGCCTTTCTGCAATGCCTTGCCGTGCC ACGCATGCAGCAGCATGATCTAGGTTAGTTTCTGAGCTTTTTTACAGCATATTTTTTCAGGCTT TCAGCTCCCCTCATTCATCCTGCCTGCCTGTAAAACCCAGATCTGATGCTCACTTTGCGCATTG CTGTGATCTGCGAGAGGATCAAGATGGCAGCCGAGGGGAATATATCTAGGAATCCGTTTTGCTT CTCGTTGTTGCTGTTGCATCATATTCTTTGCATGCAGGGGGCAAGCCAGCCACCACGCATGCAT GAATAGCTAGCAGAGTGGTAGTAACACATGCATACATATCAGTGTGTTTTGTGCGCAATTATAA TGCGTCTATGATTGGTGAATAGTAGTGCTCCTGCGCAGAATGCAGCTAGCTAGCTAGCTGCTGT TCCTGAATGCTGCTGCTGCAGTATCAGTAGATAGTGCATGCAGATTAGCTGCAAGAAATGCAGC CTTTTGGCGAGTGGTTTTCTCTGTGTGCTCACGCGTGATTTCCCGTGCTGTGTGTGTCTGAATG TTATGCAGGTACCCGAGCGATGCAGATAAGCACCTGTTGGCGAGGCAGACCGGGCTGTCCAGGA ACCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_005082* osi_circ_013591 						
					
						PMCS
						0.646356471

Conservation Information
Conserved circRNAs	osi_circ_005082* osi_circ_013591
PMCS	0.646356471

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							osa-miR816 						
					
						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	osa-miR816
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os03g0732100_circ_g.4

Address

Any questions?

Supported by