Plant Circular RNA Database

Detail information of Os09g0267500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os09g0267500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_038667
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 5096833-5099291  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0267500						
					
						Parent gene annotation
						
							WD-40 repeat containing protein. (Os09t0267500-01);Similar to pr
edicted protein. (Os09t0267500-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os09g0267500_circ_g.2 Os09g0267500_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						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  
						
							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
						Os09t0267500-01:5

General Information
CircRNA Name	Os09g0267500_circ_g.1
ID in PlantcircBase	osa_circ_038667
Alias	NA
Organism	Oryza sativa
Position	chr9: 5096833-5099291 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0267500
Parent gene annotation	WD-40 repeat containing protein. (Os09t0267500-01);Similar to pr edicted protein. (Os09t0267500-02)
Parent gene strand	+
Alternative splicing	Os09g0267500_circ_g.2 Os09g0267500_circ_g.3
Support reads	1
Tissues	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	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	Os09t0267500-01:5

			
						 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  
						
							AATATTGGCTGCAGGCACAAATAGTGGTCGTGTGGTATTTTATGATGTTCGAGGAAAACCTCAG
CCATTGACTATTCTTCGTGCATACAATAGCTCAGAGatctaattgtagcaagtgctggggatga
taaaaagatctcattatggcacaaaaaaggtcaaaatgtaggacagctaccaacatcaactgtt
gatcgtgg

									
								

					

						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: 767
Transcript exons: 5096833-5096945,5097744-5098004,5098142-5098246,5098914-
5098979,5099070-5099291
ATCTAATTGTAGCAAGTGCTGGGGATGATAAAAAGATCTCATTATGGCACAAAAAAGGTCAAAA
TGTAGGACAGCTACCAACATCAACTGTTGATCGTGGGGATGACATAGAGGAGTGCATATATTCT
ATCAGTTTTAGCAACAAGGGTTCACGATATCTTTGCTCTGGTGGGAGTGGCCACATCGTTAGGA
TATGGGATTTGCAGCGGAAGAGGTGCATCAAATGGTTAAGTGGTCACACTGACACCATTACGGG
TGTGATGTATAATTGCAAAGATGAACATTTGGCTTCAATCAGCATGAAGGGGGATCTTATTCTC
CATAATCTTGCTTCTGGAGCACGTGCTGCTGAACTTAGTGACCCAAATGGGCAGGTTTTGAGAG
TCCTTGACTATTCACGTAATAGTAGGCATATATTGGTGACAGCAGGAGATGATGGTTCTGTGCA
TCTCTGGGATACAACTGCAAGAACTCCAAAGGTCTCATGGCTGAAGCAACATTCTGCACCCATA
AGTGGTGTCTGTATTTCGCCCTCCAGTGATAAGATAATTGCTACAGTTGGCCTGGACAAGAAGT
TGTACACACTCGATTCAGGGTCAAGACGACCAACACACACTATTCCTCACGAGGCCCCTTTCTC
ATCATTGGCATACAATGATGATGGTACAATATTGGCTGCAGGCACAAATAGTGGTCGTGTGGTA
TTTTATGATGTTCGAGGAAAACCTCAGCCATTGACTATTCTTCGTGCATACAATAGCTCAGAG
						
					

						Genomic sequence
						
							ATCTAATTGTAGCAAGTGCTGGGGATGATAAAAAGATCTCATTATGGCACAAAAAAGGTCAAAA
TGTAGGACAGCTACCAACATCAACTGTTGATCGTGGGGATGACATAGAGGTAGAAGTGCACTCT
TATAATATTTGTGCTCTTGGCTTTCTCCAGATAGCCATGCATGGTACTCATTATTCTACCAGGA
ATTCATCTAGCATCGATTCAAAGAGTATATATATTATCTATTGTTAGGGTAGCATTTTCAATCA
TTTTCTGTTGATGCTGTTACACACATTATCGATTTATGATCTTTATTTGTTTTAGCATTAGAGT
TATTGGCAATATGAAAATGTTAAATCTAGACTGGGTTACTGGACTCCAGAATTTTGTTACTGTT
CTAGTACATGATTGGTTTGACGACGCATTACGGGCCTGTTTGGCATAGCTCCAGCTCCAGCTCC
ACCTCTCCTGGAGCTAGAGCCCAGCCAAACAGTTCCAGTTCCACCTATATTGGGAGTGGAGCTA
GGTGGAGCACTCTCACAAAATGAACTAGAGAGGTGGAGCTGGGTTTAGCTTGCTGCCTTGCTCC
ACAACTCCACTCCAGAGTCCAGACACAACTCCTGAAGTTAAGTTTAGGAGTTGGAGCTCTACCA
AACATGCCCTACCTGATTTACTTATATAACGCATCACGTGCAATTTGTTTAAAATTATATTCTA
GATATGGAAACTACGATGGTTTATTATTTTCTGTATTATTGATTCAGAGTTCAAAATTATGTTT
ACATTTTTTATTTCACGATATGTTTCATGTTTATTTTTAATTCCTTCTGTCGATTCACTACTAG
AGGAACATTGAATCTATTATTTGGTAATTATGACTTGTGAGCCTGTAGCTTAACTCAGCAAATT
ACACATCATTATCAGGAGTGCATATATTCTATCAGTTTTAGCAACAAGGGTTCACGATATCTTT
GCTCTGGTGGGAGTGGCCACATCGTTAGGATATGGGATTTGCAGCGGAAGAGGTGCATCAAATG
GTTAAGTGGTCACACTGACACCATTACGGGTGTGATGTATAATTGCAAAGATGAACATTTGGCT
TCAATCAGCATGAAGGGGGATCTTATTCTCCATAATCTTGCTTCTGGAGCACGTGCTGCTGAAC
TTAGTGACCCAAATGGGCAGGTGAATAACTTTTTACTTTCTGTGTTTCTGTGTAGTATGGTGAT
GCTGTCATGCCCTGTTGTGGATTTTAAGTTCTCGAGAATTCTTAAATTTTCCCCTTCTGATTTA
GTTTTCTTGCACTTTTTCTGCAAGGTCAGGTTTTGAGAGTCCTTGACTATTCACGTAATAGTAG
GCATATATTGGTGACAGCAGGAGATGATGGTTCTGTGCATCTCTGGGATACAACTGCAAGAACT
CCAAAGGTACCTAAAGTACATTGATGCTGCTTAGTTGAACATCTCCTAGGGTTCATCTTAAATC
AAAGCTATGCCATTTTTATATAATTTGAACAAAAGATAGAATAGAGCCTCGAAGGTAGCATGTC
ATATAGGTGATAAAGGAAATCTAAGTTTAATAATTGCCAAAGTTGACTCTTCACTATCTGTTAC
CAATAGTTAGAAGCTTGGAAATATAATTAAATTGATTGGGAAATATTCCCTCATTTTGTGAATA
CTTGTCACTTTTGACCGTTTTATTTGTGCACAAATACTTGTCAATTTATGGTTCCCAATGTGCA
TTTTCCCTATTTTATCCATATTAACTCCCTTGCTTTCTATTCTCTCCACCACATATTTGGTGAT
TCTTGAATGAAGCATTTAGTTAGTTTTGGAGGGCAATATGACATTTCGTATGAAAGTTGAAAGC
AAACAATTACCTAGATATGTGTGTTATAGTCAAAAGTGACAAGTGAATATATCTATCTATACAA
ATGCTGGTTCAGATTATTATTTTATGAAAAATAAAGAAAAATTCCAGACAGTGATTTGAATAGT
CCTCTCTGTTTATGGAGACTTAGATGTGATTGCTACATTTACATTGCTTTGTGCTTTCTCTAAT
GCTATCATCTAACTGATTTTATTCATCATATAGGTCTCATGGCTGAAGCAACATTCTGCACCCA
TAAGTGGTGTCTGTATTTCGCCCTCCAGTGATAAGGTTTGGTACTAGTTAATATGGTTGGTTCT
TATTGTGTGAATGAATAATATCTTCATATCTTGGTATTAAGGTCTATAATTTATTTTGTAGATA
ATTGCTACAGTTGGCCTGGACAAGAAGTTGTACACACTCGATTCAGGGTCAAGACGACCAACAC
ACACTATTCCTCACGAGGCCCCTTTCTCATCATTGGCATACAATGATGATGGTACAATATTGGC
TGCAGGCACAAATAGTGGTCGTGTGGTATTTTATGATGTTCGAGGAAAACCTCAGCCATTGACT
ATTCTTCGTGCATACAATAGCTCAGAG
						
					

			
		

Sequences
Splice junction sequence	AATATTGGCTGCAGGCACAAATAGTGGTCGTGTGGTATTTTATGATGTTCGAGGAAAACCTCAG CCATTGACTATTCTTCGTGCATACAATAGCTCAGAGatctaattgtagcaagtgctggggatga taaaaagatctcattatggcacaaaaaaggtcaaaatgtaggacagctaccaacatcaactgtt gatcgtgg
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: 767 Transcript exons: 5096833-5096945,5097744-5098004,5098142-5098246,5098914- 5098979,5099070-5099291 ATCTAATTGTAGCAAGTGCTGGGGATGATAAAAAGATCTCATTATGGCACAAAAAAGGTCAAAA TGTAGGACAGCTACCAACATCAACTGTTGATCGTGGGGATGACATAGAGGAGTGCATATATTCT ATCAGTTTTAGCAACAAGGGTTCACGATATCTTTGCTCTGGTGGGAGTGGCCACATCGTTAGGA TATGGGATTTGCAGCGGAAGAGGTGCATCAAATGGTTAAGTGGTCACACTGACACCATTACGGG TGTGATGTATAATTGCAAAGATGAACATTTGGCTTCAATCAGCATGAAGGGGGATCTTATTCTC CATAATCTTGCTTCTGGAGCACGTGCTGCTGAACTTAGTGACCCAAATGGGCAGGTTTTGAGAG TCCTTGACTATTCACGTAATAGTAGGCATATATTGGTGACAGCAGGAGATGATGGTTCTGTGCA TCTCTGGGATACAACTGCAAGAACTCCAAAGGTCTCATGGCTGAAGCAACATTCTGCACCCATA AGTGGTGTCTGTATTTCGCCCTCCAGTGATAAGATAATTGCTACAGTTGGCCTGGACAAGAAGT TGTACACACTCGATTCAGGGTCAAGACGACCAACACACACTATTCCTCACGAGGCCCCTTTCTC ATCATTGGCATACAATGATGATGGTACAATATTGGCTGCAGGCACAAATAGTGGTCGTGTGGTA TTTTATGATGTTCGAGGAAAACCTCAGCCATTGACTATTCTTCGTGCATACAATAGCTCAGAG
Genomic sequence	ATCTAATTGTAGCAAGTGCTGGGGATGATAAAAAGATCTCATTATGGCACAAAAAAGGTCAAAA TGTAGGACAGCTACCAACATCAACTGTTGATCGTGGGGATGACATAGAGGTAGAAGTGCACTCT TATAATATTTGTGCTCTTGGCTTTCTCCAGATAGCCATGCATGGTACTCATTATTCTACCAGGA ATTCATCTAGCATCGATTCAAAGAGTATATATATTATCTATTGTTAGGGTAGCATTTTCAATCA TTTTCTGTTGATGCTGTTACACACATTATCGATTTATGATCTTTATTTGTTTTAGCATTAGAGT TATTGGCAATATGAAAATGTTAAATCTAGACTGGGTTACTGGACTCCAGAATTTTGTTACTGTT CTAGTACATGATTGGTTTGACGACGCATTACGGGCCTGTTTGGCATAGCTCCAGCTCCAGCTCC ACCTCTCCTGGAGCTAGAGCCCAGCCAAACAGTTCCAGTTCCACCTATATTGGGAGTGGAGCTA GGTGGAGCACTCTCACAAAATGAACTAGAGAGGTGGAGCTGGGTTTAGCTTGCTGCCTTGCTCC ACAACTCCACTCCAGAGTCCAGACACAACTCCTGAAGTTAAGTTTAGGAGTTGGAGCTCTACCA AACATGCCCTACCTGATTTACTTATATAACGCATCACGTGCAATTTGTTTAAAATTATATTCTA GATATGGAAACTACGATGGTTTATTATTTTCTGTATTATTGATTCAGAGTTCAAAATTATGTTT ACATTTTTTATTTCACGATATGTTTCATGTTTATTTTTAATTCCTTCTGTCGATTCACTACTAG AGGAACATTGAATCTATTATTTGGTAATTATGACTTGTGAGCCTGTAGCTTAACTCAGCAAATT ACACATCATTATCAGGAGTGCATATATTCTATCAGTTTTAGCAACAAGGGTTCACGATATCTTT GCTCTGGTGGGAGTGGCCACATCGTTAGGATATGGGATTTGCAGCGGAAGAGGTGCATCAAATG GTTAAGTGGTCACACTGACACCATTACGGGTGTGATGTATAATTGCAAAGATGAACATTTGGCT TCAATCAGCATGAAGGGGGATCTTATTCTCCATAATCTTGCTTCTGGAGCACGTGCTGCTGAAC TTAGTGACCCAAATGGGCAGGTGAATAACTTTTTACTTTCTGTGTTTCTGTGTAGTATGGTGAT GCTGTCATGCCCTGTTGTGGATTTTAAGTTCTCGAGAATTCTTAAATTTTCCCCTTCTGATTTA GTTTTCTTGCACTTTTTCTGCAAGGTCAGGTTTTGAGAGTCCTTGACTATTCACGTAATAGTAG GCATATATTGGTGACAGCAGGAGATGATGGTTCTGTGCATCTCTGGGATACAACTGCAAGAACT CCAAAGGTACCTAAAGTACATTGATGCTGCTTAGTTGAACATCTCCTAGGGTTCATCTTAAATC AAAGCTATGCCATTTTTATATAATTTGAACAAAAGATAGAATAGAGCCTCGAAGGTAGCATGTC ATATAGGTGATAAAGGAAATCTAAGTTTAATAATTGCCAAAGTTGACTCTTCACTATCTGTTAC CAATAGTTAGAAGCTTGGAAATATAATTAAATTGATTGGGAAATATTCCCTCATTTTGTGAATA CTTGTCACTTTTGACCGTTTTATTTGTGCACAAATACTTGTCAATTTATGGTTCCCAATGTGCA TTTTCCCTATTTTATCCATATTAACTCCCTTGCTTTCTATTCTCTCCACCACATATTTGGTGAT TCTTGAATGAAGCATTTAGTTAGTTTTGGAGGGCAATATGACATTTCGTATGAAAGTTGAAAGC AAACAATTACCTAGATATGTGTGTTATAGTCAAAAGTGACAAGTGAATATATCTATCTATACAA ATGCTGGTTCAGATTATTATTTTATGAAAAATAAAGAAAAATTCCAGACAGTGATTTGAATAGT CCTCTCTGTTTATGGAGACTTAGATGTGATTGCTACATTTACATTGCTTTGTGCTTTCTCTAAT GCTATCATCTAACTGATTTTATTCATCATATAGGTCTCATGGCTGAAGCAACATTCTGCACCCA TAAGTGGTGTCTGTATTTCGCCCTCCAGTGATAAGGTTTGGTACTAGTTAATATGGTTGGTTCT TATTGTGTGAATGAATAATATCTTCATATCTTGGTATTAAGGTCTATAATTTATTTTGTAGATA ATTGCTACAGTTGGCCTGGACAAGAAGTTGTACACACTCGATTCAGGGTCAAGACGACCAACAC ACACTATTCCTCACGAGGCCCCTTTCTCATCATTGGCATACAATGATGATGGTACAATATTGGC TGCAGGCACAAATAGTGGTCGTGTGGTATTTTATGATGTTCGAGGAAAACCTCAGCCATTGACT ATTCTTCGTGCATACAATAGCTCAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_018841 						
					
						PMCS
						0.349491985

Conservation Information
Conserved circRNAs	osi_circ_018841
PMCS	0.349491985

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5097892-5096835(+)
5096918-5099288(-)
						
						Potential amino acid sequence
						
							MYNCKDEHLASISMKGDLILHNLASGARAAELSDPNGQVLRVLDYSRNSRHILVTAGDDGSVHL
WDTTARTPKVSWLKQHSAPISGVCISPSSDKIIATVGLDKKLYTLDSGSRRPTHTIPHEAPFSS
LAYNDDGTILAAGTNSGRVVFYDVRGKPQPLTILRAYNSSEI*(+)
MLVAVLHFDLFCAIMRSFYHPQHLLQLDL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5097892-5096835(+) 5096918-5099288(-)
Potential amino acid sequence	MYNCKDEHLASISMKGDLILHNLASGARAAELSDPNGQVLRVLDYSRNSRHILVTAGDDGSVHL WDTTARTPKVSWLKQHSAPISGVCISPSSDKIIATVGLDKKLYTLDSGSRRPTHTIPHEAPFSS LAYNDDGTILAAGTNSGRVVFYDVRGKPQPLTILRAYNSSEI(+) MLVAVLHFDLFCAIMRSFYHPQHLLQLDL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0267500_circ_g.1

Address

Any questions?

Supported by