Plant Circular RNA Database

Detail information of Os09g0515800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0515800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_039837
					
						Alias
						Os09circ08812/Os_ciR2328
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 20087721-20089665  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os09g0515800						
					
						Parent gene annotation
						
							RabGAP/TBC domain containing protein. (Os09t0515800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0515800_circ_g.1 Os09g0515800_circ_g.3 Os09g0515800_circ_g.4 Os09g0515800_circ_g.5 Os09g0515800_circ_g.6 Os09g0515800_circ_g.7 Os09g0515800_circ_g.8 Os09g0515800_circ_g.9 Os09g0515800_circ_g.10 						
					
						Support reads
						2/5/2
					
						Tissues
						leaf and panicle/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
						Os09t0515800-01:6

General Information
CircRNA Name	Os09g0515800_circ_g.2
ID in PlantcircBase	osa_circ_039837
Alias	Os09circ08812/Os_ciR2328
Organism	Oryza sativa
Position	chr9: 20087721-20089665 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os09g0515800
Parent gene annotation	RabGAP/TBC domain containing protein. (Os09t0515800-01)
Parent gene strand	-
Alternative splicing	Os09g0515800_circ_g.1 Os09g0515800_circ_g.3 Os09g0515800_circ_g.4 Os09g0515800_circ_g.5 Os09g0515800_circ_g.6 Os09g0515800_circ_g.7 Os09g0515800_circ_g.8 Os09g0515800_circ_g.9 Os09g0515800_circ_g.10
Support reads	2/5/2
Tissues	leaf and panicle/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	Os09t0515800-01:6

			
						 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  
						
							ACGATCATTCTCATAGCGCGGGGAGTATTCAGGAGGTGAAAGAGGTTCTGATCTTCGGGTCAGC
AAGACCTTCCCAGGAAAGCTCCGCCCTTTGAGCATTcatctatacgatgaacaagttctttcaa
cctgaaaacaaggcgctgaattcctggttgagcaaaggtgtaatggtcttgcataccatcgaga
aactttga

									
								

					

						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: 247
Transcript exons: 20087721-20087841,20089540-20089665
CATCTATACGATGAACAAGTTCTTTCAACCTGAAAACAAGGCGCTGAATTCCTGGTTGAGCAAA
GGTGTAATGGTCTTGCATACCATCGAGAAACTTTGAAAGACACCAATAACAGTCCGCGAGCCTT
CATTCTGTTCGTATTCATCACGATCATTCTCATAGCGCGGGGAGTATTCAGGAGGTGAAAGAGG
TTCTGATCTTCGGGTCAGCAAGACCTTCCCAGGAAAGCTCCGCCCTTTGAGCATT
Transcript length: 890
Transcript exons: 20087721-20087992,20088496-20088587,20088681-20088818,20
088895-20088965,20089272-20089455,20089533-20089665
CATCTATACGATGAACAAGTTCTTTCAACCTGAAAACAAGGCGCTGAATTCCTGGTTGAGCAAA
GGTGTAATGGTCTTGCATACCATCGAGAAACTTTGAAAGACACCAATAACAGTCCGCTTCAATA
TTAGAAACATCCTGTGGAGAAAGCTTTTCCATGGACCAGGTGTCCATGTTGCCCTCTAGATGCT
CTGATAAGAATACGACCAAGAATGGTGTAAGAAGGTCGTTTATTCCTTGAACATAACCACTTGC
TGGATGACGGATGGCCCATGTATACAAAATGCGCTCCAGAGATTTCTGAATTTGAGGGTGCTGG
AAAAAGGTAACATCTGGCACAGTTCTTGGGCAATCAACAGCAATCTGTCGAAGCATATTAATCT
CTTCATCAGAGCGTTCAGTATCAGGAATATCATAGTATTGAGAAACACATTCAACGTACTCAAG
TCTTTTCCTCGTCAGAACACCTTCTCTTCTATCTGCATTAGGTGGTGCATATCCCAGAAGAAGT
CTCCATATATTAGGTCGCATATAAGGTGGAACACCACTCCAAGACAGTTCCCGCAACTTGTCTA
ATATAACAGCTGGCCTAGATAGTTCGTTCGTGAATTTAGCAATTCGTGCAGAATCTGTAGCTCT
AGCCCCAGAAACTAATCCTTGGGCATCTGGTAATGAATTGGTGCTACTTGTTGATGGAGGATTT
GATTTCTTTGCACTCATACTATCAGCTGTGTTTCCAGATGCTTGCCCTTTTCCTTCTTGTGAGC
CTTCATTCTGTTCGTATTCATCACGATCATTCTCATAGCGCGGGGAGTATTCAGGAGGTGAAAG
AGGTTCTGATCTTCGGGTCAGCAAGACCTTCCCAGGAAAGCTCCGCCCTTTGAGCATT
						
					

						Genomic sequence
						
							CATCTATACGATGAACAAGTTCTTTCAACCTGAAAACAAGGCGCTGAATTCCTGGTTGAGCAAA
GGTGTAATGGTCTTGCATACCATCGAGAAACTTTGAAAGACACCAATAACAGTCCGCTTCAATA
TTAGAAACATCCTGTGGAGAAAGCTTTTCCATGGACCAGGTGTCCATGTTGCCCTCTAGATGCT
CTGATAAGAATACGACCAAGAATGGTGTAAGAAGGTCGTTTATTCCTTGAACATAACCACTTGC
TGGATGACGGATGGCCCTGGAAATGGTGAGTCACTGTATCACGGAATAATACAGAAAAGAAACA
AACAATTGTAGGTAGTGGTGGCGGCATTGTGTTGATGCCAACATAATTGATCCTTGTTGGAACT
TGGAAGAGAACACTAATGTGGAACTGATGGAACAAGCATAACTGCCAAAAGAACAGGCACCTTG
TACTGATATCAACACAATGTATATCAAACATAACCTAAACACCTTATTAGACCAACTTGGGAAA
TTTGAACTAGTCATCAGAGATGACAAGTCATGTATCATGCAAACTCCACCCATTTATCACATTT
TCCCTCTAGAATGATGAAACAGTGCCAGGTTAACTATGAGAGGTTCACAAACGTGTATGTTCTG
CATAGGGAACCACAAGGGGAGTAGCACAAGCAGGAATTGTGCATCATGGAAAAATGTCATGTTT
TCTTAGCTAGATTGTGTGTTAAACAAGGATTCTGACAAATCAAAATGAACCAGCAAAGGGCGGT
GACTCACCATGTATACAAAATGCGCTCCAGAGATTTCTGAATTTGAGGGTGCTGGAAAAAGGTA
ACATCTGGCACAGTTCTTGGGCAATCAACAGCAATCTACAAGTGAAACCATGAGTTTATATAAT
TGATTACATGAACTATTGGGGAACCTAAAAAGGCAAATTCAAAGTCGAAAAAGTCAGGGGAAAC
CTGTCGAAGCATATTAATCTCTTCATCAGAGCGTTCAGTATCAGGAATATCATAGTATTGAGAA
ACACATTCAACGTACTCAAGTCTTTTCCTCGTCAGAACACCTTCTCTTCTATCTGCATTAGGTG
GTGCATATCCCTGTAGCCAGCTGACATTAAATTCGAAACAGGAACACCTATTAAAAGGATTGAA
ACATGTCTTGAAATAAGCTCACCAGAAGAAGTCTCCATATATTAGGTCGCATATAAGGTGGAAC
ACCACTCCAAGACAGTTCCCGCAACTTGTCTAAAAAATTAAGAACAAACAGTGGGTTTCAACTG
AATTCTGGACAAGCTAATGGAACCTAGAAGAATCAGAGAAACTGCAAATATTTTTCAGAATGAA
CAAGCTGCAACAAAATACAGGGGCAACAACTCACAAGACACAAGATTGTCACCCTACATAAAGT
TTATACCCTTTTCCATCCATCTTGGCAGTGACAATGATGAAAAAGAAAATGACAAGAAAATAAT
CGAAACATTGATTGCTAAACCAAAATTATTGTACACCCAACAGATGATTTAATCAACCCTGTAC
AGAAAATAGGCATACCTAATATAACAGCTGGCCTAGATAGTTCGTTCGTGAATTTAGCAATTCG
TGCAGAATCTGTAGCTCTAGCCCCAGAAACTAATCCTTGGGCATCTGGTAATGAATTGGTGCTA
CTTGTTGATGGAGGATTTGATTTCTTTGCACTCATACTATCAGCTGTGTTTCCAGATGCTTGCC
CTTTTCCCTGTATAAAATGAAGTTCATCAATTACAAACTAACTTGTTTACAAGCTGAAAGCGAT
GCCAACCAATGCCACATTACTTCTTGTGAGCCTTCATTCTGTTCGTATTCATCACGATCATTCT
CATAGCGCGGGGAGTATTCAGGAGGTGAAAGAGGTTCTGATCTTCGGGTCAGCAAGACCTTCCC
AGGAAAGCTCCGCCCTTTGAGCATT
						
					

			
		

Sequences
Splice junction sequence	ACGATCATTCTCATAGCGCGGGGAGTATTCAGGAGGTGAAAGAGGTTCTGATCTTCGGGTCAGC AAGACCTTCCCAGGAAAGCTCCGCCCTTTGAGCATTcatctatacgatgaacaagttctttcaa cctgaaaacaaggcgctgaattcctggttgagcaaaggtgtaatggtcttgcataccatcgaga aactttga
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: 247 Transcript exons: 20087721-20087841,20089540-20089665 CATCTATACGATGAACAAGTTCTTTCAACCTGAAAACAAGGCGCTGAATTCCTGGTTGAGCAAA GGTGTAATGGTCTTGCATACCATCGAGAAACTTTGAAAGACACCAATAACAGTCCGCGAGCCTT CATTCTGTTCGTATTCATCACGATCATTCTCATAGCGCGGGGAGTATTCAGGAGGTGAAAGAGG TTCTGATCTTCGGGTCAGCAAGACCTTCCCAGGAAAGCTCCGCCCTTTGAGCATT Transcript length: 890 Transcript exons: 20087721-20087992,20088496-20088587,20088681-20088818,20 088895-20088965,20089272-20089455,20089533-20089665 CATCTATACGATGAACAAGTTCTTTCAACCTGAAAACAAGGCGCTGAATTCCTGGTTGAGCAAA GGTGTAATGGTCTTGCATACCATCGAGAAACTTTGAAAGACACCAATAACAGTCCGCTTCAATA TTAGAAACATCCTGTGGAGAAAGCTTTTCCATGGACCAGGTGTCCATGTTGCCCTCTAGATGCT CTGATAAGAATACGACCAAGAATGGTGTAAGAAGGTCGTTTATTCCTTGAACATAACCACTTGC TGGATGACGGATGGCCCATGTATACAAAATGCGCTCCAGAGATTTCTGAATTTGAGGGTGCTGG AAAAAGGTAACATCTGGCACAGTTCTTGGGCAATCAACAGCAATCTGTCGAAGCATATTAATCT CTTCATCAGAGCGTTCAGTATCAGGAATATCATAGTATTGAGAAACACATTCAACGTACTCAAG TCTTTTCCTCGTCAGAACACCTTCTCTTCTATCTGCATTAGGTGGTGCATATCCCAGAAGAAGT CTCCATATATTAGGTCGCATATAAGGTGGAACACCACTCCAAGACAGTTCCCGCAACTTGTCTA ATATAACAGCTGGCCTAGATAGTTCGTTCGTGAATTTAGCAATTCGTGCAGAATCTGTAGCTCT AGCCCCAGAAACTAATCCTTGGGCATCTGGTAATGAATTGGTGCTACTTGTTGATGGAGGATTT GATTTCTTTGCACTCATACTATCAGCTGTGTTTCCAGATGCTTGCCCTTTTCCTTCTTGTGAGC CTTCATTCTGTTCGTATTCATCACGATCATTCTCATAGCGCGGGGAGTATTCAGGAGGTGAAAG AGGTTCTGATCTTCGGGTCAGCAAGACCTTCCCAGGAAAGCTCCGCCCTTTGAGCATT
Genomic sequence	CATCTATACGATGAACAAGTTCTTTCAACCTGAAAACAAGGCGCTGAATTCCTGGTTGAGCAAA GGTGTAATGGTCTTGCATACCATCGAGAAACTTTGAAAGACACCAATAACAGTCCGCTTCAATA TTAGAAACATCCTGTGGAGAAAGCTTTTCCATGGACCAGGTGTCCATGTTGCCCTCTAGATGCT CTGATAAGAATACGACCAAGAATGGTGTAAGAAGGTCGTTTATTCCTTGAACATAACCACTTGC TGGATGACGGATGGCCCTGGAAATGGTGAGTCACTGTATCACGGAATAATACAGAAAAGAAACA AACAATTGTAGGTAGTGGTGGCGGCATTGTGTTGATGCCAACATAATTGATCCTTGTTGGAACT TGGAAGAGAACACTAATGTGGAACTGATGGAACAAGCATAACTGCCAAAAGAACAGGCACCTTG TACTGATATCAACACAATGTATATCAAACATAACCTAAACACCTTATTAGACCAACTTGGGAAA TTTGAACTAGTCATCAGAGATGACAAGTCATGTATCATGCAAACTCCACCCATTTATCACATTT TCCCTCTAGAATGATGAAACAGTGCCAGGTTAACTATGAGAGGTTCACAAACGTGTATGTTCTG CATAGGGAACCACAAGGGGAGTAGCACAAGCAGGAATTGTGCATCATGGAAAAATGTCATGTTT TCTTAGCTAGATTGTGTGTTAAACAAGGATTCTGACAAATCAAAATGAACCAGCAAAGGGCGGT GACTCACCATGTATACAAAATGCGCTCCAGAGATTTCTGAATTTGAGGGTGCTGGAAAAAGGTA ACATCTGGCACAGTTCTTGGGCAATCAACAGCAATCTACAAGTGAAACCATGAGTTTATATAAT TGATTACATGAACTATTGGGGAACCTAAAAAGGCAAATTCAAAGTCGAAAAAGTCAGGGGAAAC CTGTCGAAGCATATTAATCTCTTCATCAGAGCGTTCAGTATCAGGAATATCATAGTATTGAGAA ACACATTCAACGTACTCAAGTCTTTTCCTCGTCAGAACACCTTCTCTTCTATCTGCATTAGGTG GTGCATATCCCTGTAGCCAGCTGACATTAAATTCGAAACAGGAACACCTATTAAAAGGATTGAA ACATGTCTTGAAATAAGCTCACCAGAAGAAGTCTCCATATATTAGGTCGCATATAAGGTGGAAC ACCACTCCAAGACAGTTCCCGCAACTTGTCTAAAAAATTAAGAACAAACAGTGGGTTTCAACTG AATTCTGGACAAGCTAATGGAACCTAGAAGAATCAGAGAAACTGCAAATATTTTTCAGAATGAA CAAGCTGCAACAAAATACAGGGGCAACAACTCACAAGACACAAGATTGTCACCCTACATAAAGT TTATACCCTTTTCCATCCATCTTGGCAGTGACAATGATGAAAAAGAAAATGACAAGAAAATAAT CGAAACATTGATTGCTAAACCAAAATTATTGTACACCCAACAGATGATTTAATCAACCCTGTAC AGAAAATAGGCATACCTAATATAACAGCTGGCCTAGATAGTTCGTTCGTGAATTTAGCAATTCG TGCAGAATCTGTAGCTCTAGCCCCAGAAACTAATCCTTGGGCATCTGGTAATGAATTGGTGCTA CTTGTTGATGGAGGATTTGATTTCTTTGCACTCATACTATCAGCTGTGTTTCCAGATGCTTGCC CTTTTCCCTGTATAAAATGAAGTTCATCAATTACAAACTAACTTGTTTACAAGCTGAAAGCGAT GCCAACCAATGCCACATTACTTCTTGTGAGCCTTCATTCTGTTCGTATTCATCACGATCATTCT CATAGCGCGGGGAGTATTCAGGAGGTGAAAGAGGTTCTGATCTTCGGGTCAGCAAGACCTTCCC AGGAAAGCTCCGCCCTTTGAGCATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_008166* osi_circ_018643 						
					
						PMCS
						0.382574195

Conservation Information
Conserved circRNAs	osi_circ_008166* osi_circ_018643
PMCS	0.382574195

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20089666-20089627(-)
20087725-20089596(-)
						
						Potential amino acid sequence
						
							MLKGRSFPGKVLLTRRSEPLSPPEYSPRYENDRDEYEQNEGSQEGKGQASGNTADSMSAKKSNP
PSTSSTNSLPDAQGLVSGARATDSARIAKFTNELSRPAVILDKLRELSWSGVPPYMRPNIWRLL
LGYAPPNADRREGVLTRKRLEYVECVSQYYDIPDTERSDEEINMLRQIAVDCPRTVPDVTFFQH
PQIQKSLERILYTWAIRHPASGYVQGINDLLTPFLVVFLSEHLEGNMDTWSMEKLSPQDVSNIE
ADCYWCLSKFLDGMQDHYTFAQPGIQRLVFRLKELVHRIDECSKGGAFLGRSC*(-)
MNAQRAELSWEGLADPKIRTSFTS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20089666-20089627(-) 20087725-20089596(-)
Potential amino acid sequence	MLKGRSFPGKVLLTRRSEPLSPPEYSPRYENDRDEYEQNEGSQEGKGQASGNTADSMSAKKSNP PSTSSTNSLPDAQGLVSGARATDSARIAKFTNELSRPAVILDKLRELSWSGVPPYMRPNIWRLL LGYAPPNADRREGVLTRKRLEYVECVSQYYDIPDTERSDEEINMLRQIAVDCPRTVPDVTFFQH PQIQKSLERILYTWAIRHPASGYVQGINDLLTPFLVVFLSEHLEGNMDTWSMEKLSPQDVSNIE ADCYWCLSKFLDGMQDHYTFAQPGIQRLVFRLKELVHRIDECSKGGAFLGRSC(-) MNAQRAELSWEGLADPKIRTSFTS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os09g0515800_circ_g.2

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