Plant Circular RNA Database

Detail information of Os03g0831500_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0831500_circ_g.3
					
						ID in PlantcircBase
						osa_circ_022568
					
						Alias
						Os_ciR8986
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 34925107-34926155  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0831500						
					
						Parent gene annotation
						
							Similar to Phosphoribosylformylglycinamidine cyclo-ligase, chlor
oplast/mitochondrial precursor (EC 6.3.3.1) (AIRS) (Phosphoribos
yl-aminoimidazole synthetase) (AIR synthase) (VUpur5). (Os03t083
1500-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0831500_circ_g.2 						
					
						Support reads
						2/1
					
						Tissues
						root/shoot, 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
						Os03t0831500-01:4

General Information
CircRNA Name	Os03g0831500_circ_g.3
ID in PlantcircBase	osa_circ_022568
Alias	Os_ciR8986
Organism	Oryza sativa
Position	chr3: 34925107-34926155 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0831500
Parent gene annotation	Similar to Phosphoribosylformylglycinamidine cyclo-ligase, chlor oplast/mitochondrial precursor (EC 6.3.3.1) (AIRS) (Phosphoribos yl-aminoimidazole synthetase) (AIR synthase) (VUpur5). (Os03t083 1500-01)
Parent gene strand	-
Alternative splicing	Os03g0831500_circ_g.2
Support reads	2/1
Tissues	root/shoot, 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	Os03t0831500-01:4

			
						 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  
						
							CATACCAGATCAATCCCAATTGTGTCATGGATACCAGTTTCAAACGCAAGCTTGAGCTTCGTCC
CGACTCCATCGGTTCCAGCAACAAGAAATTGGTCACcttctagcaagggagaacccgttagaat
gaaccccactagaaggaagaccaatgatgatatctccctccatgatatttttaccatcgatgac
cttatcct

									
								

					

						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: 430
Transcript exons: 34925107-34925279,34925695-34925754,34925875-34925976,34
926061-34926155
CTTCTAGCAAGGGAGAACCCGTTAGAATGAACCCCACTAGAAGGAAGACCAATGATGATATCTC
CCTCCATGATATTTTTACCATCGATGACCTTATCCTTCTTAACAGCACCCACAGCAAAGCCACT
TAGATCATATTCACCTTCTTTATAGAAATCAGGCATTTCTGCTGTCTCTCCTCCTAGCAGAGCA
CAATCTGATTGCCGGCATCCATCGACAATCCCCTTGATAACCTTCTCTGCTAGATCAACGTCGA
GCTTGCTCGTAGCATAGTAGTCTAGGAAGAACAGTGGTTTTGCACCCGAAGTCACAATGTCATT
AACACTCATAGCCACCAGATCAATCCCAATTGTGTCATGGATACCAGTTTCAAACGCAAGCTTG
AGCTTCGTCCCGACTCCATCGGTTCCAGCAACAAGAAATTGGTCAC
						
					

						Genomic sequence
						
							CTTCTAGCAAGGGAGAACCCGTTAGAATGAACCCCACTAGAAGGAAGACCAATGATGATATCTC
CCTCCATGATATTTTTACCATCGATGACCTTATCCTTCTTAACAGCACCCACAGCAAAGCCACT
TAGATCATATTCACCTTCTTTATAGAAATCAGGCATTTCTGCTGTCTGCATGACAAATGGATCA
ATGATAAATGCAATTGTTTTTTATTAGTATGTTGCTGCACATAACAGAGTCAAAACATTATGTT
AACTTTGTACTTATGCTCATATATCATAGTTAAGTATTCTCAAAGCATTTACAAACCAAAGTAT
GATGAAAAACAAGATCCACCATGTGAACTAAGCTGAATACCATATCAACATTTACAAAGATTCA
CTTGTTGAAGCTAGTGCTTGCTAGTTAGAAAATGGTCTAATGATCAGTCTGTAAGCATAATTGA
AAATTTATTCGTATGAAGTAAAGTAGTCACAAACCATTGCAAGACAGATGAACAATTATGATAC
ATATATTCTGTATTCATTGGTACAAAGATTGAAGTATTCCACTGCTAAAACATGGGTTCTAGTT
AGGGAACTTCACCTCTCCTCCTAGCAGAGCACAATCTGATTGCCGGCATCCATCGACAATCCCC
TTGATAACCTATGTAGTTGAGAAAATAAAAGTTTTGAACAGAATAATTATGACTTTATAAGCAG
ATGTAGATAAGAGAGGATTAGCCGGCATAACTGTTTTCAGCAAACAAAATAGCGTCAACAATAC
CTTCTCTGCTAGATCAACGTCGAGCTTGCTCGTAGCATAGTAGTCTAGGAAGAACAGTGGTTTT
GCACCCGAAGTCACAATGTCATTAACACTCATAGCCACCTAACATGAGAATTAAAAATCATTTG
AGTCAATCAAACTCAAAGGGATGAAATAAAATACTCATCTAGCAAAGTGAACACATACCAGATC
AATCCCAATTGTGTCATGGATACCAGTTTCAAACGCAAGCTTGAGCTTCGTCCCGACTCCATCG
GTTCCAGCAACAAGAAATTGGTCAC
						
					

			
		

Sequences
Splice junction sequence	CATACCAGATCAATCCCAATTGTGTCATGGATACCAGTTTCAAACGCAAGCTTGAGCTTCGTCC CGACTCCATCGGTTCCAGCAACAAGAAATTGGTCACcttctagcaagggagaacccgttagaat gaaccccactagaaggaagaccaatgatgatatctccctccatgatatttttaccatcgatgac cttatcct
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: 430 Transcript exons: 34925107-34925279,34925695-34925754,34925875-34925976,34 926061-34926155 CTTCTAGCAAGGGAGAACCCGTTAGAATGAACCCCACTAGAAGGAAGACCAATGATGATATCTC CCTCCATGATATTTTTACCATCGATGACCTTATCCTTCTTAACAGCACCCACAGCAAAGCCACT TAGATCATATTCACCTTCTTTATAGAAATCAGGCATTTCTGCTGTCTCTCCTCCTAGCAGAGCA CAATCTGATTGCCGGCATCCATCGACAATCCCCTTGATAACCTTCTCTGCTAGATCAACGTCGA GCTTGCTCGTAGCATAGTAGTCTAGGAAGAACAGTGGTTTTGCACCCGAAGTCACAATGTCATT AACACTCATAGCCACCAGATCAATCCCAATTGTGTCATGGATACCAGTTTCAAACGCAAGCTTG AGCTTCGTCCCGACTCCATCGGTTCCAGCAACAAGAAATTGGTCAC
Genomic sequence	CTTCTAGCAAGGGAGAACCCGTTAGAATGAACCCCACTAGAAGGAAGACCAATGATGATATCTC CCTCCATGATATTTTTACCATCGATGACCTTATCCTTCTTAACAGCACCCACAGCAAAGCCACT TAGATCATATTCACCTTCTTTATAGAAATCAGGCATTTCTGCTGTCTGCATGACAAATGGATCA ATGATAAATGCAATTGTTTTTTATTAGTATGTTGCTGCACATAACAGAGTCAAAACATTATGTT AACTTTGTACTTATGCTCATATATCATAGTTAAGTATTCTCAAAGCATTTACAAACCAAAGTAT GATGAAAAACAAGATCCACCATGTGAACTAAGCTGAATACCATATCAACATTTACAAAGATTCA CTTGTTGAAGCTAGTGCTTGCTAGTTAGAAAATGGTCTAATGATCAGTCTGTAAGCATAATTGA AAATTTATTCGTATGAAGTAAAGTAGTCACAAACCATTGCAAGACAGATGAACAATTATGATAC ATATATTCTGTATTCATTGGTACAAAGATTGAAGTATTCCACTGCTAAAACATGGGTTCTAGTT AGGGAACTTCACCTCTCCTCCTAGCAGAGCACAATCTGATTGCCGGCATCCATCGACAATCCCC TTGATAACCTATGTAGTTGAGAAAATAAAAGTTTTGAACAGAATAATTATGACTTTATAAGCAG ATGTAGATAAGAGAGGATTAGCCGGCATAACTGTTTTCAGCAAACAAAATAGCGTCAACAATAC CTTCTCTGCTAGATCAACGTCGAGCTTGCTCGTAGCATAGTAGTCTAGGAAGAACAGTGGTTTT GCACCCGAAGTCACAATGTCATTAACACTCATAGCCACCTAACATGAGAATTAAAAATCATTTG AGTCAATCAAACTCAAAGGGATGAAATAAAATACTCATCTAGCAAAGTGAACACATACCAGATC AATCCCAATTGTGTCATGGATACCAGTTTCAAACGCAAGCTTGAGCTTCGTCCCGACTCCATCG GTTCCAGCAACAAGAAATTGGTCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_013844 						
					
						PMCS
						0.357240105

Conservation Information
Conserved circRNAs	osi_circ_013844
PMCS	0.357240105

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							34925955-34925234(+)
34926083-34925110(+)
34925193-34926154(-)
34925972-34926154(-)
						
						Potential amino acid sequence
						
							MSLTLIATRSIPIVSWIPVSNASLSFVPTPSVPATRNWSPSSKGEPVRMNPTRRKTNDDISLHD
IFTIDDLILLNSTHSKAT*(+)
MDTSFKRKLELRPDSIGSSNKKLVTF*(+)
MVKISWREISSLVFLLVGFILTGSPLLEGDQFLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMS
VNDIVTSGAKPLFFLDYYATSKLDVDLAEKVIKGIVDGCRQSDCALLGGETAEMPDFYKEGEYD
LSGFAVGAVKKDKVIDGKNIMEGDIIIGLPSSGVHSNGFSLARR*(-)
MSVNDIVTSGAKPLFFLDYYATSKLDVDLAEKVIKGIVDGCRQSDCALLGGETAEMPDFYKEGE
YDLSGFAVGAVKKDKVIDGKNIMEGDIIIGLPSSGVHSNGFSLARR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	34925955-34925234(+) 34926083-34925110(+) 34925193-34926154(-) 34925972-34926154(-)
Potential amino acid sequence	MSLTLIATRSIPIVSWIPVSNASLSFVPTPSVPATRNWSPSSKGEPVRMNPTRRKTNDDISLHD IFTIDDLILLNSTHSKAT(+) MDTSFKRKLELRPDSIGSSNKKLVTF(+) MVKISWREISSLVFLLVGFILTGSPLLEGDQFLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMS VNDIVTSGAKPLFFLDYYATSKLDVDLAEKVIKGIVDGCRQSDCALLGGETAEMPDFYKEGEYD LSGFAVGAVKKDKVIDGKNIMEGDIIIGLPSSGVHSNGFSLARR(-) MSVNDIVTSGAKPLFFLDYYATSKLDVDLAEKVIKGIVDGCRQSDCALLGGETAEMPDFYKEGE YDLSGFAVGAVKKDKVIDGKNIMEGDIIIGLPSSGVHSNGFSLARR(-)
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 Os03g0831500_circ_g.3

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