Plant Circular RNA Database

Detail information of Os09g0261400_circ_ig.3

			
						 General Information
					
						CircRNA Name
						Os09g0261400_circ_ig.3
					
						ID in PlantcircBase
						osa_circ_038610
					
						Alias
						Os_ciR11987
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 4558393-4562476  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os09g0261400_circ_ig.1 Os09g0261400_circ_ig.2 EPlOSAG00000019399_circ_ig.1 EPlOSAG00000019399_circ_ig.2 EPlOSAG00000019399_circ_ig.3 EPlOSAG00000019399_circ_ig.4 						
					
						Support reads
						2
					
						Tissues
						root
					
						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	Os09g0261400_circ_ig.3
ID in PlantcircBase	osa_circ_038610
Alias	Os_ciR11987
Organism	Oryza sativa
Position	chr9: 4558393-4562476 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ig-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os09g0261400_circ_ig.1 Os09g0261400_circ_ig.2 EPlOSAG00000019399_circ_ig.1 EPlOSAG00000019399_circ_ig.2 EPlOSAG00000019399_circ_ig.3 EPlOSAG00000019399_circ_ig.4
Support reads	2
Tissues	root
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  
						
							CTGCAAGCTTTTCAAAAGACACTGAAAGTGAGAAATGCTCTACACCTCAATGTGAATCGTCTCA
GGAGGCAGATGAAGTTCTGGATGAACCTGCTGCAAGacataactgggagaaatgctcctgctga
aaaggaaattggagtgaatccaaacatggacaaatgtaacagctctgtacctgtcaatccaaac
acagacac

									
								

					

						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
						
							ACATAACTGGGAGAAATGCTCCTGCTGAAAAGGAAATTGGAGTGAATCCAAACATGGACAAATG
TAACAGCTCTGTACCTGTCAATCCAAACACAGACACCAAGACGTCTACTTCGATCTCAAGGTAT
TTATAGTGCAAAAGATCTTCAGTCACATGATTATTGTTTTCTTTTTACTAAATCCTGTTAACCT
TGAGTCCCCTTTTTTTTTGGTATTTACATGCTGGTAAGGTATTTTTTTATTACTCATATTGGAA
AGGATGTTAATTGGCCGGAGTTATTTGTTAATTGATTTTTATTCTTATTTGGATGTGGATTGTA
GATGTTTTTCTTGACAAGATCATGTTTCTGCTTTACACTCCCATTTTTGGCTGGGTTCTTTGAG
TGAAACCCATACCAAACTGTACTGCTAGTAGTATCTTTGTTGTGTATGTTCAGAAGCACTGTTT
GTAGGTTACTTTCATGTGCTTTCTTGAAACATACATGTATTTTCTGGATTCCAACGAAAAAGTA
GAACATATGTGTGTATCTATTTATTCTTAAAACAGTGTGCCATGTGTAGTGTAGATTTATGTTA
TTCAGCTGCAGCAGAACATCAGTACGATGCTGTTCTTTTTTTCTTTTGGGAGGAATGATTAAGG
AGCTGTAGTTTTGTGTCCTAGTATATGATTATGTTAGAAAATTGTAAAATGCTAAGAGGAATAG
ACCACCTAAATTTATGAATTGCTAGTTTTCTACATTGTATTCCAGTGGAGAGTATTTAGAGCAG
GTACAATAGCAGGCTATAAGCCAGCTATAAACATATTTTAAAGAGATAAAAGGAAAAGAGAGAA
GAGTAGCAGGCTACAGATCTGCAGCCAGCTGCAGCACGGACTCCAAGACATAATGTGTGTATGA
CAGGTGGGACCAGCTATTAATAGTATAGTAAGCAACTATTGTATGAATTAGCTATTACATTGGC
TATAGATGATTTGGAGCTAGTAGTGGGCTATACTATTAAACTTGCTCTTATATTTCTTTTATTC
TGATCTGGAGCATAGTGCAAAAAACCGGACCGGTGAGTAACCCGGACGATGCCTCGGTTCACCG
GTCCGACGGTCTGACCGGTGAACCGCCGGTTGAACCGCGGTTCAATAAGTTATTATATATAACA
TGTATATCTCTAAAACAAAACGAAGCAAAGGTGGGATGGTTAGACCTACTCACTCTCAATGCGC
ATACCCAGGTTCGAATCCCCATTCCACCACCCTTTTCTATGCATTTTGTCAAAAAAACAGTCAC
GTGGGCCTGTAGGGCATGGACTGGGCCTTAACGTGGCCCATTAAACTCCTTAACTCCTTTGTCC
GGTCCAACTGAGCCGGTTTAATGGCCGGTTTAGTCAAAACCCGCCCGGTTCAGCCGGTTCAATC
CGGGTCGAATGCATGTCTGGTCTTTCAGTTGAACCGAACCGTGGAGGCCTCTGGTTCCGGTTTT
TTCCGGTCGAACCGCCGGCCCGGTCCGGTTTTTTCCACTATGATCTGGAGTTTAACCAGAATTT
GTGGCTTGATGTAAATATTTTTTTTTTACCGATGCTGTTTGACTGCATAGCCATTCTTCATTTA
CAACTTAGTTTCTTTGATTTACATTGTTTGATGGTTTCTTGGATCATTTGGTATTTGGAGTTTG
CCAAATGGATAAAACATTGAGGTCCACTTATTTCAGTATTAGCTTATCCAATTAAAATGCACCT
GTTTGGACATGCAACTGACTTCTTTACCAGTTTGTCAGTTGGCCAATCCAATGGTTCATCAGAG
CCTGTTGCTTCCATGGAGAAAAGTTCTCTTGCTATAGGTCAGTTGCAGATTTCAGATTCAAAAG
GAATATCTGATTTGGAAGGTAATCCAGAAAAGCTTGTCAATGGCTTAGGTCCAGATGTAAGACT
ATCTTTAATACAGTCAGCACCATCTATATCAGGGGAGTGCATACCAGCTTTGGACCCAGTGCTT
ACACCAGCCCCTGAAGTCCACGGCCACGGTGAGACTGTTTCCACCAAACATGCTTATGCAAGTC
AGTTGGCAGCAGGAGAAAAGGTGGTTTCTAATGATGTATCAACGGCTTCACAAGGTACAATATT
TGAGTTGGGAGTCTTGGGACTCTTTGGTTAGTGTTGTCATGTTTTTAACACCTTTTCATACTCT
AGGCACATCTCGATCTTCTGGTTTGTCATCCACTGTGGTACCTTCTGGTAGTAGGCCATCTTCA
AGCTGCAGTAGTCGTGCACAGCAGTTGAGCAGTGTACAGAAAGGTACTTGTCATTCTGAACTTC
TAAATTTGGGTCCAATCCTTTGCACGTCACTGAAGCAAATGATATGTTGATGTCACTGTGTAGA
TTTTTATGATTGTTACCTTGCAATTGATGTTTGACCTTCCAAATGCGACACTAGGGCAAATGCA
TTATATCTGCTGCTGCTATTGAGCAGATAGCGGCTGCTACATGGCATTTAATATGTTAATATTC
TGTGTTAGATTATTAATTGGACGTTTGGACATGTCATCAGGTTTTCACAATCATCAGTTCTAAT
GATTATAAAGTATAAAAGTTACCTTAGTAGACATTCAAAGCCTTCAAAACACGCATGGGGATTA
GAGATGGCAATGGGAACCCATGACCCGACACCCGACGGGTTTTTACTCTATTATATGGGTATGG
GTACCCGTTACCCGCACGGGTGTGGGCATGGGGACGATTTTGTACCCTCGACGGGTGTGGGTAT
TTAAGTGGGAATATTTAGCCATCATAGGTGTGGGTATGGGGCAAGGGAACCCGATGGGTATGCA
CCCGTTGCCATCTCTAATGGGGATGTACATAATTCAACCTGTTTGAATGCCATCATGCAGCAGG
GAATACATGTGGCTGGCACATACTTACATCCATAATTCAAGCTGTTATGATCTGGCTCGCTCTA
TATTTAAGAGTAAATTGCATCGCCGGTACACGAACTAGAATCACAACTCTGTTGTCCATTGAGG
ATGCTTGCATGGTCATAGTTATTACAACATCTGTACTGGAAAAGAATAAAAGATTTGGTTCAGT
ATGGTACCTTGGTAGGATGTTTTTTTCTTTTGCTGATATTCCAGGGAGAATAAAATAGTTCATT
CACATTGGTTCTAGGGAACTAAGGATTTGAATATTTGAATCCTGGTTCCTGTCTCGCACCCTTG
CCAGATGACGATGAAAAACCAATTTTGCTGGCCCTTTTGTTGTACTAACTTATACATGAAATTG
GCAACCTTCAACAGTGACGCTTAAACATTACTGGCTGTTCACTTGTTCATCCGTGAAATCTATA
TTGCTAAGTTATGTTATGAATTAATTACTATTTAATTCATGTATGGTAGATGCTACTATATACA
GAATCTACAATGCTTTTTGGTAGATGTTCATACCATTTTACTACGAAAAATAAAAAAGTGTGAC
CAAAATTGTCATAAAAGAAGTAGCATTTCAACTCTCCATTTCATTCCACTTCAACACTTCCTGT
GTCTAGTTTATACCACATGCTGTAAAGTTGTCAAATTCTTTATTGCCCAACAGATTATTGTTAT
TCATCAATTATTAAGTTACTTATTTAAGTCAATTTTTTTTGGATCTGGATGGATTGTTCTTTCT
ACTTGAGAATATTGCCTCTGCTTTGCTGATTATAGTTATAATTGTGTTGTCTAGTTGTTCCAAA
TAAAGAATGGAAGCCAAAATCAACAAACAAACCAGCCCATGCTGAAAATGTTATATGTGATAAA
GTGCCTGTTTCTGTGGAGACTGTTCCCCAGTCGATTCTAGTATCGGATTCCATCCATAAGGAAG
ATACCACTTCAGGAGTGGAGACAAGGCCAAGTGACATGCGCCTGTCTGACAAGCAGCATGTTAT
TATTCCTGATCACCTTCAGGTTGCAGAGTCAGAAAAATATGGGCTTAGTTTTGGCAGTTTCGGT
GCCTGTTTTGAGCAATCTGCAAGCTTTTCAAAAGACACTGAAAGTGAGAAATGCTCTACACCTC
AATGTGAATCGTCTCAGGAGGCAGATGAAGTTCTGGATGAACCTGCTGCAAG
						
					

			
		

Sequences
Splice junction sequence	CTGCAAGCTTTTCAAAAGACACTGAAAGTGAGAAATGCTCTACACCTCAATGTGAATCGTCTCA GGAGGCAGATGAAGTTCTGGATGAACCTGCTGCAAGacataactgggagaaatgctcctgctga aaaggaaattggagtgaatccaaacatggacaaatgtaacagctctgtacctgtcaatccaaac acagacac
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	ACATAACTGGGAGAAATGCTCCTGCTGAAAAGGAAATTGGAGTGAATCCAAACATGGACAAATG TAACAGCTCTGTACCTGTCAATCCAAACACAGACACCAAGACGTCTACTTCGATCTCAAGGTAT TTATAGTGCAAAAGATCTTCAGTCACATGATTATTGTTTTCTTTTTACTAAATCCTGTTAACCT TGAGTCCCCTTTTTTTTTGGTATTTACATGCTGGTAAGGTATTTTTTTATTACTCATATTGGAA AGGATGTTAATTGGCCGGAGTTATTTGTTAATTGATTTTTATTCTTATTTGGATGTGGATTGTA GATGTTTTTCTTGACAAGATCATGTTTCTGCTTTACACTCCCATTTTTGGCTGGGTTCTTTGAG TGAAACCCATACCAAACTGTACTGCTAGTAGTATCTTTGTTGTGTATGTTCAGAAGCACTGTTT GTAGGTTACTTTCATGTGCTTTCTTGAAACATACATGTATTTTCTGGATTCCAACGAAAAAGTA GAACATATGTGTGTATCTATTTATTCTTAAAACAGTGTGCCATGTGTAGTGTAGATTTATGTTA TTCAGCTGCAGCAGAACATCAGTACGATGCTGTTCTTTTTTTCTTTTGGGAGGAATGATTAAGG AGCTGTAGTTTTGTGTCCTAGTATATGATTATGTTAGAAAATTGTAAAATGCTAAGAGGAATAG ACCACCTAAATTTATGAATTGCTAGTTTTCTACATTGTATTCCAGTGGAGAGTATTTAGAGCAG GTACAATAGCAGGCTATAAGCCAGCTATAAACATATTTTAAAGAGATAAAAGGAAAAGAGAGAA GAGTAGCAGGCTACAGATCTGCAGCCAGCTGCAGCACGGACTCCAAGACATAATGTGTGTATGA CAGGTGGGACCAGCTATTAATAGTATAGTAAGCAACTATTGTATGAATTAGCTATTACATTGGC TATAGATGATTTGGAGCTAGTAGTGGGCTATACTATTAAACTTGCTCTTATATTTCTTTTATTC TGATCTGGAGCATAGTGCAAAAAACCGGACCGGTGAGTAACCCGGACGATGCCTCGGTTCACCG GTCCGACGGTCTGACCGGTGAACCGCCGGTTGAACCGCGGTTCAATAAGTTATTATATATAACA TGTATATCTCTAAAACAAAACGAAGCAAAGGTGGGATGGTTAGACCTACTCACTCTCAATGCGC ATACCCAGGTTCGAATCCCCATTCCACCACCCTTTTCTATGCATTTTGTCAAAAAAACAGTCAC GTGGGCCTGTAGGGCATGGACTGGGCCTTAACGTGGCCCATTAAACTCCTTAACTCCTTTGTCC GGTCCAACTGAGCCGGTTTAATGGCCGGTTTAGTCAAAACCCGCCCGGTTCAGCCGGTTCAATC CGGGTCGAATGCATGTCTGGTCTTTCAGTTGAACCGAACCGTGGAGGCCTCTGGTTCCGGTTTT TTCCGGTCGAACCGCCGGCCCGGTCCGGTTTTTTCCACTATGATCTGGAGTTTAACCAGAATTT GTGGCTTGATGTAAATATTTTTTTTTTACCGATGCTGTTTGACTGCATAGCCATTCTTCATTTA CAACTTAGTTTCTTTGATTTACATTGTTTGATGGTTTCTTGGATCATTTGGTATTTGGAGTTTG CCAAATGGATAAAACATTGAGGTCCACTTATTTCAGTATTAGCTTATCCAATTAAAATGCACCT GTTTGGACATGCAACTGACTTCTTTACCAGTTTGTCAGTTGGCCAATCCAATGGTTCATCAGAG CCTGTTGCTTCCATGGAGAAAAGTTCTCTTGCTATAGGTCAGTTGCAGATTTCAGATTCAAAAG GAATATCTGATTTGGAAGGTAATCCAGAAAAGCTTGTCAATGGCTTAGGTCCAGATGTAAGACT ATCTTTAATACAGTCAGCACCATCTATATCAGGGGAGTGCATACCAGCTTTGGACCCAGTGCTT ACACCAGCCCCTGAAGTCCACGGCCACGGTGAGACTGTTTCCACCAAACATGCTTATGCAAGTC AGTTGGCAGCAGGAGAAAAGGTGGTTTCTAATGATGTATCAACGGCTTCACAAGGTACAATATT TGAGTTGGGAGTCTTGGGACTCTTTGGTTAGTGTTGTCATGTTTTTAACACCTTTTCATACTCT AGGCACATCTCGATCTTCTGGTTTGTCATCCACTGTGGTACCTTCTGGTAGTAGGCCATCTTCA AGCTGCAGTAGTCGTGCACAGCAGTTGAGCAGTGTACAGAAAGGTACTTGTCATTCTGAACTTC TAAATTTGGGTCCAATCCTTTGCACGTCACTGAAGCAAATGATATGTTGATGTCACTGTGTAGA TTTTTATGATTGTTACCTTGCAATTGATGTTTGACCTTCCAAATGCGACACTAGGGCAAATGCA TTATATCTGCTGCTGCTATTGAGCAGATAGCGGCTGCTACATGGCATTTAATATGTTAATATTC TGTGTTAGATTATTAATTGGACGTTTGGACATGTCATCAGGTTTTCACAATCATCAGTTCTAAT GATTATAAAGTATAAAAGTTACCTTAGTAGACATTCAAAGCCTTCAAAACACGCATGGGGATTA GAGATGGCAATGGGAACCCATGACCCGACACCCGACGGGTTTTTACTCTATTATATGGGTATGG GTACCCGTTACCCGCACGGGTGTGGGCATGGGGACGATTTTGTACCCTCGACGGGTGTGGGTAT TTAAGTGGGAATATTTAGCCATCATAGGTGTGGGTATGGGGCAAGGGAACCCGATGGGTATGCA CCCGTTGCCATCTCTAATGGGGATGTACATAATTCAACCTGTTTGAATGCCATCATGCAGCAGG GAATACATGTGGCTGGCACATACTTACATCCATAATTCAAGCTGTTATGATCTGGCTCGCTCTA TATTTAAGAGTAAATTGCATCGCCGGTACACGAACTAGAATCACAACTCTGTTGTCCATTGAGG ATGCTTGCATGGTCATAGTTATTACAACATCTGTACTGGAAAAGAATAAAAGATTTGGTTCAGT ATGGTACCTTGGTAGGATGTTTTTTTCTTTTGCTGATATTCCAGGGAGAATAAAATAGTTCATT CACATTGGTTCTAGGGAACTAAGGATTTGAATATTTGAATCCTGGTTCCTGTCTCGCACCCTTG CCAGATGACGATGAAAAACCAATTTTGCTGGCCCTTTTGTTGTACTAACTTATACATGAAATTG GCAACCTTCAACAGTGACGCTTAAACATTACTGGCTGTTCACTTGTTCATCCGTGAAATCTATA TTGCTAAGTTATGTTATGAATTAATTACTATTTAATTCATGTATGGTAGATGCTACTATATACA GAATCTACAATGCTTTTTGGTAGATGTTCATACCATTTTACTACGAAAAATAAAAAAGTGTGAC CAAAATTGTCATAAAAGAAGTAGCATTTCAACTCTCCATTTCATTCCACTTCAACACTTCCTGT GTCTAGTTTATACCACATGCTGTAAAGTTGTCAAATTCTTTATTGCCCAACAGATTATTGTTAT TCATCAATTATTAAGTTACTTATTTAAGTCAATTTTTTTTGGATCTGGATGGATTGTTCTTTCT ACTTGAGAATATTGCCTCTGCTTTGCTGATTATAGTTATAATTGTGTTGTCTAGTTGTTCCAAA TAAAGAATGGAAGCCAAAATCAACAAACAAACCAGCCCATGCTGAAAATGTTATATGTGATAAA GTGCCTGTTTCTGTGGAGACTGTTCCCCAGTCGATTCTAGTATCGGATTCCATCCATAAGGAAG ATACCACTTCAGGAGTGGAGACAAGGCCAAGTGACATGCGCCTGTCTGACAAGCAGCATGTTAT TATTCCTGATCACCTTCAGGTTGCAGAGTCAGAAAAATATGGGCTTAGTTTTGGCAGTTTCGGT GCCTGTTTTGAGCAATCTGCAAGCTTTTCAAAAGACACTGAAAGTGAGAAATGCTCTACACCTC AATGTGAATCGTCTCAGGAGGCAGATGAAGTTCTGGATGAACCTGCTGCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.092011814

Conservation Information
Conserved circRNAs	NA
PMCS	0.092011814

			
						 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

circRNA

Detail information of Os09g0261400_circ_ig.3

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