Plant Circular RNA Database

Detail information of Os05g0595300_circ_ag.4

			
						 General Information
					
						CircRNA Name
						Os05g0595300_circ_ag.4
					
						ID in PlantcircBase
						osa_circ_029241
					
						Alias
						Os05circ21228/Os_ciR620
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 29659385-29662014  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						SMALT, Segemehl, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os05g0595300_circ_ag.1 Os05g0595300_circ_g.2 Os05g0595300_circ_g.3 Os05g0595300_circ_g.5 Os05g0595450_circ_g.1 						
					
						Support reads
						2/70
					
						Tissues
						leaf and panicle/root
					
						Exon boundary  
						
							No-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
						NA

General Information
CircRNA Name	Os05g0595300_circ_ag.4
ID in PlantcircBase	osa_circ_029241
Alias	Os05circ21228/Os_ciR620
Organism	Oryza sativa
Position	chr5: 29659385-29662014 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ag-circRNA
Identification method	SMALT, Segemehl, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os05g0595300_circ_ag.1 Os05g0595300_circ_g.2 Os05g0595300_circ_g.3 Os05g0595300_circ_g.5 Os05g0595450_circ_g.1
Support reads	2/70
Tissues	leaf and panicle/root
Exon boundary	No-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	NA

			
						 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  
						
							CATGATAGTGCTTCTGAGCAAATTCTTTGGATGGAACCACCAGCTTGATGGCAACAAGCTTGAA
TCCTTTTCTTTCAAATCGGGACAGTATCTCAGAAATgatgctagttgtctttccaacagaatct
tggagctagcacccctcgacccgggaactcaggaaacgctcaattagcatcttgcgagaggctt
gtaaccat

									
								

					

						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: 192
Transcript exons: 29659385-29659427,29661866-29662014
GATGCTAGTTGTCTTTCCAACAGAATCTTGGAGCTAGCACCCCGAGCTAAGGAAGTCACACAAT
CCATTGAAGAAAGGTCTGTCTTTCAAATCATGATAGTGCTTCTGAGCAAATTCTTTGGATGGAA
CCACCAGCTTGATGGCAACAAGCTTGAATCCTTTTCTTTCAAATCGGGACAGTATCTCAGAAAT
Transcript length: 225
Transcript exons: 29659385-29659501,29661907-29662014
GATGCTAGTTGTCTTTCCAACAGAATCTTGGAGCTAGCACCCCTCGACCCGGGAACTCAGGAAA
CGCTCAATTAGCATCTTGCGAGAGGCTTGTAACCATCAGTGACCTGAAATCTGTTTCAAATCAT
GATAGTGCTTCTGAGCAAATTCTTTGGATGGAACCACCAGCTTGATGGCAACAAGCTTGAATCC
TTTTCTTTCAAATCGGGACAGTATCTCAGAAAT
Transcript length: 257
Transcript exons: 29659385-29659495,29661869-29662014
GATGCTAGTTGTCTTTCCAACAGAATCTTGGAGCTAGCACCCCTCGACCCGGGAACTCAGGAAA
CGCTCAATTAGCATCTTGCGAGAGGCTTGTAACCATCAGTGACCTGACTAAGGAAGTCACACAA
TCCATTGAAGAAAGGTCTGTCTTTCAAATCATGATAGTGCTTCTGAGCAAATTCTTTGGATGGA
ACCACCAGCTTGATGGCAACAAGCTTGAATCCTTTTCTTTCAAATCGGGACAGTATCTCAGAAA
T
Transcript length: 340
Transcript exons: 29659385-29659450,29661025-29661080,29661168-29661232,29
661862-29662014
GATGCTAGTTGTCTTTCCAACAGAATCTTGGAGCTAGCACCCCTCGACCCGGGAACTCAGGAAA
CGATTTACAAAGAGCACATGATGGCATGAAGAAATTCAGGATTTAATTGACAGGTTCTCTTTCT
TCATACGAAGTATATACCAATCAATGATAGGGCTAATGCAAGCAAGATGAAGTATTTACGCCAG
AGCTAAGGAAGTCACACAATCCATTGAAGAAAGGTCTGTCTTTCAAATCATGATAGTGCTTCTG
AGCAAATTCTTTGGATGGAACCACCAGCTTGATGGCAACAAGCTTGAATCCTTTTCTTTCAAAT
CGGGACAGTATCTCAGAAAT
						
					

						Genomic sequence
						
							GATGCTAGTTGTCTTTCCAACAGAATCTTGGAGCTAGCACCCCTCGACCCGGGAACTCAGGAAA
CGCTCAATTAGCATCTTGCGAGAGGCTTGTAACCATCAGTGACCTGAAATCTGAAGAAAGGAAG
CAGAAGCTATCTAGGTACAGAAAGAAGAAGGTGAAGAGAAACTTTGGCAGAAAGATCAAGGTAA
AACTATATATTGTCCTCTTCCTTTTTAATTTTTCAAAGAAAAGAAAAAAGAGAACATAAGGACA
GAGAAGGTACTACTACATGATTAATTAGAGAAGCTGATTGAGGCTGATGAATAATAGTACAAAC
AAGGAGACTGACTGACTGACTGACACTGACTGATGCATCGTTTGGCATGGTTGCAGTATGCTTG
CAGGAAGGCTCTTGCAGACAGCCAGCCAAGAGTGCGAGGGAGGTTTGCCAAGATCGAAGAAGGC
GACTTGCTCAAGCCAAGGAAGTAGTAAGAGGAAGAAACAAATTAAAGTAACTCCTGGAGAGGAC
GAGCTGCCAGTGAAGGAAGGAACCTTGGCTTCTAGAAGCTTCTAGCTGGTGGAGGAGGAGGAGG
AGGAGGAGGAGGAGAGGAAAGGATCCAAGGTGCAAGGCCCAGCCTTTGTGTGTAGGGGGAGGGC
GAGGCCAAGGTGGAAGAGAGGCGCCGTAGTCGCGGCTGCACTTGTCGGAATTAATTTTAGCTGC
TTTGGATCGTCTCCTTCTACTACTAGACTAGTACTTGTAATTCTATTTTCCTTCCAATGCATGT
GTAATAATAATTAGTAATAATGCTAGTAGTCGGTATTACTTGCTGCGAGCTGAAGGCCGCCCAT
CCATGTACAAATGGCTCGATGAAGAAACTTATCACTAGTAGTAATAAACTTCAGCTCCCTTCAG
GCTTCGCACTGGCACTGGAAGGCATCCATTATCTCTCTCATCTCGTGTGTACATCTTCTTCTTC
TTCTCTTGTCACGACGACTCTCGTACAAGTTAAAATGCCGTACTCAATCAACGCCTATGCAATC
TTTAAACTAGTAATACCTCCATCTGTACAAGAAATGGAGCTTCCAAATGCTGCACTATATATCT
TATTATTATGATTAACAACTCCTTTCCTTTCAGTTCGAGAATGCTCCAAATTAGCATCTCGCAC
TCGAGCAAGTCCAAAAATAAGGAGAAGACATCATAAGGCTAAAACAAGCAAGAGACAACATGTA
GTACCATTATATAACAATAACAAAACAAGTGGCATCACCATCCGTTCGACCATTTGAGTGAAGG
TGATGGTCTGATTACTCAGTGCACGCTCTACAATTGAAGGTAGACAATTCTTCTTGAGGCCTCT
TATTTGCGCCAGATCACATGGGCATAACCCCAAATGTCACGATCGCAACTTTATTACACTCTTC
CATGGTGATGTAATTAGGTAAAGTGAGAGAAAATGAAAAAAAAACAAAACAAACAGGGGAGATG
ATTCGCCGGTTAGTTGACCCCGTAGATCCACTTCTCTTCGTTGCTGGTGTAAGAGACCAGCTCC
CTGGGCTCAAACCAGAGACCAATCTCAGCCTTTGCAGTCTCTGGGCCATCGCTTCCATGGATGA
TGTTCCTGATGTTGGAATTGATGGAACGTCAGTTAGAAAGATTTACAAAGAGCACATGATGGCA
TGAAGAAATTCAGGATTTAATTGACAGGTTCTCTACATCTGTATATATGGATGGAAAACAAAAT
GGATGTTGGGTAATATCAGATTACAATATCAGGCAATAGAGATGGATGCAGTGCCCTTTCTTCA
TACGAAGTATATACCAATCAATGATAGGGCTAATGCAAGCAAGATGAAGTATTTACCTGCCAAC
AACAACAGCAAGGTCACCCCTGATGGTTCCTGGTTCAGACTTCTGTGGGTCTGTAGCACCAATC
AGTTTTCTCCCGTACTTGATAACACCCTCTCCTTCCCAAACCTGTATAATTGTGGAAGCAATTC
GTGTATTGTTACCCAGCAGCACAGGGCATAGTATAAAATGTACTAGGTGATTCCCCGCACTTTG
CTACGGGAATTACTAAGTAATTTTCAATATATATTTTTTTCGTTAGAATCAAGCTAGGGGTAAA
AAGAGAACAAATGAAATATCAGAGCTTATCAATATTTTTCATGAAACAAACGAATGAAACACGT
GCTTTAATGTGGAACATATTGATAAGTTTTGTTAAATATTATAAAAATGATAGATAGATTTGTA
AAAATATTGTGAAAATGATGTGAGGGGTGATGATTGGATATGTTTGCATGTTGATTTGTTGAAT
TAAATAGATTGTAGATAATGCTGCATACTTGCATGAGGTTGAATATGTAATTATTGCTAGTGGG
TGATGATGTGGCATGGTTGCATGTTAAGGTTTAGAGTTAGTGGGTTATAAGTTTATAGAAAGTA
TAGATTTGCAGGGATGAAGCATCAGTTTACCATGGCAAGCACAGGGCCAGAGCTAAGGAAGTCA
CACAATCCATTGAAGAAAGGTCTGTCTTTCAAATCATGATAGTGCTTCTGAGCAAATTCTTTGG
ATGGAACCACCAGCTTGATGGCAACAAGCTTGAATCCTTTTCTTTCAAATCGGGACAGTATCTC
AGAAAT
						
					

			
		

Sequences
Splice junction sequence	CATGATAGTGCTTCTGAGCAAATTCTTTGGATGGAACCACCAGCTTGATGGCAACAAGCTTGAA TCCTTTTCTTTCAAATCGGGACAGTATCTCAGAAATgatgctagttgtctttccaacagaatct tggagctagcacccctcgacccgggaactcaggaaacgctcaattagcatcttgcgagaggctt gtaaccat
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: 192 Transcript exons: 29659385-29659427,29661866-29662014 GATGCTAGTTGTCTTTCCAACAGAATCTTGGAGCTAGCACCCCGAGCTAAGGAAGTCACACAAT CCATTGAAGAAAGGTCTGTCTTTCAAATCATGATAGTGCTTCTGAGCAAATTCTTTGGATGGAA CCACCAGCTTGATGGCAACAAGCTTGAATCCTTTTCTTTCAAATCGGGACAGTATCTCAGAAAT Transcript length: 225 Transcript exons: 29659385-29659501,29661907-29662014 GATGCTAGTTGTCTTTCCAACAGAATCTTGGAGCTAGCACCCCTCGACCCGGGAACTCAGGAAA CGCTCAATTAGCATCTTGCGAGAGGCTTGTAACCATCAGTGACCTGAAATCTGTTTCAAATCAT GATAGTGCTTCTGAGCAAATTCTTTGGATGGAACCACCAGCTTGATGGCAACAAGCTTGAATCC TTTTCTTTCAAATCGGGACAGTATCTCAGAAAT Transcript length: 257 Transcript exons: 29659385-29659495,29661869-29662014 GATGCTAGTTGTCTTTCCAACAGAATCTTGGAGCTAGCACCCCTCGACCCGGGAACTCAGGAAA CGCTCAATTAGCATCTTGCGAGAGGCTTGTAACCATCAGTGACCTGACTAAGGAAGTCACACAA TCCATTGAAGAAAGGTCTGTCTTTCAAATCATGATAGTGCTTCTGAGCAAATTCTTTGGATGGA ACCACCAGCTTGATGGCAACAAGCTTGAATCCTTTTCTTTCAAATCGGGACAGTATCTCAGAAA T Transcript length: 340 Transcript exons: 29659385-29659450,29661025-29661080,29661168-29661232,29 661862-29662014 GATGCTAGTTGTCTTTCCAACAGAATCTTGGAGCTAGCACCCCTCGACCCGGGAACTCAGGAAA CGATTTACAAAGAGCACATGATGGCATGAAGAAATTCAGGATTTAATTGACAGGTTCTCTTTCT TCATACGAAGTATATACCAATCAATGATAGGGCTAATGCAAGCAAGATGAAGTATTTACGCCAG AGCTAAGGAAGTCACACAATCCATTGAAGAAAGGTCTGTCTTTCAAATCATGATAGTGCTTCTG AGCAAATTCTTTGGATGGAACCACCAGCTTGATGGCAACAAGCTTGAATCCTTTTCTTTCAAAT CGGGACAGTATCTCAGAAAT
Genomic sequence	GATGCTAGTTGTCTTTCCAACAGAATCTTGGAGCTAGCACCCCTCGACCCGGGAACTCAGGAAA CGCTCAATTAGCATCTTGCGAGAGGCTTGTAACCATCAGTGACCTGAAATCTGAAGAAAGGAAG CAGAAGCTATCTAGGTACAGAAAGAAGAAGGTGAAGAGAAACTTTGGCAGAAAGATCAAGGTAA AACTATATATTGTCCTCTTCCTTTTTAATTTTTCAAAGAAAAGAAAAAAGAGAACATAAGGACA GAGAAGGTACTACTACATGATTAATTAGAGAAGCTGATTGAGGCTGATGAATAATAGTACAAAC AAGGAGACTGACTGACTGACTGACACTGACTGATGCATCGTTTGGCATGGTTGCAGTATGCTTG CAGGAAGGCTCTTGCAGACAGCCAGCCAAGAGTGCGAGGGAGGTTTGCCAAGATCGAAGAAGGC GACTTGCTCAAGCCAAGGAAGTAGTAAGAGGAAGAAACAAATTAAAGTAACTCCTGGAGAGGAC GAGCTGCCAGTGAAGGAAGGAACCTTGGCTTCTAGAAGCTTCTAGCTGGTGGAGGAGGAGGAGG AGGAGGAGGAGGAGAGGAAAGGATCCAAGGTGCAAGGCCCAGCCTTTGTGTGTAGGGGGAGGGC GAGGCCAAGGTGGAAGAGAGGCGCCGTAGTCGCGGCTGCACTTGTCGGAATTAATTTTAGCTGC TTTGGATCGTCTCCTTCTACTACTAGACTAGTACTTGTAATTCTATTTTCCTTCCAATGCATGT GTAATAATAATTAGTAATAATGCTAGTAGTCGGTATTACTTGCTGCGAGCTGAAGGCCGCCCAT CCATGTACAAATGGCTCGATGAAGAAACTTATCACTAGTAGTAATAAACTTCAGCTCCCTTCAG GCTTCGCACTGGCACTGGAAGGCATCCATTATCTCTCTCATCTCGTGTGTACATCTTCTTCTTC TTCTCTTGTCACGACGACTCTCGTACAAGTTAAAATGCCGTACTCAATCAACGCCTATGCAATC TTTAAACTAGTAATACCTCCATCTGTACAAGAAATGGAGCTTCCAAATGCTGCACTATATATCT TATTATTATGATTAACAACTCCTTTCCTTTCAGTTCGAGAATGCTCCAAATTAGCATCTCGCAC TCGAGCAAGTCCAAAAATAAGGAGAAGACATCATAAGGCTAAAACAAGCAAGAGACAACATGTA GTACCATTATATAACAATAACAAAACAAGTGGCATCACCATCCGTTCGACCATTTGAGTGAAGG TGATGGTCTGATTACTCAGTGCACGCTCTACAATTGAAGGTAGACAATTCTTCTTGAGGCCTCT TATTTGCGCCAGATCACATGGGCATAACCCCAAATGTCACGATCGCAACTTTATTACACTCTTC CATGGTGATGTAATTAGGTAAAGTGAGAGAAAATGAAAAAAAAACAAAACAAACAGGGGAGATG ATTCGCCGGTTAGTTGACCCCGTAGATCCACTTCTCTTCGTTGCTGGTGTAAGAGACCAGCTCC CTGGGCTCAAACCAGAGACCAATCTCAGCCTTTGCAGTCTCTGGGCCATCGCTTCCATGGATGA TGTTCCTGATGTTGGAATTGATGGAACGTCAGTTAGAAAGATTTACAAAGAGCACATGATGGCA TGAAGAAATTCAGGATTTAATTGACAGGTTCTCTACATCTGTATATATGGATGGAAAACAAAAT GGATGTTGGGTAATATCAGATTACAATATCAGGCAATAGAGATGGATGCAGTGCCCTTTCTTCA TACGAAGTATATACCAATCAATGATAGGGCTAATGCAAGCAAGATGAAGTATTTACCTGCCAAC AACAACAGCAAGGTCACCCCTGATGGTTCCTGGTTCAGACTTCTGTGGGTCTGTAGCACCAATC AGTTTTCTCCCGTACTTGATAACACCCTCTCCTTCCCAAACCTGTATAATTGTGGAAGCAATTC GTGTATTGTTACCCAGCAGCACAGGGCATAGTATAAAATGTACTAGGTGATTCCCCGCACTTTG CTACGGGAATTACTAAGTAATTTTCAATATATATTTTTTTCGTTAGAATCAAGCTAGGGGTAAA AAGAGAACAAATGAAATATCAGAGCTTATCAATATTTTTCATGAAACAAACGAATGAAACACGT GCTTTAATGTGGAACATATTGATAAGTTTTGTTAAATATTATAAAAATGATAGATAGATTTGTA AAAATATTGTGAAAATGATGTGAGGGGTGATGATTGGATATGTTTGCATGTTGATTTGTTGAAT TAAATAGATTGTAGATAATGCTGCATACTTGCATGAGGTTGAATATGTAATTATTGCTAGTGGG TGATGATGTGGCATGGTTGCATGTTAAGGTTTAGAGTTAGTGGGTTATAAGTTTATAGAAAGTA TAGATTTGCAGGGATGAAGCATCAGTTTACCATGGCAAGCACAGGGCCAGAGCTAAGGAAGTCA CACAATCCATTGAAGAAAGGTCTGTCTTTCAAATCATGATAGTGCTTCTGAGCAAATTCTTTGG ATGGAACCACCAGCTTGATGGCAACAAGCTTGAATCCTTTTCTTTCAAATCGGGACAGTATCTC AGAAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006441* 						
					
						PMCS
						0.470937123

Conservation Information
Conserved circRNAs	osi_circ_006441*
PMCS	0.470937123

			
						 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 Os05g0595300_circ_ag.4

Address

Any questions?

Supported by