Plant Circular RNA Database

Detail information of Os08g0526300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os08g0526300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_037773
					
						Alias
						Os_ciR1462
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 26178808-26179346  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os08g0526300						
					
						Parent gene annotation
						
							Similar to cDNA clone:001-038-D09, full insert sequence. (Os08t0
526300-01);tRNA-binding arm domain containing protein. (Os08t052
6300-02);tRNA-binding arm domain containing protein. (Os08t05263
00-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						11/5
					
						Tissues
						root/shoot, root, seed
					
						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
						Os08t0526300-01:2
Os08t0526300-02:2
Os08t0526300-03:2

General Information
CircRNA Name	Os08g0526300_circ_g.1
ID in PlantcircBase	osa_circ_037773
Alias	Os_ciR1462
Organism	Oryza sativa
Position	chr8: 26178808-26179346 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	Os08g0526300
Parent gene annotation	Similar to cDNA clone:001-038-D09, full insert sequence. (Os08t0 526300-01);tRNA-binding arm domain containing protein. (Os08t052 6300-02);tRNA-binding arm domain containing protein. (Os08t05263 00-03)
Parent gene strand	+
Alternative splicing	NA
Support reads	11/5
Tissues	root/shoot, root, seed
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	Os08t0526300-01:2 Os08t0526300-02:2 Os08t0526300-03:2

			
						 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: AGGAAAGAGGGAAGTGAAATCG
 R: TCTGTCATAATGGGGTTGCC
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: AGGAAAGAGGGAAGTGAAATCG R: TCTGTCATAATGGGGTTGCC 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  
						
							GAACTTACCTGTCAATCTGTTATTATTTTTTTCTCTTGGCCAGAAAGAGGGAAGTGAAATCGTA
CAAGAAGGTCCAAGATGCAGTCTTCGAAGTCGAAAGgccctgatgagcaaagacttttggaagc
atccatggcttatgtggctggcaaccccattatgacagatgctgaatttgatgaactaaagctg
agattaag

									
								

					

						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: 137
Transcript exons: 26178808-26178908,26179311-26179346
GCCCTGATGAGCAAAGACTTTTGGAAGCATCCATGGCTTATGTGGCTGGCAACCCCATTATGAC
AGATGCTGAATTTGATGAACTAAAGCTGAGATTAAGGCAAGAAGGTCCAAGATGCAGTCTTCGA
AGTCGAAAG
Transcript length: 140
Transcript exons: 26178808-26178908,26179308-26179346
GCCCTGATGAGCAAAGACTTTTGGAAGCATCCATGGCTTATGTGGCTGGCAACCCCATTATGAC
AGATGCTGAATTTGATGAACTAAAGCTGAGATTAAGGGTACAAGAAGGTCCAAGATGCAGTCTT
CGAAGTCGAAAG
Transcript length: 158
Transcript exons: 26178808-26178908,26179290-26179346
GCCCTGATGAGCAAAGACTTTTGGAAGCATCCATGGCTTATGTGGCTGGCAACCCCATTATGAC
AGATGCTGAATTTGATGAACTAAAGCTGAGATTAAGGAAAGAGGGAAGTGAAATCGTACAAGAA
GGTCCAAGATGCAGTCTTCGAAGTCGAAAG
Transcript length: 182
Transcript exons: 26178808-26178962,26179320-26179346
GCCCTGATGAGCAAAGACTTTTGGAAGCATCCATGGCTTATGTGGCTGGCAACCCCATTATGAC
AGATGCTGAATTTGATGAACTAAAGCTGAGATTAAGGGTTGGTCTTTCTTGTCCCTAGTAACCT
TATACTTGCTAAAATGTGTAATATTAACCAAGATGCAGTCTTCGAAGTCGAAAG
Transcript length: 218
Transcript exons: 26178808-26178969,26179291-26179346
GCCCTGATGAGCAAAGACTTTTGGAAGCATCCATGGCTTATGTGGCTGGCAACCCCATTATGAC
AGATGCTGAATTTGATGAACTAAAGCTGAGATTAAGGGTTGGTCTTTCTTGTCCCTAGTAACCT
TATACTTGCTAAAATGTGTAATATTAAGTGCTGTAAGAGGGAAGTGAAATCGTACAAGAAGGTC
CAAGATGCAGTCTTCGAAGTCGAAAG
						
					

						Genomic sequence
						
							GCCCTGATGAGCAAAGACTTTTGGAAGCATCCATGGCTTATGTGGCTGGCAACCCCATTATGAC
AGATGCTGAATTTGATGAACTAAAGCTGAGATTAAGGGTTGGTCTTTCTTGTCCCTAGTAACCT
TATACTTGCTAAAATGTGTAATATTAAGTGCTGTAAAAAATGAATGCTATTCTACCTTATTATT
TAATATCAGCGATAGATTTGGGGCTCCGCTAATTGTACTTCTCAGTGCTGTAGCATGGTAATGA
TGCTAAAGTTGCCTTATAAAAAACATGAGTTATAAGGCTCAGCATTTTGAGTTAAACGGTAAAT
TTTAGTAATTTCTATCATGATATTTGGTTGTCAGTTAGCTTCAGTGTAAAAATGAGATTTAAAG
ATGAAACCATACATATAAAAGACATACATTGTAGCAGTAATGTAAATCCGAGACTGAACTTACC
TGTCAATCTGTTATTATTTTTTTCTCTTGGCCAGAAAGAGGGAAGTGAAATCGTACAAGAAGGT
CCAAGATGCAGTCTTCGAAGTCGAAAG
						
					

			
		

Sequences
Splice junction sequence	GAACTTACCTGTCAATCTGTTATTATTTTTTTCTCTTGGCCAGAAAGAGGGAAGTGAAATCGTA CAAGAAGGTCCAAGATGCAGTCTTCGAAGTCGAAAGgccctgatgagcaaagacttttggaagc atccatggcttatgtggctggcaaccccattatgacagatgctgaatttgatgaactaaagctg agattaag
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: 137 Transcript exons: 26178808-26178908,26179311-26179346 GCCCTGATGAGCAAAGACTTTTGGAAGCATCCATGGCTTATGTGGCTGGCAACCCCATTATGAC AGATGCTGAATTTGATGAACTAAAGCTGAGATTAAGGCAAGAAGGTCCAAGATGCAGTCTTCGA AGTCGAAAG Transcript length: 140 Transcript exons: 26178808-26178908,26179308-26179346 GCCCTGATGAGCAAAGACTTTTGGAAGCATCCATGGCTTATGTGGCTGGCAACCCCATTATGAC AGATGCTGAATTTGATGAACTAAAGCTGAGATTAAGGGTACAAGAAGGTCCAAGATGCAGTCTT CGAAGTCGAAAG Transcript length: 158 Transcript exons: 26178808-26178908,26179290-26179346 GCCCTGATGAGCAAAGACTTTTGGAAGCATCCATGGCTTATGTGGCTGGCAACCCCATTATGAC AGATGCTGAATTTGATGAACTAAAGCTGAGATTAAGGAAAGAGGGAAGTGAAATCGTACAAGAA GGTCCAAGATGCAGTCTTCGAAGTCGAAAG Transcript length: 182 Transcript exons: 26178808-26178962,26179320-26179346 GCCCTGATGAGCAAAGACTTTTGGAAGCATCCATGGCTTATGTGGCTGGCAACCCCATTATGAC AGATGCTGAATTTGATGAACTAAAGCTGAGATTAAGGGTTGGTCTTTCTTGTCCCTAGTAACCT TATACTTGCTAAAATGTGTAATATTAACCAAGATGCAGTCTTCGAAGTCGAAAG Transcript length: 218 Transcript exons: 26178808-26178969,26179291-26179346 GCCCTGATGAGCAAAGACTTTTGGAAGCATCCATGGCTTATGTGGCTGGCAACCCCATTATGAC AGATGCTGAATTTGATGAACTAAAGCTGAGATTAAGGGTTGGTCTTTCTTGTCCCTAGTAACCT TATACTTGCTAAAATGTGTAATATTAAGTGCTGTAAGAGGGAAGTGAAATCGTACAAGAAGGTC CAAGATGCAGTCTTCGAAGTCGAAAG
Genomic sequence	GCCCTGATGAGCAAAGACTTTTGGAAGCATCCATGGCTTATGTGGCTGGCAACCCCATTATGAC AGATGCTGAATTTGATGAACTAAAGCTGAGATTAAGGGTTGGTCTTTCTTGTCCCTAGTAACCT TATACTTGCTAAAATGTGTAATATTAAGTGCTGTAAAAAATGAATGCTATTCTACCTTATTATT TAATATCAGCGATAGATTTGGGGCTCCGCTAATTGTACTTCTCAGTGCTGTAGCATGGTAATGA TGCTAAAGTTGCCTTATAAAAAACATGAGTTATAAGGCTCAGCATTTTGAGTTAAACGGTAAAT TTTAGTAATTTCTATCATGATATTTGGTTGTCAGTTAGCTTCAGTGTAAAAATGAGATTTAAAG ATGAAACCATACATATAAAAGACATACATTGTAGCAGTAATGTAAATCCGAGACTGAACTTACC TGTCAATCTGTTATTATTTTTTTCTCTTGGCCAGAAAGAGGGAAGTGAAATCGTACAAGAAGGT CCAAGATGCAGTCTTCGAAGTCGAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007874* osi_circ_018092 						
					
						PMCS
						0.358428865

Conservation Information
Conserved circRNAs	osi_circ_007874* osi_circ_018092
PMCS	0.358428865

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26179326-26178867(+)
26178841-26178867(+)
26178843-26178867(-)
26178839-26178905(-)
						
						Potential amino acid sequence
						
							MQSSKSKGPDEQRLLEASMAYVAGNPIMTDAEFDELKLRLRKEGSEIVQEGPRCSLRSRKALMS
KDFWKHPWLMWLATPL*(+)
MAYVAGNPIMTDAEFDELKLRLRKEGSEIVQEGPRCSLRSRKALMSKDFWKHPWLMWLATPL*(
+)
MDASKSLCSSGPFDFEDCILDLLVRFHFPLSLISALVHQIQHLS*(-)
MLPKVFAHQGLSTSKTASWTFLYDFTSLFP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	26179326-26178867(+) 26178841-26178867(+) 26178843-26178867(-) 26178839-26178905(-)
Potential amino acid sequence	MQSSKSKGPDEQRLLEASMAYVAGNPIMTDAEFDELKLRLRKEGSEIVQEGPRCSLRSRKALMS KDFWKHPWLMWLATPL(+) MAYVAGNPIMTDAEFDELKLRLRKEGSEIVQEGPRCSLRSRKALMSKDFWKHPWLMWLATPL( +) MDASKSLCSSGPFDFEDCILDLLVRFHFPLSLISALVHQIQHLS(-) MLPKVFAHQGLSTSKTASWTFLYDFTSLFP(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os08g0526300_circ_g.1

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