Plant Circular RNA Database

Detail information of Os05g0162350_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os05g0162350_circ_g.3
					
						ID in PlantcircBase
						osa_circ_026752
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 3653767-3656025  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0162350						
					
						Parent gene annotation
						
							Hypothetical protein. (Os05t0162350-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0162350_circ_g.1 Os05g0162350_circ_g.2 Os05g0162350_circ_g.4 Os05g0162350_circ_g.5 Os05g0162350_circ_g.6 Os05g0162350_circ_g.7 Os05g0162350_circ_g.8 Os05g0162350_circ_g.9 Os05g0162350_circ_g.10 Os05g0162350_circ_g.11 Os05g0162350_circ_g.12 Os05g0162350_circ_g.13 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os05t0162200-02:7
Os05t0162200-01:7
Os05t0162200-02:7
Os05t0162350-00:6
Os05t0162200-01:7

General Information
CircRNA Name	Os05g0162350_circ_g.3
ID in PlantcircBase	osa_circ_026752
Alias	NA
Organism	Oryza sativa
Position	chr5: 3653767-3656025 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ui-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0162350
Parent gene annotation	Hypothetical protein. (Os05t0162350-00)
Parent gene strand	+
Alternative splicing	Os05g0162350_circ_g.1 Os05g0162350_circ_g.2 Os05g0162350_circ_g.4 Os05g0162350_circ_g.5 Os05g0162350_circ_g.6 Os05g0162350_circ_g.7 Os05g0162350_circ_g.8 Os05g0162350_circ_g.9 Os05g0162350_circ_g.10 Os05g0162350_circ_g.11 Os05g0162350_circ_g.12 Os05g0162350_circ_g.13
Support reads	1
Tissues	shoot
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	Os05t0162200-02:7 Os05t0162200-01:7 Os05t0162200-02:7 Os05t0162350-00:6 Os05t0162200-01:7

			
						 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  
						
							CATTCCACATATACAACAGGCTAGCAGTTGTACCTTCTCAACTGTGCTCACTTCATTCTCCTTC
TTAACACGGAAGTTCAGAGCATCTTCTTTCTGGCGCcttcttttcagtttccaaatattcctct
tcaaggcttattcgtgggtttgtcttctcggatgcttcatcatcttcatcttgttttgtctctt
ccctataa

									
								

					

						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: 601
Transcript exons: 3653767-3653860,3653942-3654009,3654089-3654155,3654319-
3654449,3654540-3654647,3655386-3655451,3655959-3656025
CTTCTTTTCAGTTTCCAAATATTCCTCTTCAAGGCTTATTCGTGGGTTTGTCTTCTCGGATGCT
TCATCATCTTCATCTTGTTTTGTCTCTTCCCTTGAGTTCAAGACCACCAAGTTATCCACATATG
TTCGGATACTCTCAATTGACGGGCTTAGGACCTCCTTGAAGACTGAAAGGTGATGTTTGGTCAA
CTTCAGAAAACTACTCACACATCTCTCCAACTCATCACATGTTTTCTTTTCCTTCTGTTCATTA
TATGTTGACTGGAGCTGCCAGGTATCCTCGAGGAAATTGATCCAGGTCTTGACTACATTGGCTT
CCACATTACATGACGCGATAGATTTTGAGAGGTCGTCCTCCTTTGTTTTTAATTTAAATATAAT
TTGATTGTTTGCTTCATCAAATTGGTCCCTCTCTTCCCTGGTTTTCTTGAGGCGTCCAGCAGCA
GCATTTAGTGATATATTGACCTTTTTCAGCTGAGCCTCAAGTTCATCTCTCTGCTTCTCCAATT
CAGCAATCTCATCAAGCACCTCCTTCTCAACTGTGCTCACTTCATTCTCCTTCTTAACACGGAA
GTTCAGAGCATCTTCTTTCTGGCGC
						
					

						Genomic sequence
						
							CTTCTTTTCAGTTTCCAAATATTCCTCTTCAAGGCTTATTCGTGGGTTTGTCTTCTCGGATGCT
TCATCATCTTCATCTTGTTTTGTCTCTTCCCTATAAGACAAATCCAACCCTTATCTATTAAGAC
AATATGACATAATAGGTACCTTGAATAAGAGAGAGAAACTGAAGTACCTTGAGTTCAAGACCAC
CAAGTTATCCACATATGTTCGGATACTCTCAATTGACGGGCTTAGGACCTCCTGGTATATACAA
AATTCACAGATGAGACACAATGAAATAGAGACGTGTGTGGTACTACAGTAGACAAGAATGACTT
ACCTTGAAGACTGAAAGGTGATGTTTGGTCAACTTCAGAAAACTACTCACACATCTCTCCAACT
CATCACTGAGAAGGTCACGACAAATTACAAAAGGATAAAACAGGTCAGCACCTAAGTTCACTAG
ATTGGATAGTGTAGCAGTTCTCTAGCCTCTTTCAAATGGAAGGAAAACTACAAATAAAATAAGC
AATCAGAGGACTGTATAGCCACAGTTGCGAGCGTAAGTACCATGTTTTCTTTTCCTTCTGTTCA
TTATATGTTGACTGGAGCTGCCAGGTATCCTCGAGGAAATTGATCCAGGTCTTGACTACATTGG
CTTCCACATTACATGACGCGATAGATTTTGAGAGGTCGTCCTCCTAAGTTGATATGGAAAGAAA
AACAAGTCATTTTGAGTAACAAACATATGGGAATAAACAAGTTCTTCAGAAGTATGATGGGAAA
AGCACCTTTGTTTTTAATTTAAATATAATTTGATTGTTTGCTTCATCAAATTGGTCCCTCTCTT
CCCTGGTTTTCTTGAGGCGTCCAGCAGCAGCATTTAGTGATATATTGACCTGCAGTTGAGAAAT
ACTTTTTATAAAAAGAACATAATTCAAACAACTGTCGTGAAAACGGTATTCTAAATTCAAATAG
AACATAGTATGAGGTGTCCAGATGGTTAATCTTTTTTTCTAGACTAGAGGGTTTAATGCTTATT
GGTGGATAATAATTCAACCTCCTGTTTGACAACATTCCTACAGTCTAGGATAGTACTTTCTTTC
AGTGAGAATCTTGCAGAGGTTTATTTTAATTCAGCTTCAAATTTCTATTATCTATTTAAGAGAA
TCTCTATGGTCTAACAAAGCTTCCCCTCCCAGACTTCTTTGTCTTGCAGAGAATTTTTATTTTC
TTTTTTTCAATTCTCTTTGTTGGATCTGTTCACTCAGATAATAGGATGATAACGATCAGATCGA
TGTCCAAAACCAAATGAACCATTTTGATCATACTAAGAGATTTTGTGTCTCTGTCACCAATAGG
ATATGCCAGGTCTTGTATAGCAATTTCCATATTGAGAGAAACCTTTTCAAGGCACCATTTACAG
TTCAAGCTTTACTAATGAACCATATTAATAAGATTAATATGTAAGTTAGTTAAACAACTTCCCT
ACCACACCACAATGTGACTGAATTCTGTGGTTCTCCATTGAGAATATAAGATTAGGTAATCCAA
ATTCGGTGCATGCAAGATTAAAAACTACAATGGAGATAAATCACAACATAGCTTCTGGGAATCT
AACGTCAAGGAAAAGGTACCTTTTTCAGCTGAGCCTCAAGTTCATCTCTCTGCTTCTCCAATTC
AGCAATCTCATCAAGCACCTCCTACATCAGGATATAAAAGGAAAAGATAAGATAAGGATTAAAT
AAATAGCAAAATAAGCAGAGTAGAAGCCTAAAAACATATTCATTCCGTACCATATGTATGTAAT
ACATCGAATGATGTGAACAAAATATTAACATAGTACAGTAGAAATGTGTTCCTGGACACCATGT
TAACCATGTAACCACTAATCACCTCCGTATGGCATGTTCAAGGATAAGAAGCTACAGATATAGC
TGGACAAGCACATGCATTGGACATATTGACAGGTAAATAGCGGAAGGGAAATGGCGAATGTGGC
GTGCTTGGCATCCATGAATTCTATGCTGTGCAGGAATTCTATAGGGATTTTGCAGAAAAGCAAA
AGATCCACTTTCACTATGGAAATCCCCCATGAATTCCTATGAGAGCCCTGTGCTCCAAGTGGGA
CAAACATTTTGATTATTTTTTTAATTAAATTTATAAGTTCAACAAGGCATTCCACATATACAAC
AGGCTAGCAGTTGTACCTTCTCAACTGTGCTCACTTCATTCTCCTTCTTAACACGGAAGTTCAG
AGCATCTTCTTTCTGGCGC
						
					

			
		

Sequences
Splice junction sequence	CATTCCACATATACAACAGGCTAGCAGTTGTACCTTCTCAACTGTGCTCACTTCATTCTCCTTC TTAACACGGAAGTTCAGAGCATCTTCTTTCTGGCGCcttcttttcagtttccaaatattcctct tcaaggcttattcgtgggtttgtcttctcggatgcttcatcatcttcatcttgttttgtctctt ccctataa
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: 601 Transcript exons: 3653767-3653860,3653942-3654009,3654089-3654155,3654319- 3654449,3654540-3654647,3655386-3655451,3655959-3656025 CTTCTTTTCAGTTTCCAAATATTCCTCTTCAAGGCTTATTCGTGGGTTTGTCTTCTCGGATGCT TCATCATCTTCATCTTGTTTTGTCTCTTCCCTTGAGTTCAAGACCACCAAGTTATCCACATATG TTCGGATACTCTCAATTGACGGGCTTAGGACCTCCTTGAAGACTGAAAGGTGATGTTTGGTCAA CTTCAGAAAACTACTCACACATCTCTCCAACTCATCACATGTTTTCTTTTCCTTCTGTTCATTA TATGTTGACTGGAGCTGCCAGGTATCCTCGAGGAAATTGATCCAGGTCTTGACTACATTGGCTT CCACATTACATGACGCGATAGATTTTGAGAGGTCGTCCTCCTTTGTTTTTAATTTAAATATAAT TTGATTGTTTGCTTCATCAAATTGGTCCCTCTCTTCCCTGGTTTTCTTGAGGCGTCCAGCAGCA GCATTTAGTGATATATTGACCTTTTTCAGCTGAGCCTCAAGTTCATCTCTCTGCTTCTCCAATT CAGCAATCTCATCAAGCACCTCCTTCTCAACTGTGCTCACTTCATTCTCCTTCTTAACACGGAA GTTCAGAGCATCTTCTTTCTGGCGC
Genomic sequence	CTTCTTTTCAGTTTCCAAATATTCCTCTTCAAGGCTTATTCGTGGGTTTGTCTTCTCGGATGCT TCATCATCTTCATCTTGTTTTGTCTCTTCCCTATAAGACAAATCCAACCCTTATCTATTAAGAC AATATGACATAATAGGTACCTTGAATAAGAGAGAGAAACTGAAGTACCTTGAGTTCAAGACCAC CAAGTTATCCACATATGTTCGGATACTCTCAATTGACGGGCTTAGGACCTCCTGGTATATACAA AATTCACAGATGAGACACAATGAAATAGAGACGTGTGTGGTACTACAGTAGACAAGAATGACTT ACCTTGAAGACTGAAAGGTGATGTTTGGTCAACTTCAGAAAACTACTCACACATCTCTCCAACT CATCACTGAGAAGGTCACGACAAATTACAAAAGGATAAAACAGGTCAGCACCTAAGTTCACTAG ATTGGATAGTGTAGCAGTTCTCTAGCCTCTTTCAAATGGAAGGAAAACTACAAATAAAATAAGC AATCAGAGGACTGTATAGCCACAGTTGCGAGCGTAAGTACCATGTTTTCTTTTCCTTCTGTTCA TTATATGTTGACTGGAGCTGCCAGGTATCCTCGAGGAAATTGATCCAGGTCTTGACTACATTGG CTTCCACATTACATGACGCGATAGATTTTGAGAGGTCGTCCTCCTAAGTTGATATGGAAAGAAA AACAAGTCATTTTGAGTAACAAACATATGGGAATAAACAAGTTCTTCAGAAGTATGATGGGAAA AGCACCTTTGTTTTTAATTTAAATATAATTTGATTGTTTGCTTCATCAAATTGGTCCCTCTCTT CCCTGGTTTTCTTGAGGCGTCCAGCAGCAGCATTTAGTGATATATTGACCTGCAGTTGAGAAAT ACTTTTTATAAAAAGAACATAATTCAAACAACTGTCGTGAAAACGGTATTCTAAATTCAAATAG AACATAGTATGAGGTGTCCAGATGGTTAATCTTTTTTTCTAGACTAGAGGGTTTAATGCTTATT GGTGGATAATAATTCAACCTCCTGTTTGACAACATTCCTACAGTCTAGGATAGTACTTTCTTTC AGTGAGAATCTTGCAGAGGTTTATTTTAATTCAGCTTCAAATTTCTATTATCTATTTAAGAGAA TCTCTATGGTCTAACAAAGCTTCCCCTCCCAGACTTCTTTGTCTTGCAGAGAATTTTTATTTTC TTTTTTTCAATTCTCTTTGTTGGATCTGTTCACTCAGATAATAGGATGATAACGATCAGATCGA TGTCCAAAACCAAATGAACCATTTTGATCATACTAAGAGATTTTGTGTCTCTGTCACCAATAGG ATATGCCAGGTCTTGTATAGCAATTTCCATATTGAGAGAAACCTTTTCAAGGCACCATTTACAG TTCAAGCTTTACTAATGAACCATATTAATAAGATTAATATGTAAGTTAGTTAAACAACTTCCCT ACCACACCACAATGTGACTGAATTCTGTGGTTCTCCATTGAGAATATAAGATTAGGTAATCCAA ATTCGGTGCATGCAAGATTAAAAACTACAATGGAGATAAATCACAACATAGCTTCTGGGAATCT AACGTCAAGGAAAAGGTACCTTTTTCAGCTGAGCCTCAAGTTCATCTCTCTGCTTCTCCAATTC AGCAATCTCATCAAGCACCTCCTACATCAGGATATAAAAGGAAAAGATAAGATAAGGATTAAAT AAATAGCAAAATAAGCAGAGTAGAAGCCTAAAAACATATTCATTCCGTACCATATGTATGTAAT ACATCGAATGATGTGAACAAAATATTAACATAGTACAGTAGAAATGTGTTCCTGGACACCATGT TAACCATGTAACCACTAATCACCTCCGTATGGCATGTTCAAGGATAAGAAGCTACAGATATAGC TGGACAAGCACATGCATTGGACATATTGACAGGTAAATAGCGGAAGGGAAATGGCGAATGTGGC GTGCTTGGCATCCATGAATTCTATGCTGTGCAGGAATTCTATAGGGATTTTGCAGAAAAGCAAA AGATCCACTTTCACTATGGAAATCCCCCATGAATTCCTATGAGAGCCCTGTGCTCCAAGTGGGA CAAACATTTTGATTATTTTTTTAATTAAATTTATAAGTTCAACAAGGCATTCCACATATACAAC AGGCTAGCAGTTGTACCTTCTCAACTGTGCTCACTTCATTCTCCTTCTTAACACGGAAGTTCAG AGCATCTTCTTTCTGGCGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.216329209

Conservation Information
Conserved circRNAs	NA
PMCS	0.216329209

			
						 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
						Chu et al., 2017

circRNA

Detail information of Os05g0162350_circ_g.3

Address

Any questions?

Supported by