Plant Circular RNA Database

Detail information of Os01g0304300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0304300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_001487
					
						Alias
						Os01circ09837/Os_ciR622
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 11275150-11275596  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, circseq_cup, find_circ
					
						Parent gene
						
							Os01g0304300						
					
						Parent gene annotation
						
							Similar to predicted protein. (Os01t0304300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						3/53/8/10
					
						Tissues
						panicle/root/root/shoot, 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
						Os01t0304300-01:2

General Information
CircRNA Name	Os01g0304300_circ_g.1
ID in PlantcircBase	osa_circ_001487
Alias	Os01circ09837/Os_ciR622
Organism	Oryza sativa
Position	chr1: 11275150-11275596 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, circseq_cup, find_circ
Parent gene	Os01g0304300
Parent gene annotation	Similar to predicted protein. (Os01t0304300-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	3/53/8/10
Tissues	panicle/root/root/shoot, 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	Os01t0304300-01:2

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							Yes							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   
						
							F: CGGTTCATTGTGGATTTGCG
 R: AGCTTCGAAGGACTGGTGAT
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	Yes 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	F: CGGTTCATTGTGGATTTGCG R: AGCTTCGAAGGACTGGTGAT 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  
						
							GGGAAGATACCCGGTGTCAATACTGGGTTCGATATAGATAGAGCTGATCTTTCTGAGATGTGGC
AGTGCCAGGGGATAGTTGTTGCTTCTGCTATTTTTGcatgtcctgtttgttatgtgcctgttga
gcaggccctggcattgatgccaggtgcaccatcagcatcaccagtccttcgaagcttaaattat
ttgtctgg

									
								

					

						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: 170
Transcript exons: 11275150-11275288,11275566-11275596
CATGTCCTGTTTGTTATGTGCCTGTTGAGCAGGCCCTGGCATTGATGCCAGGTGCACCATCAGC
ATCACCAGTCCTTCGAAGCTTAAATTATTTGTCTGGTGATAATTTGATTTCAAAAGAGTCAAAC
CACGGTTCTTTCAGGGGATAGTTGTTGCTTCTGCTATTTTTG
Transcript length: 180
Transcript exons: 11275150-11275238,11275506-11275596
CATGTCCTGTTTGTTATGTGCCTGTTGAGCAGGCCCTGGCATTGATGCCAGGTGCACCATCAGC
ATCACCAGTCCTTCGAAGCTTAAATCCCGGTGTCAATACTGGGTTCGATATAGATAGAGCTGAT
CTTTCTGAGATGTGGCAGTGCCAGGGGATAGTTGTTGCTTCTGCTATTTTTG
Transcript length: 181
Transcript exons: 11275150-11275231,11275498-11275596
CATGTCCTGTTTGTTATGTGCCTGTTGAGCAGGCCCTGGCATTGATGCCAGGTGCACCATCAGC
ATCACCAGTCCTTCGAAGGGAAGATACCCGGTGTCAATACTGGGTTCGATATAGATAGAGCTGA
TCTTTCTGAGATGTGGCAGTGCCAGGGGATAGTTGTTGCTTCTGCTATTTTTG
Transcript length: 229
Transcript exons: 11275150-11275349,11275568-11275596
CATGTCCTGTTTGTTATGTGCCTGTTGAGCAGGCCCTGGCATTGATGCCAGGTGCACCATCAGC
ATCACCAGTCCTTCGAAGCTTAAATTATTTGTCTGGTGATAATTTGATTTCAAAAGAGTCAAAC
CACGGTTCTTTGTTTGGAGGTTATCCATCATTGGAAGAGCGAGACAAGTCTTATGACATAAAAG
ACTCAATGGGGGATAGTTGTTGCTTCTGCTATTTTTG
Transcript length: 324
Transcript exons: 11275150-11275363,11275487-11275596
CATGTCCTGTTTGTTATGTGCCTGTTGAGCAGGCCCTGGCATTGATGCCAGGTGCACCATCAGC
ATCACCAGTCCTTCGAAGCTTAAATTATTTGTCTGGTGATAATTTGATTTCAAAAGAGTCAAAC
CACGGTTCTTTGTTTGGAGGTTATCCATCATTGGAAGAGCGAGACAAGTCTTATGACATAAAAG
ACTCAATGACGGTTCATTGTGGATTTGCGAGAGGGAAGATACCCGGTGTCAATACTGGGTTCGA
TATAGATAGAGCTGATCTTTCTGAGATGTGGCAGTGCCAGGGGATAGTTGTTGCTTCTGCTATT
TTTG
						
					

						Genomic sequence
						
							CATGTCCTGTTTGTTATGTGCCTGTTGAGCAGGCCCTGGCATTGATGCCAGGTGCACCATCAGC
ATCACCAGTCCTTCGAAGCTTAAATTATTTGTCTGGTGATAATTTGATTTCAAAAGAGTCAAAC
CACGGTTCTTTGTTTGGAGGTTATCCATCATTGGAAGAGCGAGACAAGTCTTATGACATAAAAG
ACTCAATGACGGTTCATTGTGGGTATGTTTACATAGCTCATCTGCTTTAGCTTCTGCACATCTA
TATGATAACTATCTACAGAAGTACAAATATTAATGCATTTTAATAGTTTACAATGTAACTGAAC
TTTACTGCATTTTTCAGATTTGCGAGAGGGAAGATACCCGGTGTCAATACTGGGTTCGATATAG
ATAGAGCTGATCTTTCTGAGATGTGGCAGTGCCAGGGGATAGTTGTTGCTTCTGCTATTTTTG
						
					

			
		

Sequences
Splice junction sequence	GGGAAGATACCCGGTGTCAATACTGGGTTCGATATAGATAGAGCTGATCTTTCTGAGATGTGGC AGTGCCAGGGGATAGTTGTTGCTTCTGCTATTTTTGcatgtcctgtttgttatgtgcctgttga gcaggccctggcattgatgccaggtgcaccatcagcatcaccagtccttcgaagcttaaattat ttgtctgg
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: 170 Transcript exons: 11275150-11275288,11275566-11275596 CATGTCCTGTTTGTTATGTGCCTGTTGAGCAGGCCCTGGCATTGATGCCAGGTGCACCATCAGC ATCACCAGTCCTTCGAAGCTTAAATTATTTGTCTGGTGATAATTTGATTTCAAAAGAGTCAAAC CACGGTTCTTTCAGGGGATAGTTGTTGCTTCTGCTATTTTTG Transcript length: 180 Transcript exons: 11275150-11275238,11275506-11275596 CATGTCCTGTTTGTTATGTGCCTGTTGAGCAGGCCCTGGCATTGATGCCAGGTGCACCATCAGC ATCACCAGTCCTTCGAAGCTTAAATCCCGGTGTCAATACTGGGTTCGATATAGATAGAGCTGAT CTTTCTGAGATGTGGCAGTGCCAGGGGATAGTTGTTGCTTCTGCTATTTTTG Transcript length: 181 Transcript exons: 11275150-11275231,11275498-11275596 CATGTCCTGTTTGTTATGTGCCTGTTGAGCAGGCCCTGGCATTGATGCCAGGTGCACCATCAGC ATCACCAGTCCTTCGAAGGGAAGATACCCGGTGTCAATACTGGGTTCGATATAGATAGAGCTGA TCTTTCTGAGATGTGGCAGTGCCAGGGGATAGTTGTTGCTTCTGCTATTTTTG Transcript length: 229 Transcript exons: 11275150-11275349,11275568-11275596 CATGTCCTGTTTGTTATGTGCCTGTTGAGCAGGCCCTGGCATTGATGCCAGGTGCACCATCAGC ATCACCAGTCCTTCGAAGCTTAAATTATTTGTCTGGTGATAATTTGATTTCAAAAGAGTCAAAC CACGGTTCTTTGTTTGGAGGTTATCCATCATTGGAAGAGCGAGACAAGTCTTATGACATAAAAG ACTCAATGGGGGATAGTTGTTGCTTCTGCTATTTTTG Transcript length: 324 Transcript exons: 11275150-11275363,11275487-11275596 CATGTCCTGTTTGTTATGTGCCTGTTGAGCAGGCCCTGGCATTGATGCCAGGTGCACCATCAGC ATCACCAGTCCTTCGAAGCTTAAATTATTTGTCTGGTGATAATTTGATTTCAAAAGAGTCAAAC CACGGTTCTTTGTTTGGAGGTTATCCATCATTGGAAGAGCGAGACAAGTCTTATGACATAAAAG ACTCAATGACGGTTCATTGTGGATTTGCGAGAGGGAAGATACCCGGTGTCAATACTGGGTTCGA TATAGATAGAGCTGATCTTTCTGAGATGTGGCAGTGCCAGGGGATAGTTGTTGCTTCTGCTATT TTTG
Genomic sequence	CATGTCCTGTTTGTTATGTGCCTGTTGAGCAGGCCCTGGCATTGATGCCAGGTGCACCATCAGC ATCACCAGTCCTTCGAAGCTTAAATTATTTGTCTGGTGATAATTTGATTTCAAAAGAGTCAAAC CACGGTTCTTTGTTTGGAGGTTATCCATCATTGGAAGAGCGAGACAAGTCTTATGACATAAAAG ACTCAATGACGGTTCATTGTGGGTATGTTTACATAGCTCATCTGCTTTAGCTTCTGCACATCTA TATGATAACTATCTACAGAAGTACAAATATTAATGCATTTTAATAGTTTACAATGTAACTGAAC TTTACTGCATTTTTCAGATTTGCGAGAGGGAAGATACCCGGTGTCAATACTGGGTTCGATATAG ATAGAGCTGATCTTTCTGAGATGTGGCAGTGCCAGGGGATAGTTGTTGCTTCTGCTATTTTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_001998* osi_circ_009252 						
					
						PMCS
						0.50901594

Conservation Information
Conserved circRNAs	osi_circ_001998* osi_circ_009252
PMCS	0.50901594

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11275195-11275593(+)
11275310-11275590(-)
						
						Potential amino acid sequence
						
							MPGAPSASPVLRSLNYLSGDNLISKESNHGSLFGGYPSLEERDKSYDIKDSMTVHCGFARGKIP
GVNTGFDIDRADLSEMWQCQGIVVASAIFACPVCYVPVEQALALMPGAPSASPVLRSLNYLSGD
NLISKESNHGSLFGGYPSLEERDKSYDIKDSMTVHCGFARGKIPGVNTGFDIDRADLSEMWQCQ
GIVVASAIFACPVCYVPVEQALALMPGAPSASPVLRSLNYLSGDNLISKESNHGSLFGGYPSLE
ERDKSYDIKDSMTVHCGFARGKIPGVNTGFDIDRADLSEMWQCQGIVVASAIFACPVCYVPVEQ
ALALMPGAPSASPVLRSLNYLSGDNLISKESNHGSLFGGYPSLEERDKSYDIKDSMTVHCGFAR
GKIPGVNTGFDIDRADLSEMWQCQGIVVASAIF(+)
MMDNLQTKNRGLTLLKSNYHQTNNLSFEGLVMLMVHLASMPGPAQQAHNKQDMQK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11275195-11275593(+) 11275310-11275590(-)
Potential amino acid sequence	MPGAPSASPVLRSLNYLSGDNLISKESNHGSLFGGYPSLEERDKSYDIKDSMTVHCGFARGKIP GVNTGFDIDRADLSEMWQCQGIVVASAIFACPVCYVPVEQALALMPGAPSASPVLRSLNYLSGD NLISKESNHGSLFGGYPSLEERDKSYDIKDSMTVHCGFARGKIPGVNTGFDIDRADLSEMWQCQ GIVVASAIFACPVCYVPVEQALALMPGAPSASPVLRSLNYLSGDNLISKESNHGSLFGGYPSLE ERDKSYDIKDSMTVHCGFARGKIPGVNTGFDIDRADLSEMWQCQGIVVASAIFACPVCYVPVEQ ALALMPGAPSASPVLRSLNYLSGDNLISKESNHGSLFGGYPSLEERDKSYDIKDSMTVHCGFAR GKIPGVNTGFDIDRADLSEMWQCQGIVVASAIF(+) MMDNLQTKNRGLTLLKSNYHQTNNLSFEGLVMLMVHLASMPGPAQQAHNKQDMQK*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Ye et al., 2016;Chu et al., 2017

circRNA

Detail information of Os01g0304300_circ_g.1

Address

Any questions?

Supported by