Plant Circular RNA Database

Detail information of Os09g0529325_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os09g0529325_circ_g.1
					
						ID in PlantcircBase
						osa_circ_039943
					
						Alias
						Os09circ09377/Os_ciR2473
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 20733395-20736535  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os09g0529325						
					
						Parent gene annotation
						
							Hypothetical protein. (Os09t0529325-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						6/4
					
						Tissues
						leaf and panicle/root
					
						Exon boundary  
						
							No-No							"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
						Os09t0529325-00:5

General Information
CircRNA Name	Os09g0529325_circ_g.1
ID in PlantcircBase	osa_circ_039943
Alias	Os09circ09377/Os_ciR2473
Organism	Oryza sativa
Position	chr9: 20733395-20736535 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	SMALT, Segemehl, find_circ
Parent gene	Os09g0529325
Parent gene annotation	Hypothetical protein. (Os09t0529325-00)
Parent gene strand	+
Alternative splicing	NA
Support reads	6/4
Tissues	leaf and panicle/root
Exon boundary	No-No "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	Os09t0529325-00:5

			
						 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  
						
							TCTCAACAGTACCGACCTTCCAGCGGACCCATATTTGTGATGCAATGATATGTCATCCAGTTCC
ATCCGGTTTGGCGCATTATGAATGACCAGAATAATActagcattatgcagtgacagggccctct
gcattgctacgtccattgagctgctctgggtggatcttcttccccaacatcttcctcatgacct
acttattt

									
								

					

						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: 219
Transcript exons: 20733395-20733456,20736379-20736535
CTAGCATTATGCAGTGACAGGGCCCTCTGCATTGCTACGTCCATTGAGCTGCTCTGGGTGGAGG
ATGAAGAATGACAGCTGAGGCTCACAAGAACAGAAATACATGCTCTGCATCCACCTCTCAACAG
TACCGACCTTCCAGCGGACCCATATTTGTGATGCAATGATATGTCATCCAGTTCCATCCGGTTT
GGCGCATTATGAATGACCAGAATAATA
						
					

						Genomic sequence
						
							CTAGCATTATGCAGTGACAGGGCCCTCTGCATTGCTACGTCCATTGAGCTGCTCTGGGTGGATC
TTCTTCCCCAACATCTTCCTCATGACCTACTTATTTTACAGATGACAAAAACCAAAAAGGTGCA
TTCCAGGTCAGTGATCATTTACCACTAAAGACTGGCTAGATGCATAATGCTTACTCCAGTTGTA
GCTATATGGTAAAACATATGTGTAAGATGTGGCGCACTGACCATGGAACAAAGTGTAATAAATT
CCAGACTAGTAAAATATAATGTAACAAGGCTTAACAAATAAAGCAGAGACGAAGAAAACCATAC
TCGACTTAATTTTCTTGTAGCCTTCAGCGGCTTTGACGTTGGTTTTGTTGGCTTCTTGTGATGC
ATCTTCTCCATGCACGACGTAGGCTTTGAAGTGGATGCCCCAGCAACAATGACGATTTTCGGGT
AACACTTATCCTCTGCATCACTTGATGAGAATGCTTCTGCAGCAAATAGATCGGCAAGTGTAGT
TCTCACTTTCTCCACCTTCTCTAACATCAGAAGTGGTCGTTCCTGGATGTTAGGAACATCTTCC
ACTTCCATGCCATGCATTAGGATTTCCTCCTTCACAAAGCACATGAAGTTGTCTTCTTTCATCG
ATGATGAGTGCATCTTGGCAGGCTCAAGAGCAGATGCCGGTTCACTTGGTGCTGTAACTGGTGT
GTCCTGTTTAGCCTCAGCCTTTTCTTCTTCGCACTTCTCTTGTTCCACTTTCTCATCACACATG
ATGATGGGCTCATCTTGTTCAATACAGGACTCAGGACAGAGTGAGTTTACATTGTGGCCCAGCG
TGCCAATTGCAAGTATACCATTAATAAGCACATCACGGAGCAGCAGGGCCTCAGTGTCTTGCTC
AGTCACACTTGCACGCAGAGAGTCTTCCTTCTCTTCCATGGCTACTCCATCAGGAAAAAAAATA
GAAGAGAAGAAACAAGAGTTGACAACATGAGAACAACAAAACATGTGGTACATAAAAGAGAGAT
ATCCTGGTATCCTTACCCTTGTTCTCATTGATGGTGCAATACTCGACATTAGAATGCTTCTTCC
GATTCAGCCAATTGAACACCTGGTAGTGCCATAAAAACATAAATCACCAGTAATCTCATTAGAT
ATAAGAACAGTGAGTTGAATCCAACGCACTTGTTTAAGAGAGACAGAAACTGCAAAGACCTGTA
CTTTACAGCATACACTATACACGGACAAATGGTGTATCAGCATGAACTAACTGTGTACCTTTAG
AGCCATCTCTCTAGAACCAATATGAAACCAGAAGAGAAAGCCAGACAGTAGCTCAGATCCTCAA
ATGCATGGCATGGTTTTATAAAAAGACACTAGTCTCATGATTGAATGGTCCAGGAGACAGAAGA
ATGGACTTTTGGTTGCAACTGGCTTGGCCTGACTCACTGAAGTAAATTCTTTCACCAAGGTAGA
TAAGCACACTTTCGACAGCCATATGCTACATTCTGTTCAAAGTCAGCAAACATCAGTCACTAAT
CACACCAGGTAGGGAATGATTCAGAAAAATTCCAACCACCGAAATGTGGCCTATTACATGTGCA
AGTTGGGGCCCCACTGACAGAACGGATCAGGTCAAATTGGTGTGTAATATTGGGCAAACTTATA
TCAAATAGCATGGAAGAGTATGTGCATTCCCATATAGACATGATTAGACCGAGTGCCAAGATTT
GTTCCAGATTAAGCAAGTATCAAGACTCAGGCTTAAATTGAAAGCCATTACTTTATGAGATACT
CGACATCTGTGCAAATATGGTCATTATTCCAGCTTTCCAAAGAGATGGAATTCTCAATCTGTTC
TTGCTCTAAAGATTCTTGAGCACTGCAGGCCTGTAGCACCAAGTTTATCATTCAACAGTAAGTT
GCACATGCTTATTTGCTCTTGGTGTCTAGTGATCTTGCACATTATCCATAGCAGACTAGTCACT
GACAGTGGGCTGCGATTTCATAGGCCAGTAGCAGCTGGCAACAGGCAGTAGCCTGCATGTTTGC
AATTAACAGCAATGTATTATGGTATCTAATGCCATCAGCAAGTAGTGACTCCAGGTGTACAGAG
TAACTATTAGCTGGCAGAGGGACAGGCATGCAATTTAATCCTGTAGTAGCAAAAGTTCAGTTGA
AGGTTCCCTGTATCTGCTTACTAATATTTAAACTTTTAGATGCCTATATCATTAGACCATGTTG
TCTACACCAAAGACCATTAGTTCAATCCTGTTTTATTTGTATAAAAGTTTCTCATTTGATTACT
TCGAATCAATTTTGTAGGCCAACTGGATGATACTGAGTCAGAATCACAAGCTTGACACTCCATC
CCTACGTCCTAGACTAATGAACCACAAGAATTTGTTAATGATTTCTAGACCTTCATCACATATT
CCTAATATGTTCAAAATATTGTTTAGGAACTAAAATGTTCAAAACTACATTCTTTCTTACTCAA
GCAAGCAAATCCAGACGAGCAATTCAACACATCAGTAAAGACAGCTGGCTGAAATAGCTTGGAA
AATTCTAGCGGACTGCTTTGGAACAAAATATGTTCTAGATATAATAACAGGATGCAAACATAGA
AGTGGTTTTCATTAGTTCTCTCATCCTTGATTAGCTCCCTACATACAATGTATCCAAAGATGTT
GCTATGACAGACCTCGTGCAGTTGTTTGTGCCAGAACTAAAGCACCAGCCAACACCAACAAACC
AGTGGGGATGAGCAAAATAATGCTGGGCTGATCATGTAATCATCTCAATAACCTAATAAAAATA
GACTATTGAGAAGGTAACCTTGTCCAGATGATGGTTCATGAAGCTCTTTCACTGCACAATCCCC
CACCACCATCATTCAGTATGCAAAAAAGACCTGTGCACTTCATCTTCTTCATGACACCGAAAGC
TTCAACAGATCAAGCTGTGTCCAGTTCCATCTGGCTTGACGGATGAAGAATGACAGCTGAGGCT
CACAAGAACAGAAATACATGCTCTGCATCCACCTCTCAACAGTACCGACCTTCCAGCGGACCCA
TATTTGTGATGCAATGATATGTCATCCAGTTCCATCCGGTTTGGCGCATTATGAATGACCAGAA
TAATA
						
					

			
		

Sequences
Splice junction sequence	TCTCAACAGTACCGACCTTCCAGCGGACCCATATTTGTGATGCAATGATATGTCATCCAGTTCC ATCCGGTTTGGCGCATTATGAATGACCAGAATAATActagcattatgcagtgacagggccctct gcattgctacgtccattgagctgctctgggtggatcttcttccccaacatcttcctcatgacct acttattt
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: 219 Transcript exons: 20733395-20733456,20736379-20736535 CTAGCATTATGCAGTGACAGGGCCCTCTGCATTGCTACGTCCATTGAGCTGCTCTGGGTGGAGG ATGAAGAATGACAGCTGAGGCTCACAAGAACAGAAATACATGCTCTGCATCCACCTCTCAACAG TACCGACCTTCCAGCGGACCCATATTTGTGATGCAATGATATGTCATCCAGTTCCATCCGGTTT GGCGCATTATGAATGACCAGAATAATA
Genomic sequence	CTAGCATTATGCAGTGACAGGGCCCTCTGCATTGCTACGTCCATTGAGCTGCTCTGGGTGGATC TTCTTCCCCAACATCTTCCTCATGACCTACTTATTTTACAGATGACAAAAACCAAAAAGGTGCA TTCCAGGTCAGTGATCATTTACCACTAAAGACTGGCTAGATGCATAATGCTTACTCCAGTTGTA GCTATATGGTAAAACATATGTGTAAGATGTGGCGCACTGACCATGGAACAAAGTGTAATAAATT CCAGACTAGTAAAATATAATGTAACAAGGCTTAACAAATAAAGCAGAGACGAAGAAAACCATAC TCGACTTAATTTTCTTGTAGCCTTCAGCGGCTTTGACGTTGGTTTTGTTGGCTTCTTGTGATGC ATCTTCTCCATGCACGACGTAGGCTTTGAAGTGGATGCCCCAGCAACAATGACGATTTTCGGGT AACACTTATCCTCTGCATCACTTGATGAGAATGCTTCTGCAGCAAATAGATCGGCAAGTGTAGT TCTCACTTTCTCCACCTTCTCTAACATCAGAAGTGGTCGTTCCTGGATGTTAGGAACATCTTCC ACTTCCATGCCATGCATTAGGATTTCCTCCTTCACAAAGCACATGAAGTTGTCTTCTTTCATCG ATGATGAGTGCATCTTGGCAGGCTCAAGAGCAGATGCCGGTTCACTTGGTGCTGTAACTGGTGT GTCCTGTTTAGCCTCAGCCTTTTCTTCTTCGCACTTCTCTTGTTCCACTTTCTCATCACACATG ATGATGGGCTCATCTTGTTCAATACAGGACTCAGGACAGAGTGAGTTTACATTGTGGCCCAGCG TGCCAATTGCAAGTATACCATTAATAAGCACATCACGGAGCAGCAGGGCCTCAGTGTCTTGCTC AGTCACACTTGCACGCAGAGAGTCTTCCTTCTCTTCCATGGCTACTCCATCAGGAAAAAAAATA GAAGAGAAGAAACAAGAGTTGACAACATGAGAACAACAAAACATGTGGTACATAAAAGAGAGAT ATCCTGGTATCCTTACCCTTGTTCTCATTGATGGTGCAATACTCGACATTAGAATGCTTCTTCC GATTCAGCCAATTGAACACCTGGTAGTGCCATAAAAACATAAATCACCAGTAATCTCATTAGAT ATAAGAACAGTGAGTTGAATCCAACGCACTTGTTTAAGAGAGACAGAAACTGCAAAGACCTGTA CTTTACAGCATACACTATACACGGACAAATGGTGTATCAGCATGAACTAACTGTGTACCTTTAG AGCCATCTCTCTAGAACCAATATGAAACCAGAAGAGAAAGCCAGACAGTAGCTCAGATCCTCAA ATGCATGGCATGGTTTTATAAAAAGACACTAGTCTCATGATTGAATGGTCCAGGAGACAGAAGA ATGGACTTTTGGTTGCAACTGGCTTGGCCTGACTCACTGAAGTAAATTCTTTCACCAAGGTAGA TAAGCACACTTTCGACAGCCATATGCTACATTCTGTTCAAAGTCAGCAAACATCAGTCACTAAT CACACCAGGTAGGGAATGATTCAGAAAAATTCCAACCACCGAAATGTGGCCTATTACATGTGCA AGTTGGGGCCCCACTGACAGAACGGATCAGGTCAAATTGGTGTGTAATATTGGGCAAACTTATA TCAAATAGCATGGAAGAGTATGTGCATTCCCATATAGACATGATTAGACCGAGTGCCAAGATTT GTTCCAGATTAAGCAAGTATCAAGACTCAGGCTTAAATTGAAAGCCATTACTTTATGAGATACT CGACATCTGTGCAAATATGGTCATTATTCCAGCTTTCCAAAGAGATGGAATTCTCAATCTGTTC TTGCTCTAAAGATTCTTGAGCACTGCAGGCCTGTAGCACCAAGTTTATCATTCAACAGTAAGTT GCACATGCTTATTTGCTCTTGGTGTCTAGTGATCTTGCACATTATCCATAGCAGACTAGTCACT GACAGTGGGCTGCGATTTCATAGGCCAGTAGCAGCTGGCAACAGGCAGTAGCCTGCATGTTTGC AATTAACAGCAATGTATTATGGTATCTAATGCCATCAGCAAGTAGTGACTCCAGGTGTACAGAG TAACTATTAGCTGGCAGAGGGACAGGCATGCAATTTAATCCTGTAGTAGCAAAAGTTCAGTTGA AGGTTCCCTGTATCTGCTTACTAATATTTAAACTTTTAGATGCCTATATCATTAGACCATGTTG TCTACACCAAAGACCATTAGTTCAATCCTGTTTTATTTGTATAAAAGTTTCTCATTTGATTACT TCGAATCAATTTTGTAGGCCAACTGGATGATACTGAGTCAGAATCACAAGCTTGACACTCCATC CCTACGTCCTAGACTAATGAACCACAAGAATTTGTTAATGATTTCTAGACCTTCATCACATATT CCTAATATGTTCAAAATATTGTTTAGGAACTAAAATGTTCAAAACTACATTCTTTCTTACTCAA GCAAGCAAATCCAGACGAGCAATTCAACACATCAGTAAAGACAGCTGGCTGAAATAGCTTGGAA AATTCTAGCGGACTGCTTTGGAACAAAATATGTTCTAGATATAATAACAGGATGCAAACATAGA AGTGGTTTTCATTAGTTCTCTCATCCTTGATTAGCTCCCTACATACAATGTATCCAAAGATGTT GCTATGACAGACCTCGTGCAGTTGTTTGTGCCAGAACTAAAGCACCAGCCAACACCAACAAACC AGTGGGGATGAGCAAAATAATGCTGGGCTGATCATGTAATCATCTCAATAACCTAATAAAAATA GACTATTGAGAAGGTAACCTTGTCCAGATGATGGTTCATGAAGCTCTTTCACTGCACAATCCCC CACCACCATCATTCAGTATGCAAAAAAGACCTGTGCACTTCATCTTCTTCATGACACCGAAAGC TTCAACAGATCAAGCTGTGTCCAGTTCCATCTGGCTTGACGGATGAAGAATGACAGCTGAGGCT CACAAGAACAGAAATACATGCTCTGCATCCACCTCTCAACAGTACCGACCTTCCAGCGGACCCA TATTTGTGATGCAATGATATGTCATCCAGTTCCATCCGGTTTGGCGCATTATGAATGACCAGAA TAATA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_008188* osi_circ_018672 						
					
						PMCS
						0.35385824

Conservation Information
Conserved circRNAs	osi_circ_008188* osi_circ_018672
PMCS	0.35385824

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os09g0529325_circ_g.1

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