Plant Circular RNA Database

Detail information of Os02g0596500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0596500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_015295
					
						Alias
						Os_ciR2876
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 23160136-23161557  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0596500						
					
						Parent gene annotation
						
							Similar to Charged multivesicular body protein 6. (Os02t0596500-
01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						4/2
					
						Tissues
						root/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  
						
							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
						Os02t0596500-01:4

General Information
CircRNA Name	Os02g0596500_circ_g.1
ID in PlantcircBase	osa_circ_015295
Alias	Os_ciR2876
Organism	Oryza sativa
Position	chr2: 23160136-23161557 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0596500
Parent gene annotation	Similar to Charged multivesicular body protein 6. (Os02t0596500- 01)
Parent gene strand	-
Alternative splicing	NA
Support reads	4/2
Tissues	root/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	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	Os02t0596500-01:4

			
						 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  
						
							GTGCTTTCTTCTTCTTCAGTGCAATCAAAGCTCTGTCTTTCTTCTTTTGTTGAACTAGCTGCCG
TGCAGCTTCCTTTTCTGCTTCAATCACCTTCTCAAGcttttgttttttctgcagcttctggtct
ctctggtgccttagtgggtacatcaggaagctcaataacctcgtcaatgtcttctgcagcctca
gtgacagc

									
								

					

						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: 559
Transcript exons: 23160136-23160304,23160443-23160526,23161102-23161254,23
161405-23161557
CTTTTGTTTTTTCTGCAGCTTCTGGTCTCTCTGGTGCCTTAGTGGGTACATCAGGAAGCTCAAT
AACCTCGTCAATGTCTTCTGCAGCCTCAGTGACAGCAGGTGTTTCTGATTTCTCCTCAGGCCGT
ACTTCAGTAACTGGAGCATCTGGTAGAGACTCAACGGCAAGCTGTGCTTCCAAGTTCTCAAATT
CAGCCATAACAGCCTCCTCATCCTCAGCAGATAGCTGCTCACCCAGAGCAGCATTTATCTCATC
TTGGTAAGCCTTGGCCTCAGCTGTGTCGTCCATCAACTTTTGGACATCATCAATATTTATCTCA
TTCTGGATAGACTTAAGAGCAGCATTTCCAGCTTTTAGGCTGTCAAATACAGCCTTCTGTTTAC
TTGCTAGTTCAATGTCTGACAGCTGTTGTTCGACATTCATTTGCCATGTGTCAACTTGTTTCAG
CAGCTCTTCCTGTGCTTTCTTCTTCTTCAGTGCAATCAAAGCTCTGTCTTTCTTCTTTTGTTGA
ACTAGCTGCCGTGCAGCTTCCTTTTCTGCTTCAATCACCTTCTCAAG
						
					

						Genomic sequence
						
							CTTTTGTTTTTTCTGCAGCTTCTGGTCTCTCTGGTGCCTTAGTGGGTACATCAGGAAGCTCAAT
AACCTCGTCAATGTCTTCTGCAGCCTCAGTGACAGCAGGTGTTTCTGATTTCTCCTCAGGCCGT
ACTTCAGTAACTGGAGCATCTGGTAGAGACTCAACGGCAAGCTGCAACAGACAGTCATGATCAA
CAATAGAAGAGATAAACCGTTTATGGCTCATGAAAGTTCAGAATTAAAGCATTTTCATGTTGGT
AGTTTGCTCAAAATGGAAAATGCATAAAAGCTCCTGAAAATCAATAAAAACCTGTGCTTCCAAG
TTCTCAAATTCAGCCATAACAGCCTCCTCATCCTCAGCAGATAGCTGCTCACCCAGAGCAGCAT
TTATCTCCTGCAATCAATATTGGTCGATAAGTAAACAATATAAGGAGGTCCATGCAATTGTAGT
TGGAGCACCAACACAACAGAAGGTAAGGCAAGTGCATAGACCATCAATAGAAAAGAAAAACGAT
AGCGCTGTTTGTGTAATCTGACACGTCGATCACAAACTCGCAAATCTACAAATGTTATGCAGGT
CAGATCCATTCATTCTTAAGCTGTTAACTACATAGACCAATGTTACACTCATGCACAACTGTTT
CCAATTAAATCCAATTATAGGCACACAAATAGAGCACATCCTATACAAAATCAGGAGACAACTC
ATACATTCAAGAAGCATATGGGTGTAAACAATAATGCCGCCATTCCAGAACCAAGACTGCTATA
ATCTTTCAGAAAACCTACAGAGTCTATTTAGTCTGGCATAAGTTGATCAAAACAGCTTTTATAG
GAACCCGATGTGATACCAAAGGTGTAACTGAGGATACAGTAAAACAATTTGAGACCATGACTTC
CAGACAACTAAGGGGATAAAACAACTGTAAATGTAGTAACAAGCAAGAGTGTAGAGTTTATTCA
ACTTACATCTTGGTAAGCCTTGGCCTCAGCTGTGTCGTCCATCAACTTTTGGACATCATCAATA
TTTATCTCATTCTGGATAGACTTAAGAGCAGCATTTCCAGCTTTTAGGCTGTCAAATACAGCCT
TCTGTTTACTTGCTAGTTCAATGTCTGACAGCTACAACAAGCAAACAAAAAGAGGATGTCAATC
ATGCATCTTAACTGAACGTTTCACTGATTATCAATTCCGATTGTAAGTAACAGATATTACCCAG
TCAAATTATTTTGAATTCATAAGGAGACAGAATATGTCCAATAGACTACGAACCTGTTGTTCGA
CATTCATTTGCCATGTGTCAACTTGTTTCAGCAGCTCTTCCTGTGCTTTCTTCTTCTTCAGTGC
AATCAAAGCTCTGTCTTTCTTCTTTTGTTGAACTAGCTGCCGTGCAGCTTCCTTTTCTGCTTCA
ATCACCTTCTCAAG
						
					

			
		

Sequences
Splice junction sequence	GTGCTTTCTTCTTCTTCAGTGCAATCAAAGCTCTGTCTTTCTTCTTTTGTTGAACTAGCTGCCG TGCAGCTTCCTTTTCTGCTTCAATCACCTTCTCAAGcttttgttttttctgcagcttctggtct ctctggtgccttagtgggtacatcaggaagctcaataacctcgtcaatgtcttctgcagcctca gtgacagc
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: 559 Transcript exons: 23160136-23160304,23160443-23160526,23161102-23161254,23 161405-23161557 CTTTTGTTTTTTCTGCAGCTTCTGGTCTCTCTGGTGCCTTAGTGGGTACATCAGGAAGCTCAAT AACCTCGTCAATGTCTTCTGCAGCCTCAGTGACAGCAGGTGTTTCTGATTTCTCCTCAGGCCGT ACTTCAGTAACTGGAGCATCTGGTAGAGACTCAACGGCAAGCTGTGCTTCCAAGTTCTCAAATT CAGCCATAACAGCCTCCTCATCCTCAGCAGATAGCTGCTCACCCAGAGCAGCATTTATCTCATC TTGGTAAGCCTTGGCCTCAGCTGTGTCGTCCATCAACTTTTGGACATCATCAATATTTATCTCA TTCTGGATAGACTTAAGAGCAGCATTTCCAGCTTTTAGGCTGTCAAATACAGCCTTCTGTTTAC TTGCTAGTTCAATGTCTGACAGCTGTTGTTCGACATTCATTTGCCATGTGTCAACTTGTTTCAG CAGCTCTTCCTGTGCTTTCTTCTTCTTCAGTGCAATCAAAGCTCTGTCTTTCTTCTTTTGTTGA ACTAGCTGCCGTGCAGCTTCCTTTTCTGCTTCAATCACCTTCTCAAG
Genomic sequence	CTTTTGTTTTTTCTGCAGCTTCTGGTCTCTCTGGTGCCTTAGTGGGTACATCAGGAAGCTCAAT AACCTCGTCAATGTCTTCTGCAGCCTCAGTGACAGCAGGTGTTTCTGATTTCTCCTCAGGCCGT ACTTCAGTAACTGGAGCATCTGGTAGAGACTCAACGGCAAGCTGCAACAGACAGTCATGATCAA CAATAGAAGAGATAAACCGTTTATGGCTCATGAAAGTTCAGAATTAAAGCATTTTCATGTTGGT AGTTTGCTCAAAATGGAAAATGCATAAAAGCTCCTGAAAATCAATAAAAACCTGTGCTTCCAAG TTCTCAAATTCAGCCATAACAGCCTCCTCATCCTCAGCAGATAGCTGCTCACCCAGAGCAGCAT TTATCTCCTGCAATCAATATTGGTCGATAAGTAAACAATATAAGGAGGTCCATGCAATTGTAGT TGGAGCACCAACACAACAGAAGGTAAGGCAAGTGCATAGACCATCAATAGAAAAGAAAAACGAT AGCGCTGTTTGTGTAATCTGACACGTCGATCACAAACTCGCAAATCTACAAATGTTATGCAGGT CAGATCCATTCATTCTTAAGCTGTTAACTACATAGACCAATGTTACACTCATGCACAACTGTTT CCAATTAAATCCAATTATAGGCACACAAATAGAGCACATCCTATACAAAATCAGGAGACAACTC ATACATTCAAGAAGCATATGGGTGTAAACAATAATGCCGCCATTCCAGAACCAAGACTGCTATA ATCTTTCAGAAAACCTACAGAGTCTATTTAGTCTGGCATAAGTTGATCAAAACAGCTTTTATAG GAACCCGATGTGATACCAAAGGTGTAACTGAGGATACAGTAAAACAATTTGAGACCATGACTTC CAGACAACTAAGGGGATAAAACAACTGTAAATGTAGTAACAAGCAAGAGTGTAGAGTTTATTCA ACTTACATCTTGGTAAGCCTTGGCCTCAGCTGTGTCGTCCATCAACTTTTGGACATCATCAATA TTTATCTCATTCTGGATAGACTTAAGAGCAGCATTTCCAGCTTTTAGGCTGTCAAATACAGCCT TCTGTTTACTTGCTAGTTCAATGTCTGACAGCTACAACAAGCAAACAAAAAGAGGATGTCAATC ATGCATCTTAACTGAACGTTTCACTGATTATCAATTCCGATTGTAAGTAACAGATATTACCCAG TCAAATTATTTTGAATTCATAAGGAGACAGAATATGTCCAATAGACTACGAACCTGTTGTTCGA CATTCATTTGCCATGTGTCAACTTGTTTCAGCAGCTCTTCCTGTGCTTTCTTCTTCTTCAGTGC AATCAAAGCTCTGTCTTTCTTCTTTTGTTGAACTAGCTGCCGTGCAGCTTCCTTTTCTGCTTCA ATCACCTTCTCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.254778856

Conservation Information
Conserved circRNAs	NA
PMCS	0.254778856

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23161429-23161108(+)
23161424-23161555(-)
23160521-23161555(-)
						
						Potential amino acid sequence
						
							MCQLVSAALPVLSSSSVQSKLCLSSFVELAAVQLPFLLQSPSQAFVFSAASGLSGALVGTSGSS
ITSSMSSAASVTAGVSDFSSGRTSVTGASGRDSTASCASKFSNSAITASSSSADSCSPRAAFIS
SW*(+)
MNVEQQLSDIELASKQKAVFDSLKAGNAALKSIQNEINIDDVQKLMDDTAEAKAYQDEINAALG
EQLSAEDEEAVMAEFENLEAQLAVESLPDAPVTEVRPEEKSETPAVTEAAEDIDEVIELPDVPT
KAPERPEAAEKTKA*(-)
MLLWVSSYLLRMRRLLWLNLRTWKHSLPLSLYQMLQLLKYGLRRNQKHLLSLRLQKTLTRLLSF
LMYPLRHQRDQKLQKKQKLEKVIEAEKEAARQLVQQKKKDRALIALKKKKAQEELLKQVDTWQM
NVEQQLSDIELASKQKAVFDSLKAGNAALKSIQNEINIDDVQKLMDDTAEAKAYQDEINAALGE
QLSAEDEEAVMAEFENLEAQLAVESLPDAPVTEVRPEEKSETPAVTEAAEDIDEVIELPDVPTK
APERPEAAEKTKA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23161429-23161108(+) 23161424-23161555(-) 23160521-23161555(-)
Potential amino acid sequence	MCQLVSAALPVLSSSSVQSKLCLSSFVELAAVQLPFLLQSPSQAFVFSAASGLSGALVGTSGSS ITSSMSSAASVTAGVSDFSSGRTSVTGASGRDSTASCASKFSNSAITASSSSADSCSPRAAFIS SW(+) MNVEQQLSDIELASKQKAVFDSLKAGNAALKSIQNEINIDDVQKLMDDTAEAKAYQDEINAALG EQLSAEDEEAVMAEFENLEAQLAVESLPDAPVTEVRPEEKSETPAVTEAAEDIDEVIELPDVPT KAPERPEAAEKTKA(-) MLLWVSSYLLRMRRLLWLNLRTWKHSLPLSLYQMLQLLKYGLRRNQKHLLSLRLQKTLTRLLSF LMYPLRHQRDQKLQKKQKLEKVIEAEKEAARQLVQQKKKDRALIALKKKKAQEELLKQVDTWQM NVEQQLSDIELASKQKAVFDSLKAGNAALKSIQNEINIDDVQKLMDDTAEAKAYQDEINAALGE QLSAEDEEAVMAEFENLEAQLAVESLPDAPVTEVRPEEKSETPAVTEAAEDIDEVIELPDVPTK APERPEAAEKTKA*(-)
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 Os02g0596500_circ_g.1

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