Plant Circular RNA Database

Detail information of Os02g0104200_circ_ig.2

			
						 General Information
					
						CircRNA Name
						Os02g0104200_circ_ig.2
					
						ID in PlantcircBase
						osa_circ_012646
					
						Alias
						Os_ciR2871, 
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 207588-209630  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						find_circ, CIRI-long
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os02g0104200_circ_ig.1 						
					
						Support reads
						4
					
						Tissues
						root, leaf
					
						Exon boundary  
						
							No-No							"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
						NA

General Information
CircRNA Name	Os02g0104200_circ_ig.2
ID in PlantcircBase	osa_circ_012646
Alias	Os_ciR2871,
Organism	Oryza sativa
Position	chr2: 207588-209630 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ig-circRNA
Identification method	find_circ, CIRI-long
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os02g0104200_circ_ig.1
Support reads	4
Tissues	root, leaf
Exon boundary	No-No "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	NA

			
						 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  
						
							GTAGCCTCTTTTCTCTTTGCAGCATCATCCCTTTTATTACTGCGCGCATCAGTTCCATTTGCGT
CTAATGCTCTGAGGCCGAGCTTTAATTTACACTCAAgtgctgacctgaaggcccagagaacagt
agcagctgtaaccttgcctcgtgttagaagctactgttacatgtcagtttaacagagaagggca
gctgccta

									
								

					

						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: 597
Transcript exons: 207588-207794,207956-208049,208409-208505,209238-209358,
209553-209630
GTGCTGACCTGAAGGCCCAGAGAACAGTAGCAGCTGTAACCTTGCCTCGTGTTAGAAGCTACTG
TTACATGTCAGTTTAACAGAGAAGGGCAGCTGCCTAGAATGTAATTAAAACTGGATAGTCAGGC
CAGGAAATAAACTTCTTTTGGGTGAGCAAACAAAATGGCGAACCCAAGCAACGTCGCAACTAAT
GGTAATGTCACCAAGGGGAGTTGCTGCCTACTGACACTTTGGGTGATTGTAAGTTTGTAACCAT
AGCCCATAGTAGATGATGATATCTCCTGCCCTGGTGAGTTGTGAGACCTGATGCCCCCTGCATG
GCTGCATGCTTCCACTCTTCAACTGCAGTACAAATTGTTGCAGAAGATTCAAATAAAGAAATTG
GCAATATCGATACACAGAGAGCTTGCTGGTGGTGGCAATGCGATGCAAGCTGCCAGGGCCAGGG
CAGGGCAGGGGTTGCAGCTCTGTGAAAGAGGACGCGACGCACAGCAGTAGTAGTACGTTACATA
CAGCCAGCATCATCCCTTTTATTACTGCGCGCATCAGTTCCATTTGCGTCTAATGCTCTGAGGC
CGAGCTTTAATTTACACTCAA
						
					

						Genomic sequence
						
							GTGCTGACCTGAAGGCCCAGAGAACAGTAGCAGCTGTAACCTTGCCTCGTGTTAGAAGCTACTG
TTACATGTCAGTTTAACAGAGAAGGGCAGCTGCCTAGAATGTAATTAAAACTGGATAGTCAGGC
CAGGAAATAAACTTCTTTTGGGTGAGCAAACAAAATGGCGAACCCAAGCAACGTCGCAACTAAT
GGTAATGTCACCAAGGTACGTGCAAAGAGCCAAAGGGCTACATAAGATGGAGTGATTTACCTAG
CTTAAACTTGCGTCATTGTTAACTAGCAGGAGGAATTCATTGTTGTTTACTACAGTTGGTTGTT
TTGTAATAATTGGCTTGCACAAATTTTGTTCAACCTTTTGATTTGCAGGGGAGTTGCTGCCTAC
TGACACTTTGGGTGATTGTAAGTTTGTAACCATAGCCCATAGTAGATGATGATATCTCCTGCCC
TGGTGAGTTGTGAGGTACATTTTCCTCCCTTTAAAAAACTCAACACCTGCAGTTCTTGTCTGCC
AAGCGTGTCATGCATGAGTAAATTGCTGACCTCCTAGCTGTACTATGGGGTTCAACTGCATTAT
TAATTTTCCTGTTGCAACAATATTGTTTGCTAGCTAGCTTTTCCTGGTTGAATAGCACACATGT
ACCCCAAGTCTGTTTAACTCCAGTGCCTCCGCTAGCACTTTAGTGAAGCTAAACAGTATTACCG
TGTCTGCTAACACTGCTTAACGCTGGCATCAGCATAGGCCGTTGTTCCGTTCAGTATTGTCAAA
TAATGGAACCCGGTAATAACATGTATGTGTTGTCAATCCTTTTTGGCCTACAGACCTGATGCCC
CCTGCATGGCTGCATGCTTCCACTCTTCAACTGCAGTACAAATTGTTGCAGAAGATTCAAATAA
AGAAATTGGCAATATCGATACAGTAAGTTTCTGTCATTCCACAAGGTTGGAGTACTCCAAACTT
GATAAATTTTGTGGGAAGTGAACAAAGTTTAGTGGGCTACCCAACAAATAAGTTTTATGTATTC
ATTTCTAACTTTTTTTTTGTTGTAGGAACAACCATCACCACTATGGTCTTTTTAAGTAGTAAAT
ATTTTTTTTAGACCATCTATGTTTTATGTCAGTCGTGCATTATAAGCACTTGGTAGTGGAAATG
GAATTTCTTGTAGGTCTTTTAAGTCTTTCTACTACTTTTTTTAAAATAAAATAAAATGGCTTCT
GCCTTTGGCTACTTTGCCAAGTCATTGATAGATTACCCAATGTGATTCAAATTAAGGGTGTGTT
TAGTTCACGCCAAAATTGAAAGTTTGATTGAAATTGGAATGATGTAACGGAAAAGTTGGAAGTT
TGTGTGTAGGAAAGTTTTGATATGATGGAAAAGTTGGAAGTTTGAAAAAAAAAAGTTGGGATCT
AAACCCGGCCTAAGGTTCAAACTGAAGTGAATGGTTTTAATAGTTCGGTATTCAGAGAGTGTAA
AACAAACTTTTCCCAATTCCTATCAGCTCCTAATTCAATTTTTAATGAGCTGCATGGTTTACTT
TATCTACAATAGCAAAGCAATAGCTAAGGTACAGAAATTTCCTTCCTTTTTTACTCTCCAGATC
TTTCTATGTCTAGACTTCCTTTTGAATGCAGTTTCTTCTTCCTTTTGCAGCAGAGAGCTTGCTG
GTGGTGGCAATGCGATGCAAGCTGCCAGGGCCAGGGCAGGGCAGGGGTTGCAGCTCTGTGAAAG
AGGACGCGACGCACAGCAGTAGTAGTACGTTACATACAGCCAGGTGCATGACTGATAAAGACGC
ATCGATGGATCAATCGGCAGCATATGCATTTGCATAACACGCACTGCTCACCCTTAATTTTGAC
TTCATTTCTTGGAGCTACAAGTACCTTTATATATTGTCCTTCAATTCTCCTGGAAATTATTTTC
AGTTATACTCTACATTTACTGGAGTAGCCTCTTTTCTCTTTGCAGCATCATCCCTTTTATTACT
GCGCGCATCAGTTCCATTTGCGTCTAATGCTCTGAGGCCGAGCTTTAATTTACACTCAA
						
					

			
		

Sequences
Splice junction sequence	GTAGCCTCTTTTCTCTTTGCAGCATCATCCCTTTTATTACTGCGCGCATCAGTTCCATTTGCGT CTAATGCTCTGAGGCCGAGCTTTAATTTACACTCAAgtgctgacctgaaggcccagagaacagt agcagctgtaaccttgcctcgtgttagaagctactgttacatgtcagtttaacagagaagggca gctgccta
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: 597 Transcript exons: 207588-207794,207956-208049,208409-208505,209238-209358, 209553-209630 GTGCTGACCTGAAGGCCCAGAGAACAGTAGCAGCTGTAACCTTGCCTCGTGTTAGAAGCTACTG TTACATGTCAGTTTAACAGAGAAGGGCAGCTGCCTAGAATGTAATTAAAACTGGATAGTCAGGC CAGGAAATAAACTTCTTTTGGGTGAGCAAACAAAATGGCGAACCCAAGCAACGTCGCAACTAAT GGTAATGTCACCAAGGGGAGTTGCTGCCTACTGACACTTTGGGTGATTGTAAGTTTGTAACCAT AGCCCATAGTAGATGATGATATCTCCTGCCCTGGTGAGTTGTGAGACCTGATGCCCCCTGCATG GCTGCATGCTTCCACTCTTCAACTGCAGTACAAATTGTTGCAGAAGATTCAAATAAAGAAATTG GCAATATCGATACACAGAGAGCTTGCTGGTGGTGGCAATGCGATGCAAGCTGCCAGGGCCAGGG CAGGGCAGGGGTTGCAGCTCTGTGAAAGAGGACGCGACGCACAGCAGTAGTAGTACGTTACATA CAGCCAGCATCATCCCTTTTATTACTGCGCGCATCAGTTCCATTTGCGTCTAATGCTCTGAGGC CGAGCTTTAATTTACACTCAA
Genomic sequence	GTGCTGACCTGAAGGCCCAGAGAACAGTAGCAGCTGTAACCTTGCCTCGTGTTAGAAGCTACTG TTACATGTCAGTTTAACAGAGAAGGGCAGCTGCCTAGAATGTAATTAAAACTGGATAGTCAGGC CAGGAAATAAACTTCTTTTGGGTGAGCAAACAAAATGGCGAACCCAAGCAACGTCGCAACTAAT GGTAATGTCACCAAGGTACGTGCAAAGAGCCAAAGGGCTACATAAGATGGAGTGATTTACCTAG CTTAAACTTGCGTCATTGTTAACTAGCAGGAGGAATTCATTGTTGTTTACTACAGTTGGTTGTT TTGTAATAATTGGCTTGCACAAATTTTGTTCAACCTTTTGATTTGCAGGGGAGTTGCTGCCTAC TGACACTTTGGGTGATTGTAAGTTTGTAACCATAGCCCATAGTAGATGATGATATCTCCTGCCC TGGTGAGTTGTGAGGTACATTTTCCTCCCTTTAAAAAACTCAACACCTGCAGTTCTTGTCTGCC AAGCGTGTCATGCATGAGTAAATTGCTGACCTCCTAGCTGTACTATGGGGTTCAACTGCATTAT TAATTTTCCTGTTGCAACAATATTGTTTGCTAGCTAGCTTTTCCTGGTTGAATAGCACACATGT ACCCCAAGTCTGTTTAACTCCAGTGCCTCCGCTAGCACTTTAGTGAAGCTAAACAGTATTACCG TGTCTGCTAACACTGCTTAACGCTGGCATCAGCATAGGCCGTTGTTCCGTTCAGTATTGTCAAA TAATGGAACCCGGTAATAACATGTATGTGTTGTCAATCCTTTTTGGCCTACAGACCTGATGCCC CCTGCATGGCTGCATGCTTCCACTCTTCAACTGCAGTACAAATTGTTGCAGAAGATTCAAATAA AGAAATTGGCAATATCGATACAGTAAGTTTCTGTCATTCCACAAGGTTGGAGTACTCCAAACTT GATAAATTTTGTGGGAAGTGAACAAAGTTTAGTGGGCTACCCAACAAATAAGTTTTATGTATTC ATTTCTAACTTTTTTTTTGTTGTAGGAACAACCATCACCACTATGGTCTTTTTAAGTAGTAAAT ATTTTTTTTAGACCATCTATGTTTTATGTCAGTCGTGCATTATAAGCACTTGGTAGTGGAAATG GAATTTCTTGTAGGTCTTTTAAGTCTTTCTACTACTTTTTTTAAAATAAAATAAAATGGCTTCT GCCTTTGGCTACTTTGCCAAGTCATTGATAGATTACCCAATGTGATTCAAATTAAGGGTGTGTT TAGTTCACGCCAAAATTGAAAGTTTGATTGAAATTGGAATGATGTAACGGAAAAGTTGGAAGTT TGTGTGTAGGAAAGTTTTGATATGATGGAAAAGTTGGAAGTTTGAAAAAAAAAAGTTGGGATCT AAACCCGGCCTAAGGTTCAAACTGAAGTGAATGGTTTTAATAGTTCGGTATTCAGAGAGTGTAA AACAAACTTTTCCCAATTCCTATCAGCTCCTAATTCAATTTTTAATGAGCTGCATGGTTTACTT TATCTACAATAGCAAAGCAATAGCTAAGGTACAGAAATTTCCTTCCTTTTTTACTCTCCAGATC TTTCTATGTCTAGACTTCCTTTTGAATGCAGTTTCTTCTTCCTTTTGCAGCAGAGAGCTTGCTG GTGGTGGCAATGCGATGCAAGCTGCCAGGGCCAGGGCAGGGCAGGGGTTGCAGCTCTGTGAAAG AGGACGCGACGCACAGCAGTAGTAGTACGTTACATACAGCCAGGTGCATGACTGATAAAGACGC ATCGATGGATCAATCGGCAGCATATGCATTTGCATAACACGCACTGCTCACCCTTAATTTTGAC TTCATTTCTTGGAGCTACAAGTACCTTTATATATTGTCCTTCAATTCTCCTGGAAATTATTTTC AGTTATACTCTACATTTACTGGAGTAGCCTCTTTTCTCTTTGCAGCATCATCCCTTTTATTACT GCGCGCATCAGTTCCATTTGCGTCTAATGCTCTGAGGCCGAGCTTTAATTTACACTCAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_011826 						
					
						PMCS
						0.420902733

Conservation Information
Conserved circRNAs	osi_circ_011826
PMCS	0.420902733

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

			
						 Other Information
					
						References
						Ye et al., 2015; this study

circRNA

Detail information of Os02g0104200_circ_ig.2

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