Plant Circular RNA Database

Detail information of Os03g0704700_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os03g0704700_circ_g.5
					
						ID in PlantcircBase
						osa_circ_021164
					
						Alias
						Os_ciR8759
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 28333868-28335900  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0704700						
					
						Parent gene annotation
						
							Similar to Oxysterol-binding protein, expressed. (Os03t0704700-0
1)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0704700_circ_g.1 Os03g0704700_circ_g.2 Os03g0704700_circ_g.3 Os03g0704700_circ_g.4 Os03g0704700_circ_g.6 						
					
						Support reads
						2/3
					
						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  
						
							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
						Os03t0704700-01:4

General Information
CircRNA Name	Os03g0704700_circ_g.5
ID in PlantcircBase	osa_circ_021164
Alias	Os_ciR8759
Organism	Oryza sativa
Position	chr3: 28333868-28335900 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0704700
Parent gene annotation	Similar to Oxysterol-binding protein, expressed. (Os03t0704700-0 1)
Parent gene strand	+
Alternative splicing	Os03g0704700_circ_g.1 Os03g0704700_circ_g.2 Os03g0704700_circ_g.3 Os03g0704700_circ_g.4 Os03g0704700_circ_g.6
Support reads	2/3
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	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	Os03t0704700-01:4

			
						 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  
						
							TTGTGATCATTATGGTACTATGCGAATACAAGGCAATAATGAATATTCGTGCAAGTTGAAGTTT
AAGGAGCAGTCAATTATTGATCGTAACCCACATCAGaaggaagtgctagtgaatctgatgatta
taatgaaccacaagatccagctgaagacgaaactgacgatgatgagaatatatattttgataca
cgagattt

									
								

					

						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: 905
Transcript exons: 28333868-28334307,28334878-28335033,28335515-28335682,28
335760-28335900
AAGGAAGTGCTAGTGAATCTGATGATTATAATGAACCACAAGATCCAGCTGAAGACGAAACTGA
CGATGATGAGAATATATATTTTGATACACGAGATTTCCTGTCATCAAGTTCTTTTAAAAGCAGT
GGATCTGATTTCCAAAGATCAGAAGCTGGTTCGGATGATGAGGATGATTATCCAATGGATGGTA
TTGATACCTCTATGAAATCCGTTGGAATTAGTTACCCATATGTCAGAAGGCGTAAGAAGCTGCC
AGATCCAGTCGAGAAAGAGAAGGGTGTAAGCTTGTGGTCAATGATCAAGGACAATATAGGAAAG
GATCTAACCAAAGTTTGTCTGCCTGTTTATTTCAATGAACCACTCTCATCTTTACAGAAATGCT
TTGAAGATCTTGAGTATTCCTACCTTATTGATCGCGCTTATGAATGGGGGAAAAGGGGCAATAG
TCTGATGAGGATCCTTAGTGTAGCAGCATTTGCTGTTTCTGGCTATGCATCTACGGATGGAAGA
AGCTGTAAGCCCTTCAATCCACTTCTTGGGGAGACCTATGAAGCAGATTATCCAGACAAAGGCC
TCCGTTTTTTCTCAGAAAAGGTTAGTCACCATCCTATGGTGGTTGCATGCCATTGTGAGGGAAC
TGGGTGGCGGTTTTGGGCAGATAGCAACCTAAAAAGCAAGTTCTGGGGTCGCTCCATTCAACTT
GATCCTGTTGGTGTGCTAACCTTGGAGTTCGATGATGGTGAAGTTTTCCAGTGGAGCAAGGTGA
CAACTTCCATTTACAATCTCATATTGGGTAAACTGTATTGTGATCATTATGGTACTATGCGAAT
ACAAGGCAATAATGAATATTCGTGCAAGTTGAAGTTTAAGGAGCAGTCAATTATTGATCGTAAC
CCACATCAG
						
					

						Genomic sequence
						
							AAGGAAGTGCTAGTGAATCTGATGATTATAATGAACCACAAGATCCAGCTGAAGACGAAACTGA
CGATGATGAGAATATATATTTTGATACACGAGATTTCCTGTCATCAAGTTCTTTTAAAAGCAGT
GGATCTGATTTCCAAAGATCAGAAGCTGGTTCGGATGATGAGGATGATTATCCAATGGATGGTA
TTGATACCTCTATGAAATCCGTTGGAATTAGTTACCCATATGTCAGAAGGCGTAAGAAGCTGCC
AGATCCAGTCGAGAAAGAGAAGGGTGTAAGCTTGTGGTCAATGATCAAGGACAATATAGGAAAG
GATCTAACCAAAGTTTGTCTGCCTGTTTATTTCAATGAACCACTCTCATCTTTACAGAAATGCT
TTGAAGATCTTGAGTATTCCTACCTTATTGATCGCGCTTATGAATGGGGGAAAAGGGTATTTCT
TCTTCCTTTCACTATTTAATATGTTCATGGGCATGCATGTGCATTTTCAAATAACATTCCAAAT
AAAAGCAAATTAAGAGTTTGAACCGTGTATCCTCCAACTTGCATCTATATGTTTATTTGATGGA
TATACTTCCTTCTACTTACGTGTAGCATATATCCAATTTTCTGAGATCAATTTGCTTGTGGTCT
ATACGTATAACACAATTGGGATCTCTATTATTTAGCAAACATATTGACTGCTTAGTTCAAATGT
GCTTGCCTTTCAGAATGCCTGTCCTACAGTTGCACCACCAGATGCCATCCCCTTTCTTGTTCTA
TGTTGTACACATTTATTTAATAATTTCTATTTTGTTTCATTAATTCAGTCTAGTGAATTCTCCA
TTAAAAGTTGCAGCATTGCTATACATTAGTATGGCTGAGACTGTCTCCAACTGTTAGATTTCCC
TGCAAAGGCAACATATTTATTTTCTCTGCATCCAATTTGTGATAAAATGTTTATCTGCACATTT
CTGTCATGATTAGTTTGCTGCACCTTACATTTCCTATGCTAAAAACTCAGGGCAATAGTCTGAT
GAGGATCCTTAGTGTAGCAGCATTTGCTGTTTCTGGCTATGCATCTACGGATGGAAGAAGCTGT
AAGCCCTTCAATCCACTTCTTGGGGAGACCTATGAAGCAGATTATCCAGACAAAGGCCTCCGTT
TTTTCTCAGAAAAGGTTTTGTCTGTGGACCTTTGAAAGCTACTTATATTTTGTAATATGAAGAA
GATTTTCTTACTATCGGTTCAGCATAGCCAACCTTTATAACTTAACACAGACTTTTTAAAGTAG
TACTACTGCTTTTGTACAGGCATGATAATCCAGTTAGTAAAGGTTTGGCAGAAAAAATGTATTA
CAAAGTTGTCACTTGACTGTTCCCTGACACCAAAGCCATGTTACATTATGTTGGTACCTGTGTC
TTCTTGGTAAATGTTACATTATGTTTTAAATTTTTAATTCGTAGTTCTATTTCTTCCGATTGTC
CGTATTTCTCTTTATGTTCACAGATCACTGGAAACTCTGTTCTCTGACTATTTGATCATCAGAT
GGTCTATCCTGTATATGCTTGAATATTTTTCCCCTATAGATTATTGTCTTCTGCTAGTTCTATT
TGGATTTGCATTTTGGTTGATTAAGACTCTTCAATATGACTTGCCAGGTTAGTCACCATCCTAT
GGTGGTTGCATGCCATTGTGAGGGAACTGGGTGGCGGTTTTGGGCAGATAGCAACCTAAAAAGC
AAGTTCTGGGGTCGCTCCATTCAACTTGATCCTGTTGGTGTGCTAACCTTGGAGTTCGATGATG
GTGAAGTTTTCCAGTGGAGCAAGGTACCATTACATATTTAGCAAGAAGTGGTTAGATCTTTGGT
CTGTGGAAATAATTCACTTGAAATATTCTATCTCAGGTGACAACTTCCATTTACAATCTCATAT
TGGGTAAACTGTATTGTGATCATTATGGTACTATGCGAATACAAGGCAATAATGAATATTCGTG
CAAGTTGAAGTTTAAGGAGCAGTCAATTATTGATCGTAACCCACATCAG
						
					

			
		

Sequences
Splice junction sequence	TTGTGATCATTATGGTACTATGCGAATACAAGGCAATAATGAATATTCGTGCAAGTTGAAGTTT AAGGAGCAGTCAATTATTGATCGTAACCCACATCAGaaggaagtgctagtgaatctgatgatta taatgaaccacaagatccagctgaagacgaaactgacgatgatgagaatatatattttgataca cgagattt
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: 905 Transcript exons: 28333868-28334307,28334878-28335033,28335515-28335682,28 335760-28335900 AAGGAAGTGCTAGTGAATCTGATGATTATAATGAACCACAAGATCCAGCTGAAGACGAAACTGA CGATGATGAGAATATATATTTTGATACACGAGATTTCCTGTCATCAAGTTCTTTTAAAAGCAGT GGATCTGATTTCCAAAGATCAGAAGCTGGTTCGGATGATGAGGATGATTATCCAATGGATGGTA TTGATACCTCTATGAAATCCGTTGGAATTAGTTACCCATATGTCAGAAGGCGTAAGAAGCTGCC AGATCCAGTCGAGAAAGAGAAGGGTGTAAGCTTGTGGTCAATGATCAAGGACAATATAGGAAAG GATCTAACCAAAGTTTGTCTGCCTGTTTATTTCAATGAACCACTCTCATCTTTACAGAAATGCT TTGAAGATCTTGAGTATTCCTACCTTATTGATCGCGCTTATGAATGGGGGAAAAGGGGCAATAG TCTGATGAGGATCCTTAGTGTAGCAGCATTTGCTGTTTCTGGCTATGCATCTACGGATGGAAGA AGCTGTAAGCCCTTCAATCCACTTCTTGGGGAGACCTATGAAGCAGATTATCCAGACAAAGGCC TCCGTTTTTTCTCAGAAAAGGTTAGTCACCATCCTATGGTGGTTGCATGCCATTGTGAGGGAAC TGGGTGGCGGTTTTGGGCAGATAGCAACCTAAAAAGCAAGTTCTGGGGTCGCTCCATTCAACTT GATCCTGTTGGTGTGCTAACCTTGGAGTTCGATGATGGTGAAGTTTTCCAGTGGAGCAAGGTGA CAACTTCCATTTACAATCTCATATTGGGTAAACTGTATTGTGATCATTATGGTACTATGCGAAT ACAAGGCAATAATGAATATTCGTGCAAGTTGAAGTTTAAGGAGCAGTCAATTATTGATCGTAAC CCACATCAG
Genomic sequence	AAGGAAGTGCTAGTGAATCTGATGATTATAATGAACCACAAGATCCAGCTGAAGACGAAACTGA CGATGATGAGAATATATATTTTGATACACGAGATTTCCTGTCATCAAGTTCTTTTAAAAGCAGT GGATCTGATTTCCAAAGATCAGAAGCTGGTTCGGATGATGAGGATGATTATCCAATGGATGGTA TTGATACCTCTATGAAATCCGTTGGAATTAGTTACCCATATGTCAGAAGGCGTAAGAAGCTGCC AGATCCAGTCGAGAAAGAGAAGGGTGTAAGCTTGTGGTCAATGATCAAGGACAATATAGGAAAG GATCTAACCAAAGTTTGTCTGCCTGTTTATTTCAATGAACCACTCTCATCTTTACAGAAATGCT TTGAAGATCTTGAGTATTCCTACCTTATTGATCGCGCTTATGAATGGGGGAAAAGGGTATTTCT TCTTCCTTTCACTATTTAATATGTTCATGGGCATGCATGTGCATTTTCAAATAACATTCCAAAT AAAAGCAAATTAAGAGTTTGAACCGTGTATCCTCCAACTTGCATCTATATGTTTATTTGATGGA TATACTTCCTTCTACTTACGTGTAGCATATATCCAATTTTCTGAGATCAATTTGCTTGTGGTCT ATACGTATAACACAATTGGGATCTCTATTATTTAGCAAACATATTGACTGCTTAGTTCAAATGT GCTTGCCTTTCAGAATGCCTGTCCTACAGTTGCACCACCAGATGCCATCCCCTTTCTTGTTCTA TGTTGTACACATTTATTTAATAATTTCTATTTTGTTTCATTAATTCAGTCTAGTGAATTCTCCA TTAAAAGTTGCAGCATTGCTATACATTAGTATGGCTGAGACTGTCTCCAACTGTTAGATTTCCC TGCAAAGGCAACATATTTATTTTCTCTGCATCCAATTTGTGATAAAATGTTTATCTGCACATTT CTGTCATGATTAGTTTGCTGCACCTTACATTTCCTATGCTAAAAACTCAGGGCAATAGTCTGAT GAGGATCCTTAGTGTAGCAGCATTTGCTGTTTCTGGCTATGCATCTACGGATGGAAGAAGCTGT AAGCCCTTCAATCCACTTCTTGGGGAGACCTATGAAGCAGATTATCCAGACAAAGGCCTCCGTT TTTTCTCAGAAAAGGTTTTGTCTGTGGACCTTTGAAAGCTACTTATATTTTGTAATATGAAGAA GATTTTCTTACTATCGGTTCAGCATAGCCAACCTTTATAACTTAACACAGACTTTTTAAAGTAG TACTACTGCTTTTGTACAGGCATGATAATCCAGTTAGTAAAGGTTTGGCAGAAAAAATGTATTA CAAAGTTGTCACTTGACTGTTCCCTGACACCAAAGCCATGTTACATTATGTTGGTACCTGTGTC TTCTTGGTAAATGTTACATTATGTTTTAAATTTTTAATTCGTAGTTCTATTTCTTCCGATTGTC CGTATTTCTCTTTATGTTCACAGATCACTGGAAACTCTGTTCTCTGACTATTTGATCATCAGAT GGTCTATCCTGTATATGCTTGAATATTTTTCCCCTATAGATTATTGTCTTCTGCTAGTTCTATT TGGATTTGCATTTTGGTTGATTAAGACTCTTCAATATGACTTGCCAGGTTAGTCACCATCCTAT GGTGGTTGCATGCCATTGTGAGGGAACTGGGTGGCGGTTTTGGGCAGATAGCAACCTAAAAAGC AAGTTCTGGGGTCGCTCCATTCAACTTGATCCTGTTGGTGTGCTAACCTTGGAGTTCGATGATG GTGAAGTTTTCCAGTGGAGCAAGGTACCATTACATATTTAGCAAGAAGTGGTTAGATCTTTGGT CTGTGGAAATAATTCACTTGAAATATTCTATCTCAGGTGACAACTTCCATTTACAATCTCATAT TGGGTAAACTGTATTGTGATCATTATGGTACTATGCGAATACAAGGCAATAATGAATATTCGTG CAAGTTGAAGTTTAAGGAGCAGTCAATTATTGATCGTAACCCACATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.271747598

Conservation Information
Conserved circRNAs	NA
PMCS	0.271747598

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28334051-28334071(+)
						
						Potential amino acid sequence
						
							MDGIDTSMKSVGISYPYVRRRKKLPDPVEKEKGVSLWSMIKDNIGKDLTKVCLPVYFNEPLSSL
QKCFEDLEYSYLIDRAYEWGKRGNSLMRILSVAAFAVSGYASTDGRSCKPFNPLLGETYEADYP
DKGLRFFSEKVSHHPMVVACHCEGTGWRFWADSNLKSKFWGRSIQLDPVGVLTLEFDDGEVFQW
SKVTTSIYNLILGKLYCDHYGTMRIQGNNEYSCKLKFKEQSIIDRNPHQKEVLVNLMIIMNHKI
QLKTKLTMMRIYILIHEISCHQVLLKAVDLISKDQKLVRMMRMIIQWMVLIPL*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28334051-28334071(+)
Potential amino acid sequence	MDGIDTSMKSVGISYPYVRRRKKLPDPVEKEKGVSLWSMIKDNIGKDLTKVCLPVYFNEPLSSL QKCFEDLEYSYLIDRAYEWGKRGNSLMRILSVAAFAVSGYASTDGRSCKPFNPLLGETYEADYP DKGLRFFSEKVSHHPMVVACHCEGTGWRFWADSNLKSKFWGRSIQLDPVGVLTLEFDDGEVFQW SKVTTSIYNLILGKLYCDHYGTMRIQGNNEYSCKLKFKEQSIIDRNPHQKEVLVNLMIIMNHKI QLKTKLTMMRIYILIHEISCHQVLLKAVDLISKDQKLVRMMRMIIQWMVLIPL*(+)
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 Os03g0704700_circ_g.5

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