Plant Circular RNA Database

Detail information of BGIOSGA013554_circ_g.1

			
						 General Information
					
						CircRNA Name
						BGIOSGA013554_circ_g.1
					
						ID in PlantcircBase
						osi_circ_013641
					
						Alias
						Chr03:33783370_33785761(MH63RS2), Chr03:33609188_33611580(ZS97RS2), Chr03:33783370_33785761(MH63RS2)
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr3: 34994842-34997235  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							ei-circRNA							
									
						Identification method
						CIRI2, CIRI2, CIRCexplorer2, CIRI2
					
						Parent gene
						
							BGIOSGA013554						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							BGIOSGA013554_circ_g.2 BGIOSGA013554_circ_g.3 BGIOSGA013554_circ_g.4 						
					
						Support reads
						NA
					
						Tissues
						root, leaf, panicle
					
						Exon boundary  
						
							No-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-CA							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
						BGIOSGA013554-TA:6

General Information
CircRNA Name	BGIOSGA013554_circ_g.1
ID in PlantcircBase	osi_circ_013641
Alias	Chr03:33783370_33785761(MH63RS2), Chr03:33609188_33611580(ZS97RS2), Chr03:33783370_33785761(MH63RS2)
Organism	Oryza sativa ssp. indica
Position	chr3: 34994842-34997235 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	ei-circRNA
Identification method	CIRI2, CIRI2, CIRCexplorer2, CIRI2
Parent gene	BGIOSGA013554
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	BGIOSGA013554_circ_g.2 BGIOSGA013554_circ_g.3 BGIOSGA013554_circ_g.4
Support reads	NA
Tissues	root, leaf, panicle
Exon boundary	No-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-CA 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	BGIOSGA013554-TA:6

			
						 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  
						
							GTGGCATGTTGTCAAGGATGTACCCAACAACATCTTGAAGCACATTACATTGGATAACAACGAC
AATAAGCCTGTGACAAACAGCCGTGACACACAAGAGgaggctactgacatgatgcagaagctgt
cgttggagagcaagaaggaaggcgccacccctgacgctaccaagaaggtagcttttgctggcga
ttcttgtc

									
								

					

						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
						
							GAGGCTACTGACATGATGCAGAAGCTGTCGTTGGAGAGCAAGAAGGAAGGCGCCACCCCTGACG
CTACCAAGAAGGTAGCTTTTGCTGGCGATTCTTGTCTGTGATGTGTTGCTTGTGCCATCCTTTT
TGTTTGTTTGGAGGAGAGGTAGCTAAAAATTATGGTCCTTTTTGTGAATTGCAGCCTGCCGGGA
TGCCCTATGGATCTGCAAGCGCCGGCGATGCGCAGAATGCGGCGTCGCCGGTGGACAGGTCGAT
CACTCCCCTGCTCCAGGAGGCCGTGAATGCCAACATCTTGTATCAGACCAATGGATATGGACCC
TCAGCATATTACTATCCTACTGGTACAAACACCTAGTACTTTGCTGGATAATCAGGTAGTCTAA
TTAAGTGCTGATTTTAATGTTTGTGCGTTCGTGTATATAGGTTATGACGGCTCAGCCAATGAAT
GGGACTCCAGATATGCTGCCCATGATGGAACGGAGATGCCTCCTGTAAGTTAATGCAGTTATTT
ATAGTTAGTTCATCACTTTGCGATAGGTATTTTAAGGTGTAATGTGATATCACGAGTTCACCTG
TGCCTAGAGGAGGCTAAGGACCAAATATGGAGATAGAAACCGTGGGGGACATATGTTGTTAATT
TGGAATTTAATGAATTGCTTGTCTACTCATGCTATGTGTTGGAGATAAATTAACTCGATTCTGT
TACAATGATCCAGCAGAGTGTTTATGGTGACATGTATGGATATGGCTATGCTCCCTATGGCCCA
TATCCTTCTGGTTCTCCTGTCCCAACTGTTGGGCATGATGGCCAGTCATACGGCGCACAGCATT
ACCAGTACCCTGGTCAATATTATCAGCAACCAGCTCCAACCAATGCAAGCCATGGCGTCAATGC
TGTCAATTCTCAGTCTGAGATGCCCTCTGTTGCTGCTCACCAGGCACGTGTTCCGGTTGAATCA
GCAAAAGCTAGTGCCAATGGGACTGCTAATGGGATGGCAAATACTAACAGTAGTTCATTAGCAC
GTAAGCAAACCCATCAAAATGTATCAGTATTAAACAATGGTTCATATGGAGGAGGGACTTTGCA
AGGTGGACCATCTGCTAACAATTATGGTCACAGTGGTCTTCATTCTCCAGTTCAGTGGTATGAT
GGGCCAGTCTACTCTAATGGGCATCAGAGATCAAATACTAATTCCACATCTTATGGTTCTAACT
CGTATTCAGCAAAAAATCAGAGCCAGCGCCCAACTGCAAACCTCATGGTATGTTCTAGGACTGT
CCAATTCTCCATTGCCCCCCTCCTTCCCCCACTCTTCTTCTTTTTCCATAGCTTCTCAAAGCAG
TATGATTGTCTCACAATTATTTTTTTTTCTGCTTATTAAATGCATTTACCTAGTATTAGATTCT
GCGATTACTGCCTTCCCCTTAAGTTGCACATAGCAAAAATGATAGTGATGCATTATGTGGCTCT
CACAAAGTACAAGTATTAGCCTAAAATATCCATTTGTTTCAGGGTATGCATGCACAGATACCTT
CGTCGGGAATGGGTTTGACATCTCCTAGTTATCATACCAGGATGTACCCAGACAACAGATTATA
TGGGCAGTATGGTCAGTATGGGAACGCACTTAAAACTGGGCTTGGTTTCGGATCAAATATGTAC
AACTCCAGAAATAATGGACGGTGGGGAATTGTTGATAGCAAGTACAAGCCTAGAGGTCGTGCAT
CTTTTGGTTTTGGCAGTGAGAACCAAGATGGCTTCACTGAGCTTAACAGAGGACCAAGATCTGG
AGGATTCAAGCACCAAAAACAGTTTGGACCTTCTGTCACTATTGCTGTGAAGGGCCAAGCCCTC
CCCTCAGTCGGGAAACAGGAGAATAGTGCCATTCCAGATAAGGGCCAATTCAACCAGGAAGGTT
TTCCAGTAACATACAAAGATGCAAAGTTCTTTGTTATCAAATCTTACAGTGAGGATGATGTGCA
CAAAAGTATAAAATACAATGTGTGGGCAAGCACTCCTAATGGAAACAAGAAGCTGGATGCTGGA
TACCGTGAAGCGCAGGAGAAATCCAGTGAATGCCCAGTCTTCTTGTTCTTCTCTGTAAGTATTA
TTATTACCACATTATGTGATCCATTTGTCCCTCATATCACTCTTTATTGACATTGGGCATGGAA
TATAGGTAAACACAAGTGGCCAGTTTGTTGGTGTTGCTGAAATGGTTGGTCCTGTTGATTTTGA
GAAGACAGTGGATTATTGGCAACAAGACAAGTGGAATGGGTGTTTTCCAATCAAGTGGCATGTT
GTCAAGGATGTACCCAACAACATCTTGAAGCACATTACATTGGATAACAACGACAATAAGCCTG
TGACAAACAGCCGTGACACACAAGAG
						
					

			
		

Sequences
Splice junction sequence	GTGGCATGTTGTCAAGGATGTACCCAACAACATCTTGAAGCACATTACATTGGATAACAACGAC AATAAGCCTGTGACAAACAGCCGTGACACACAAGAGgaggctactgacatgatgcagaagctgt cgttggagagcaagaaggaaggcgccacccctgacgctaccaagaaggtagcttttgctggcga ttcttgtc
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	GAGGCTACTGACATGATGCAGAAGCTGTCGTTGGAGAGCAAGAAGGAAGGCGCCACCCCTGACG CTACCAAGAAGGTAGCTTTTGCTGGCGATTCTTGTCTGTGATGTGTTGCTTGTGCCATCCTTTT TGTTTGTTTGGAGGAGAGGTAGCTAAAAATTATGGTCCTTTTTGTGAATTGCAGCCTGCCGGGA TGCCCTATGGATCTGCAAGCGCCGGCGATGCGCAGAATGCGGCGTCGCCGGTGGACAGGTCGAT CACTCCCCTGCTCCAGGAGGCCGTGAATGCCAACATCTTGTATCAGACCAATGGATATGGACCC TCAGCATATTACTATCCTACTGGTACAAACACCTAGTACTTTGCTGGATAATCAGGTAGTCTAA TTAAGTGCTGATTTTAATGTTTGTGCGTTCGTGTATATAGGTTATGACGGCTCAGCCAATGAAT GGGACTCCAGATATGCTGCCCATGATGGAACGGAGATGCCTCCTGTAAGTTAATGCAGTTATTT ATAGTTAGTTCATCACTTTGCGATAGGTATTTTAAGGTGTAATGTGATATCACGAGTTCACCTG TGCCTAGAGGAGGCTAAGGACCAAATATGGAGATAGAAACCGTGGGGGACATATGTTGTTAATT TGGAATTTAATGAATTGCTTGTCTACTCATGCTATGTGTTGGAGATAAATTAACTCGATTCTGT TACAATGATCCAGCAGAGTGTTTATGGTGACATGTATGGATATGGCTATGCTCCCTATGGCCCA TATCCTTCTGGTTCTCCTGTCCCAACTGTTGGGCATGATGGCCAGTCATACGGCGCACAGCATT ACCAGTACCCTGGTCAATATTATCAGCAACCAGCTCCAACCAATGCAAGCCATGGCGTCAATGC TGTCAATTCTCAGTCTGAGATGCCCTCTGTTGCTGCTCACCAGGCACGTGTTCCGGTTGAATCA GCAAAAGCTAGTGCCAATGGGACTGCTAATGGGATGGCAAATACTAACAGTAGTTCATTAGCAC GTAAGCAAACCCATCAAAATGTATCAGTATTAAACAATGGTTCATATGGAGGAGGGACTTTGCA AGGTGGACCATCTGCTAACAATTATGGTCACAGTGGTCTTCATTCTCCAGTTCAGTGGTATGAT GGGCCAGTCTACTCTAATGGGCATCAGAGATCAAATACTAATTCCACATCTTATGGTTCTAACT CGTATTCAGCAAAAAATCAGAGCCAGCGCCCAACTGCAAACCTCATGGTATGTTCTAGGACTGT CCAATTCTCCATTGCCCCCCTCCTTCCCCCACTCTTCTTCTTTTTCCATAGCTTCTCAAAGCAG TATGATTGTCTCACAATTATTTTTTTTTCTGCTTATTAAATGCATTTACCTAGTATTAGATTCT GCGATTACTGCCTTCCCCTTAAGTTGCACATAGCAAAAATGATAGTGATGCATTATGTGGCTCT CACAAAGTACAAGTATTAGCCTAAAATATCCATTTGTTTCAGGGTATGCATGCACAGATACCTT CGTCGGGAATGGGTTTGACATCTCCTAGTTATCATACCAGGATGTACCCAGACAACAGATTATA TGGGCAGTATGGTCAGTATGGGAACGCACTTAAAACTGGGCTTGGTTTCGGATCAAATATGTAC AACTCCAGAAATAATGGACGGTGGGGAATTGTTGATAGCAAGTACAAGCCTAGAGGTCGTGCAT CTTTTGGTTTTGGCAGTGAGAACCAAGATGGCTTCACTGAGCTTAACAGAGGACCAAGATCTGG AGGATTCAAGCACCAAAAACAGTTTGGACCTTCTGTCACTATTGCTGTGAAGGGCCAAGCCCTC CCCTCAGTCGGGAAACAGGAGAATAGTGCCATTCCAGATAAGGGCCAATTCAACCAGGAAGGTT TTCCAGTAACATACAAAGATGCAAAGTTCTTTGTTATCAAATCTTACAGTGAGGATGATGTGCA CAAAAGTATAAAATACAATGTGTGGGCAAGCACTCCTAATGGAAACAAGAAGCTGGATGCTGGA TACCGTGAAGCGCAGGAGAAATCCAGTGAATGCCCAGTCTTCTTGTTCTTCTCTGTAAGTATTA TTATTACCACATTATGTGATCCATTTGTCCCTCATATCACTCTTTATTGACATTGGGCATGGAA TATAGGTAAACACAAGTGGCCAGTTTGTTGGTGTTGCTGAAATGGTTGGTCCTGTTGATTTTGA GAAGACAGTGGATTATTGGCAACAAGACAAGTGGAATGGGTGTTTTCCAATCAAGTGGCATGTT GTCAAGGATGTACCCAACAACATCTTGAAGCACATTACATTGGATAACAACGACAATAAGCCTG TGACAAACAGCCGTGACACACAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_021874 osa_circ_021873 						
					
						PMCS

Conservation Information
Conserved circRNAs	osa_circ_021874 osa_circ_021873
PMCS

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							osa-miR5532 						
					
						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	osa-miR5532
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhou et al., 2021

circRNA

Detail information of BGIOSGA013554_circ_g.1

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