Plant Circular RNA Database

Detail information of Os09g0375000_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0375000_circ_g.2
					
						ID in PlantcircBase
						osa_circ_039019
					
						Alias
						Os_ciR3218
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 12541189-12542999  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os09g0375000						
					
						Parent gene annotation
						
							Enolase (EC 4.2.1.11) (Fragment). (Os09t0375000-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0375000_circ_g.1 Os09g0375000_circ_g.3 						
					
						Support reads
						4
					
						Tissues
						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
						Os09t0375000-01:5

General Information
CircRNA Name	Os09g0375000_circ_g.2
ID in PlantcircBase	osa_circ_039019
Alias	Os_ciR3218
Organism	Oryza sativa
Position	chr9: 12541189-12542999 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os09g0375000
Parent gene annotation	Enolase (EC 4.2.1.11) (Fragment). (Os09t0375000-01)
Parent gene strand	-
Alternative splicing	Os09g0375000_circ_g.1 Os09g0375000_circ_g.3
Support reads	4
Tissues	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	Os09t0375000-01:5

			
						 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  
						
							TACGCTTAAAGAGACTCCAAGAATAGCATTGGCACCCAATTTTGACTTGTTCGGAGTTCCATCA
ATGTCTAGCATGATTGCATCAACATCACTCTGGTTCctgattgtactttgccagtctctcgcta
cggcatggagcaccagttttgatctgcaacacatgaatgagtgtgttaggatcatctgatgagc
gttcgtag

									
								

					

						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: 979
Transcript exons: 12541189-12541239,12541334-12541480,12541788-12542105,12
542201-12542355,12542692-12542999
CTGATTGTACTTTGCCAGTCTCTCGCTACGGCATGGAGCACCAGTTTTGATCTGACCACTTGCT
AAACCAACAGCCAGATCTGCGATGAAATTATCTTCCGTTTCCCCACTCCTGTGGCTGACCATCA
CGCCCCAACCAGCAGCTTTTGAATCAAGAGCAGCTTGAATTGATTCAGTGACAGTGCCAATTTG
ATTAACCTTCAGCAAAAGAGCATTGCAAGCCTTCTTGCCAATAGCCTCTGCAATACGTTTTGGG
TTCGTGACGAGTAAATCATCCCCCACAATTTGGATATTAACTGAAGACTGCAATGATGCCCATG
AGCTCCAGTCATCTTGATCGAAAGGGTCCTCAATTGATACAATGGGGAAATCCTTGACAAATTC
TTTGTACAGATCACAGAGACGCTGGGCTGAAAGAACATGAGCTCCATCATTAGGCTGATTCTTA
AAGTTTAAGTCATAGCTTCCATCCTTTGTAAGAAACTCTGATGCTGCAACATCCATTCCAATTT
TAATCTTTCCAGAGTAGCCTGCCTTCTCAATGGCATCCATAAGCAAGACAAGGCCTTCTCTGTT
GTCTTGAACATTAGGAGCAAAGCCACCTTCATCTCCAACATTGCATGCATCTTGACCATATTTC
GCCTTAATGATGCCCTTTAGGGCATGGTAAACTTCACTACCCATGCGAAGAGCCTCAGAAAATG
AAGATGCTCCCACAGGTAAAAGCATGAACTCCTGCATGGCCAGATTGTTGCCCGCATGGCTACC
TCCATTTATTACATTGAAAGCTGGGACGGGCATGACAAGCTCCTTTGTTCCAGCCAACTCCTGA
ATATGTTTATATAAAGGAACTTCCTTTGCACCAGCACCAGCCCTGCATACGCTTAAAGAGACTC
CAAGAATAGCATTGGCACCCAATTTTGACTTGTTCGGAGTTCCATCAATGTCTAGCATGATTGC
ATCAACATCACTCTGGTTC
						
					

						Genomic sequence
						
							CTGATTGTACTTTGCCAGTCTCTCGCTACGGCATGGAGCACCAGTTTTGATCTGCAACACATGA
ATGAGTGTGTTAGGATCATCTGATGAGCGTTCGTAGAATTTTGGTACCACAGTTAAGATTTCTG
ATGGTGATAGTCCCTACCTGACCACTTGCTAAACCAACAGCCAGATCTGCGATGAAATTATCTT
CCGTTTCCCCACTCCTGTGGCTGACCATCACGCCCCAACCAGCAGCTTTTGAATCAAGAGCAGC
TTGAATTGATTCAGTGACAGTGCCAATTTGATTAACCTGAAAAACAGTTGAATATATTTTTGTC
ATTTTGCAGTCCATGTTTATATTGGACTTAGAACTGATCATTATCAGAAGAACAATAGGAATTT
GATGGTACAGAGTGCTTTACACAGTCAAATTCTGTTGTTGTTTATTGCAACAAAGAGATTAATA
GTAATTAGCTATCTGGTAACAAGCCAACATCACTTCAATACTGCCATGTTCTACATTAAATTGT
ATTCACCAAATACATTGTAAGAATGAATGTATGTTTGCACATTATGCGAGTAAAATAGCATGAC
GGATATGCATAGTAAATACCCACCTTCAGCAAAAGAGCATTGCAAGCCTTCTTGCCAATAGCCT
CTGCAATACGTTTTGGGTTCGTGACGAGTAAATCATCCCCCACAATTTGGATATTAACTGAAGA
CTGCAATGATGCCCATGAGCTCCAGTCATCTTGATCGAAAGGGTCCTCAATTGATACAATGGGG
AAATCCTTGACAAATTCTTTGTACAGATCACAGAGACGCTGGGCTGAAAGAACATGAGCTCCAT
CATTAGGCTGATTCTTAAAGTTTAAGTCATAGCTTCCATCCTTTGTAAGAAACTCTGATGCTGC
AACATCCATTCCAATTTTAATCTGCAGTAGGATGGGTTCACAGTATTATAAGTTACAAAAAAAA
AAAAGGTGGTCCACATTGAAAAGGTGGGAAATAAAACAAGATGACTGCAGACCTTTCCAGAGTA
GCCTGCCTTCTCAATGGCATCCATAAGCAAGACAAGGCCTTCTCTGTTGTCTTGAACATTAGGA
GCAAAGCCACCTTCATCTCCAACATTGCATGCATCTTGACCATATTTCGCCTTAATGATGCCCT
TTAGGGCATGGTAAACTGTAACATGGACAGGTAAATCTCAGAAGACAAACATTTGAGAATTAAA
AGACGAGAGCAAACTACAAGTCAAATGCGCAGATGTAACTGTTGCCAATGTGTCATTTACTGAA
TAATCATGACATTGACTCAAAACAAATATCAAATACAGTACCAAATTAATCATGCATGCGCAGA
TGTAACTGTTGCCAATGTATCATTTACTGAATAATCATGACATTGATTCATACAAATATCAAAT
ACAGTACCAAATTAATCGTGCATAAGGGCATGCATTGGACAATTAGAATTCCAAAAGTATGTGT
ATCACACTATCAATTAAACACATAAAGTTACCTTCACTACCCATGCGAAGAGCCTCAGAAAATG
AAGATGCTCCCACAGGTAAAAGCATGAACTCCTGCATGGCCAGATTGTTGCCCGCATGGCTACC
TCCATTTATTACATTGAAAGCTGGGACGGGCATGACAAGCTCCTTTGTTCCAGCCAACTCCTGA
ATATGTTTATATAAAGGAACTTCCTTTGCACCAGCACCAGCCCTGCATACGCTTAAAGAGACTC
CAAGAATAGCATTGGCACCCAATTTTGACTTGTTCGGAGTTCCATCAATGTCTAGCATGATTGC
ATCAACATCACTCTGGTTC
						
					

			
		

Sequences
Splice junction sequence	TACGCTTAAAGAGACTCCAAGAATAGCATTGGCACCCAATTTTGACTTGTTCGGAGTTCCATCA ATGTCTAGCATGATTGCATCAACATCACTCTGGTTCctgattgtactttgccagtctctcgcta cggcatggagcaccagttttgatctgcaacacatgaatgagtgtgttaggatcatctgatgagc gttcgtag
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: 979 Transcript exons: 12541189-12541239,12541334-12541480,12541788-12542105,12 542201-12542355,12542692-12542999 CTGATTGTACTTTGCCAGTCTCTCGCTACGGCATGGAGCACCAGTTTTGATCTGACCACTTGCT AAACCAACAGCCAGATCTGCGATGAAATTATCTTCCGTTTCCCCACTCCTGTGGCTGACCATCA CGCCCCAACCAGCAGCTTTTGAATCAAGAGCAGCTTGAATTGATTCAGTGACAGTGCCAATTTG ATTAACCTTCAGCAAAAGAGCATTGCAAGCCTTCTTGCCAATAGCCTCTGCAATACGTTTTGGG TTCGTGACGAGTAAATCATCCCCCACAATTTGGATATTAACTGAAGACTGCAATGATGCCCATG AGCTCCAGTCATCTTGATCGAAAGGGTCCTCAATTGATACAATGGGGAAATCCTTGACAAATTC TTTGTACAGATCACAGAGACGCTGGGCTGAAAGAACATGAGCTCCATCATTAGGCTGATTCTTA AAGTTTAAGTCATAGCTTCCATCCTTTGTAAGAAACTCTGATGCTGCAACATCCATTCCAATTT TAATCTTTCCAGAGTAGCCTGCCTTCTCAATGGCATCCATAAGCAAGACAAGGCCTTCTCTGTT GTCTTGAACATTAGGAGCAAAGCCACCTTCATCTCCAACATTGCATGCATCTTGACCATATTTC GCCTTAATGATGCCCTTTAGGGCATGGTAAACTTCACTACCCATGCGAAGAGCCTCAGAAAATG AAGATGCTCCCACAGGTAAAAGCATGAACTCCTGCATGGCCAGATTGTTGCCCGCATGGCTACC TCCATTTATTACATTGAAAGCTGGGACGGGCATGACAAGCTCCTTTGTTCCAGCCAACTCCTGA ATATGTTTATATAAAGGAACTTCCTTTGCACCAGCACCAGCCCTGCATACGCTTAAAGAGACTC CAAGAATAGCATTGGCACCCAATTTTGACTTGTTCGGAGTTCCATCAATGTCTAGCATGATTGC ATCAACATCACTCTGGTTC
Genomic sequence	CTGATTGTACTTTGCCAGTCTCTCGCTACGGCATGGAGCACCAGTTTTGATCTGCAACACATGA ATGAGTGTGTTAGGATCATCTGATGAGCGTTCGTAGAATTTTGGTACCACAGTTAAGATTTCTG ATGGTGATAGTCCCTACCTGACCACTTGCTAAACCAACAGCCAGATCTGCGATGAAATTATCTT CCGTTTCCCCACTCCTGTGGCTGACCATCACGCCCCAACCAGCAGCTTTTGAATCAAGAGCAGC TTGAATTGATTCAGTGACAGTGCCAATTTGATTAACCTGAAAAACAGTTGAATATATTTTTGTC ATTTTGCAGTCCATGTTTATATTGGACTTAGAACTGATCATTATCAGAAGAACAATAGGAATTT GATGGTACAGAGTGCTTTACACAGTCAAATTCTGTTGTTGTTTATTGCAACAAAGAGATTAATA GTAATTAGCTATCTGGTAACAAGCCAACATCACTTCAATACTGCCATGTTCTACATTAAATTGT ATTCACCAAATACATTGTAAGAATGAATGTATGTTTGCACATTATGCGAGTAAAATAGCATGAC GGATATGCATAGTAAATACCCACCTTCAGCAAAAGAGCATTGCAAGCCTTCTTGCCAATAGCCT CTGCAATACGTTTTGGGTTCGTGACGAGTAAATCATCCCCCACAATTTGGATATTAACTGAAGA CTGCAATGATGCCCATGAGCTCCAGTCATCTTGATCGAAAGGGTCCTCAATTGATACAATGGGG AAATCCTTGACAAATTCTTTGTACAGATCACAGAGACGCTGGGCTGAAAGAACATGAGCTCCAT CATTAGGCTGATTCTTAAAGTTTAAGTCATAGCTTCCATCCTTTGTAAGAAACTCTGATGCTGC AACATCCATTCCAATTTTAATCTGCAGTAGGATGGGTTCACAGTATTATAAGTTACAAAAAAAA AAAAGGTGGTCCACATTGAAAAGGTGGGAAATAAAACAAGATGACTGCAGACCTTTCCAGAGTA GCCTGCCTTCTCAATGGCATCCATAAGCAAGACAAGGCCTTCTCTGTTGTCTTGAACATTAGGA GCAAAGCCACCTTCATCTCCAACATTGCATGCATCTTGACCATATTTCGCCTTAATGATGCCCT TTAGGGCATGGTAAACTGTAACATGGACAGGTAAATCTCAGAAGACAAACATTTGAGAATTAAA AGACGAGAGCAAACTACAAGTCAAATGCGCAGATGTAACTGTTGCCAATGTGTCATTTACTGAA TAATCATGACATTGACTCAAAACAAATATCAAATACAGTACCAAATTAATCATGCATGCGCAGA TGTAACTGTTGCCAATGTATCATTTACTGAATAATCATGACATTGATTCATACAAATATCAAAT ACAGTACCAAATTAATCGTGCATAAGGGCATGCATTGGACAATTAGAATTCCAAAAGTATGTGT ATCACACTATCAATTAAACACATAAAGTTACCTTCACTACCCATGCGAAGAGCCTCAGAAAATG AAGATGCTCCCACAGGTAAAAGCATGAACTCCTGCATGGCCAGATTGTTGCCCGCATGGCTACC TCCATTTATTACATTGAAAGCTGGGACGGGCATGACAAGCTCCTTTGTTCCAGCCAACTCCTGA ATATGTTTATATAAAGGAACTTCCTTTGCACCAGCACCAGCCCTGCATACGCTTAAAGAGACTC CAAGAATAGCATTGGCACCCAATTTTGACTTGTTCGGAGTTCCATCAATGTCTAGCATGATTGC ATCAACATCACTCTGGTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_018438 						
					
						PMCS
						0.314695596

Conservation Information
Conserved circRNAs	osi_circ_018438
PMCS	0.314695596

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12542965-12541345(+)
12542976-12542990(-)
						
						Potential amino acid sequence
						
							MSSMIASTSLWFLIVLCQSLATAWSTSFDLTTC*(+)
MLDIDGTPNKSKLGANAILGVSLSVCRAGAGAKEVPLYKHIQELAGTKELVMPVPAFNVINGGS
HAGNNLAMQEFMLLPVGASSFSEALRMGSEVYHALKGIIKAKYGQDACNVGDEGGFAPNVQDNR
EGLVLLMDAIEKAGYSGKIKIGMDVAASEFLTKDGSYDLNFKNQPNDGAHVLSAQRLCDLYKEF
VKDFPIVSIEDPFDQDDWSSWASLQSSVNIQIVGDDLLVTNPKRIAEAIGKKACNALLLKVNQI
GTVTESIQAALDSKAAGWGVMVSHRSGETEDNFIADLAVGLASGQIKTGAPCRSERLAKYNQEP
E*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12542965-12541345(+) 12542976-12542990(-)
Potential amino acid sequence	MSSMIASTSLWFLIVLCQSLATAWSTSFDLTTC(+) MLDIDGTPNKSKLGANAILGVSLSVCRAGAGAKEVPLYKHIQELAGTKELVMPVPAFNVINGGS HAGNNLAMQEFMLLPVGASSFSEALRMGSEVYHALKGIIKAKYGQDACNVGDEGGFAPNVQDNR EGLVLLMDAIEKAGYSGKIKIGMDVAASEFLTKDGSYDLNFKNQPNDGAHVLSAQRLCDLYKEF VKDFPIVSIEDPFDQDDWSSWASLQSSVNIQIVGDDLLVTNPKRIAEAIGKKACNALLLKVNQI GTVTESIQAALDSKAAGWGVMVSHRSGETEDNFIADLAVGLASGQIKTGAPCRSERLAKYNQEP E(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os09g0375000_circ_g.2

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