Plant Circular RNA Database

Detail information of Os03g0410100_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0410100_circ_g.1
					
						ID in PlantcircBase
						osa_circ_020291
					
						Alias
						Os_ciR4722
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 16890089-16892246  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os03g0410100						
					
						Parent gene annotation
						
							Similar to cDNA clone:J033024M21, full insert sequence. (Os03t04
10100-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0410100_circ_g.2 						
					
						Support reads
						4
					
						Tissues
						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  
						
							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
						Os03t0410100-01:5

General Information
CircRNA Name	Os03g0410100_circ_g.1
ID in PlantcircBase	osa_circ_020291
Alias	Os_ciR4722
Organism	Oryza sativa
Position	chr3: 16890089-16892246 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Os03g0410100
Parent gene annotation	Similar to cDNA clone:J033024M21, full insert sequence. (Os03t04 10100-01)
Parent gene strand	+
Alternative splicing	Os03g0410100_circ_g.2
Support reads	4
Tissues	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	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	Os03t0410100-01:5

			
						 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  
						
							GGATTACTTTAGGAAACGAACAGCGAAGGAGATACTGAGATTGAGAGCTGACTGAAAAGATGTC
CTTTCTTGTTCACACACTCTTGGGCATTTTGTCAAGgtcattaatttgtaccttgaattgttaa
aggagagggcgcaaagagaaccaaaaagatttttgaaatgccacttcttcaatacattctttta
taagaagg

									
								

					

						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
						
							GTCATTAATTTGTACCTTGAATTGTTAAAGGAGAGGGCGCAAAGAGAACCAAAAAGATTTTTGA
AATGCCACTTCTTCAATACATTCTTTTATAAGAAGGTTAGATAATTTGCATATTTTTCTTTCCG
GTGCTGTATGATGGAATGTTCTTTTCAATATTTCTGTAGTTCTGTTACACACACCATTTTATGA
TCTTCAGCTTATCAGTTGTCTCTTTGAAGCACTATCAAGTGATATTTATGCAATTATTACTTGA
CTCTTTTCCCTTTTTTTGAGGGGAATTTATTATTTTCCTTCCATAGTAGGAATTATCTGCCAGT
TAGCAGGAAAACCTGTGATTCTTTTCCTTCGATAGTGGAAATTGTTGGCTAGTTTGCACAAAAA
ACCTGTGTTTCAACACTCAAGCATACGGTACCATACATTTGTTTGAGAACACGCAATTCCTACC
TTATCCTTAATATATGTTGATGTGTGCCTTGTATTTACTTAATTGATGACCCTTTTCTTGAGTT
ACAAATTTTGTGTGGTTGTTATTCTCTTACTTTTTTTTTTGCTAATTTTCCTTGTAGGTTGTAA
CATCCCTTACTATCCCTTACTATTTATTAATAACCTTGCTTAGATATCAAATGAATTCTAGCAG
TAGTTTGCACCTTCATGATTTTCTGAATTCTCTTCAGCTTGCTTGTGGAAAAACTGGTTATGAC
TATCAATCTGTAAGAAGATGGACAACCCTCAATAGATTGGGCTATGGGCTTGTTGAGTGTGAGA
AAGTAATGTTACTGTTATTATTTTTTCAATGTTTTTCATGTCTGTTTGTCTTTCAAACAAATCA
TGAGATTTATTGTGCAGATCTTTATTCCAATACATAGAAATGTGCATTGGTGCCTTGCGATAAT
AAACATGAAGGATAAAACTTTTCAATACCTTGATTCTTTTGGCGGCATGGACCATGCTGTGCTG
AGAATACTGGTAAGCTTAGCTGATTACAAGTATATTACTGGATTAGAGAGCCAGTTACTTCCAA
TTAGTTCAGTTACAAGTCCGACTTATGAGACGTTAGTTTGGTAAGATGGCACATTGATGACTTA
ACAGTTGATTCAGTCATAGCATTTGGACTTAATTGCTCCAAATTAATTTTGCTAAGTATGTTAT
GGTGCTCTCTATTTGGATGCCATAAATCTCCAGCTCCCACAATAGTTAAAGGGTGGACAAAATT
TTACCCCTGATGCATTCATGGACTTATTTTTTGGTGCTATAGAAATGAGAAAGGTCTTACGTTA
TCACAAATATTTGTGATATCTTAAAATCTGACATGATTCAGAGTTATTCTTTGAAATTTAAATT
GTGACTTACGAAGCAGTAATCCATGTTAATTAGAATTTACCCATCAGGTGCTATTTCAAGCTTT
CAGTTATTTTCAAGTGAAGTTCTGTTTTCTATTCCTCTCAGGCTAGATATATCAGGGATGAATT
GAATGACAAGAGTAACATACAGGTAGACACCAGTTCATGGCTGAAAATATCATCAGATTCTTGT
CCTTTGCAGCAGAATGGGTACGTTCTCTTTACATGCTACATATGACCTACCAGAATTACGTATG
GAATGAATAATGGTTTACCTTCGGTTCTGCAATGAACACAGATGAAGGTCTAAATTTTATCACT
CAGTGCATTAATACATTATCGACATTTGTGTTGTGCATATCAATGACCAAGCATGGTCCGCATG
GATATGTCTGACACTGAATTTCTCTTTTAATAGGTGGGATTGTGGTATGTTTATGCTTAAGTTC
ATTGATTTCCACAGTAGAGGTATTGGCCTATGCTTTACTCAGGTGAGTATAGTACAAAATACTG
GATTCAAGTTATTATATATGCTTAATCTGTTCACTCATTGATTTGCTGTTTGCACTATTAAGTC
AATCTCAAATGAAGAGTCTTAACCTGCTAAGATGAAGCACAATCTCTCTCTTTCATACATCTAA
AGTGGAGTAACATGTACCTTGTACTTAATTGTGTTTGGTGTCATCTAAATCAATCACTATTTGC
AGGAACATATGGATTACTTTAGGAAACGAACAGCGAAGGAGATACTGAGATTGAGAGCTGACTG
AAAAGATGTCCTTTCTTGTTCACACACTCTTGGGCATTTTGTCAAG
						
					

			
		

Sequences
Splice junction sequence	GGATTACTTTAGGAAACGAACAGCGAAGGAGATACTGAGATTGAGAGCTGACTGAAAAGATGTC CTTTCTTGTTCACACACTCTTGGGCATTTTGTCAAGgtcattaatttgtaccttgaattgttaa aggagagggcgcaaagagaaccaaaaagatttttgaaatgccacttcttcaatacattctttta taagaagg
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	GTCATTAATTTGTACCTTGAATTGTTAAAGGAGAGGGCGCAAAGAGAACCAAAAAGATTTTTGA AATGCCACTTCTTCAATACATTCTTTTATAAGAAGGTTAGATAATTTGCATATTTTTCTTTCCG GTGCTGTATGATGGAATGTTCTTTTCAATATTTCTGTAGTTCTGTTACACACACCATTTTATGA TCTTCAGCTTATCAGTTGTCTCTTTGAAGCACTATCAAGTGATATTTATGCAATTATTACTTGA CTCTTTTCCCTTTTTTTGAGGGGAATTTATTATTTTCCTTCCATAGTAGGAATTATCTGCCAGT TAGCAGGAAAACCTGTGATTCTTTTCCTTCGATAGTGGAAATTGTTGGCTAGTTTGCACAAAAA ACCTGTGTTTCAACACTCAAGCATACGGTACCATACATTTGTTTGAGAACACGCAATTCCTACC TTATCCTTAATATATGTTGATGTGTGCCTTGTATTTACTTAATTGATGACCCTTTTCTTGAGTT ACAAATTTTGTGTGGTTGTTATTCTCTTACTTTTTTTTTTGCTAATTTTCCTTGTAGGTTGTAA CATCCCTTACTATCCCTTACTATTTATTAATAACCTTGCTTAGATATCAAATGAATTCTAGCAG TAGTTTGCACCTTCATGATTTTCTGAATTCTCTTCAGCTTGCTTGTGGAAAAACTGGTTATGAC TATCAATCTGTAAGAAGATGGACAACCCTCAATAGATTGGGCTATGGGCTTGTTGAGTGTGAGA AAGTAATGTTACTGTTATTATTTTTTCAATGTTTTTCATGTCTGTTTGTCTTTCAAACAAATCA TGAGATTTATTGTGCAGATCTTTATTCCAATACATAGAAATGTGCATTGGTGCCTTGCGATAAT AAACATGAAGGATAAAACTTTTCAATACCTTGATTCTTTTGGCGGCATGGACCATGCTGTGCTG AGAATACTGGTAAGCTTAGCTGATTACAAGTATATTACTGGATTAGAGAGCCAGTTACTTCCAA TTAGTTCAGTTACAAGTCCGACTTATGAGACGTTAGTTTGGTAAGATGGCACATTGATGACTTA ACAGTTGATTCAGTCATAGCATTTGGACTTAATTGCTCCAAATTAATTTTGCTAAGTATGTTAT GGTGCTCTCTATTTGGATGCCATAAATCTCCAGCTCCCACAATAGTTAAAGGGTGGACAAAATT TTACCCCTGATGCATTCATGGACTTATTTTTTGGTGCTATAGAAATGAGAAAGGTCTTACGTTA TCACAAATATTTGTGATATCTTAAAATCTGACATGATTCAGAGTTATTCTTTGAAATTTAAATT GTGACTTACGAAGCAGTAATCCATGTTAATTAGAATTTACCCATCAGGTGCTATTTCAAGCTTT CAGTTATTTTCAAGTGAAGTTCTGTTTTCTATTCCTCTCAGGCTAGATATATCAGGGATGAATT GAATGACAAGAGTAACATACAGGTAGACACCAGTTCATGGCTGAAAATATCATCAGATTCTTGT CCTTTGCAGCAGAATGGGTACGTTCTCTTTACATGCTACATATGACCTACCAGAATTACGTATG GAATGAATAATGGTTTACCTTCGGTTCTGCAATGAACACAGATGAAGGTCTAAATTTTATCACT CAGTGCATTAATACATTATCGACATTTGTGTTGTGCATATCAATGACCAAGCATGGTCCGCATG GATATGTCTGACACTGAATTTCTCTTTTAATAGGTGGGATTGTGGTATGTTTATGCTTAAGTTC ATTGATTTCCACAGTAGAGGTATTGGCCTATGCTTTACTCAGGTGAGTATAGTACAAAATACTG GATTCAAGTTATTATATATGCTTAATCTGTTCACTCATTGATTTGCTGTTTGCACTATTAAGTC AATCTCAAATGAAGAGTCTTAACCTGCTAAGATGAAGCACAATCTCTCTCTTTCATACATCTAA AGTGGAGTAACATGTACCTTGTACTTAATTGTGTTTGGTGTCATCTAAATCAATCACTATTTGC AGGAACATATGGATTACTTTAGGAAACGAACAGCGAAGGAGATACTGAGATTGAGAGCTGACTG AAAAGATGTCCTTTCTTGTTCACACACTCTTGGGCATTTTGTCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.104519053

Conservation Information
Conserved circRNAs	NA
PMCS	0.104519053

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16892207-16890113(+)
16890095-16892152(-)
						
						Potential amino acid sequence
						
							MSFLVHTLLGILSRSLICTLNC*(+)
MTLTKCPRVCEQERTSFQSALNLSISFAVRFLK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	16892207-16890113(+) 16890095-16892152(-)
Potential amino acid sequence	MSFLVHTLLGILSRSLICTLNC(+) MTLTKCPRVCEQERTSFQSALNLSISFAVRFLK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os03g0410100_circ_g.1

Address

Any questions?

Supported by