Plant Circular RNA Database

Detail information of Os01g0506200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os01g0506200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_001866
					
						Alias
						Os_ciR5780
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 17617033-17620495  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0506200						
					
						Parent gene annotation
						
							Tetratricopeptide-like helical domain containing protein. (Os01t
0506200-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0506200_circ_g.1 Os01g0506200_circ_g.2 Os01g0506200_circ_g.4 Os01g0506200_circ_g.5 Os01g0506200_circ_g.6 Os01g0506200_circ_g.7 Os01g0506200_circ_g.8 						
					
						Support reads
						2/2
					
						Tissues
						root/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
						Os01t0506200-01:5

General Information
CircRNA Name	Os01g0506200_circ_g.3
ID in PlantcircBase	osa_circ_001866
Alias	Os_ciR5780
Organism	Oryza sativa
Position	chr1: 17617033-17620495 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0506200
Parent gene annotation	Tetratricopeptide-like helical domain containing protein. (Os01t 0506200-01)
Parent gene strand	-
Alternative splicing	Os01g0506200_circ_g.1 Os01g0506200_circ_g.2 Os01g0506200_circ_g.4 Os01g0506200_circ_g.5 Os01g0506200_circ_g.6 Os01g0506200_circ_g.7 Os01g0506200_circ_g.8
Support reads	2/2
Tissues	root/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	Os01t0506200-01:5

			
						 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  
						
							CTTACAGCATTTTGATAGGCTTTGACTGAATGATGAAGCTTCATGTGATCCCAGGATCCACTCA
CGAAAAAGCTTGTCAGATATGCATTACCCAGATTATattggagcaatgttgtcgtgtcttatca
aaagaatgactttccccaacacagcaactgtcttgttcaaaccctctgataggatgcctatggt
tgctttct

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							ATTGGAGCAATGTTGTCGTGTCTTATCAAAAGAATGACTTTCCCCAACACAGCAACTGTCTTGT
TCAAACCCTCTGATAGGATGCCTATGGTTGCTTTCTTGTGAGATGATTTTACTAGAGAGAATAA
AGGAGAAAACGTATAAAAACCAACAGGAGTACAAAAGAAATCTTATACAGGCTTGAATATATGC
CAAGTGACAGTGAAAGTATTACTGTTGACTTCACTCAAAGAAGACACTGATGATGCTAATCTCT
TGGATCGTAATTGTCCCTGTGGAAGAAATTATTCATAAGTACAAATAAATAAGAAAATAAGTTA
TTCCAAAACAAATCATTGTCAATTCATGACAAATGAAACTTGAAGCCTTTTATGCAGGCAAAAA
CAACTTGAACTTCAGAATGGTTTTATGATTATGTGTGGCACCATGCAGGAATTACTGTTCACGC
TTGTGAACAGTAAGCGCGGAACTCTAGCATCTAGTTGCGTTAGGAGACAATTTGCTTGAGTTAG
CAGTTTGATTGGAGATGAGATTTTTGGGTTGTTTAAGTTATGTGTTAGCATATTCGAGTTAAAT
CTATCCCTTTCTTATTAAAGATATGTTATTAGACCATAAACGGCTAAATCACTACAAAGAACAA
GACACATCTACCATTCACATCAACCAAAGTTTCTACCTGAAGTTCATCATTCCAATCTATAATG
TTCTCTCTTCTGTTCAACCAACGCCGCTTGCTTGTCTTCTCAGCAATATTTTATTTACCCAATG
AACTAAAGGTTTATTAGTCGCAGTCTAGCATATTTCGTAAAAGTAACTCCATAGATCGCTATAG
TTATGAAAAAAGATGTATTCTATTTTGTGTTATTTTGCTTTGTTTTGCCAAGTTGCATGAATAT
GGACAACATAAAGTTCTTATATTCATGGTTGGTAAGTAGGAAGCCTCTTTGATTTAGAATAAGA
TAAAATGCGAGTTCAAAAGGTTAAGATGGAAGAATTTTCATCTGTTTATGTTAAACTCTGGTCT
ACATGCCATAGTTACATACTCCCTCCGTCCCATAATAAGCGCAGTTCTATCCGTCTTATTTGAA
ATATTTTTATGATTAGTATTTTTATTGTTATTAGATGATAAAATATGAATAGTACTTTATGCGT
GACTTAACTTTTCAATTTTTTTCATAAATTTTTCAAATAAGATGGACAGTCAAACGTTGGGCAC
GGAAACTTATGGCTGCACTTATAATGGGACGGAGGGAGTAGAAGATACCTTCATTGCACTATCT
AGCTTATCAAGGAGACTGATGATCTTCTGAACTTCTGTATCAGCACCAAGACCAGGATCTTTTA
AAGCTGCAGCTTCAAATCCACGAAGTGCTCTTTCATAGTTCTCTAGGTATTTGTCAGCCTGGAA
GGAACCAAAACAAATAACATATTACACAAAAGGATGTCCTATACTTGGCGGAAAATTCAGTTGA
TTTAGCTACCCAGTTTAAGTTATGATCCGGGTTACTCACTGTGGCACAATTATAGTAGAGGTCT
GGATTACATTTCGTAGTCTCATCCTTTTCCTGAGCATAAAATGAATTCAATTATATTCATATAA
TAAAACAAACAAGGCCACCCAACACACGCCCACCCAAAATCAGGAGGTGGGGGTGGGGATGGGG
GTGGGGGTGAGGGGGGTCAACTCTAGCACCCATTACCTAACCGTTCGCTTTGCAGACTCTAATT
AGTAACTACTCCCTCCATCCGAAAATAATAATAGGGAAAATTGATTATAGAGCACCAAAAGTTT
CTGTTTTTGGTTTTATAGCACCAAAAGGTTCCGGTTCATTTTAGTAGCATTGCAAGTTACCTCC
GTTACTGATTTTGGCACTATCCAAATTGACGTTATCTCCCCCACCTTGCCCCGTCTATCTTCTT
CATCCTCCCCAAAAGGTGAGTTCCATTCCATGGCACAGCTGTAGAGACGAGCAGGAGGGGCGCA
GCACTTCGTCAAGCTCGAGTGCAGTGCAAGCAGACGAGATCTGGGGTGCCAGTGGACATCATCA
CAAGCTGCAGGACGCACGTTCAGCTGTCCAGGTGAGCTCATGTATGGTCGTGCATCCAGTCTAG
CTTGTGGACTTGTGGTTCAGCAACATTGTTCTGCCTGTATGATACCCACCCTGCTATACTTCAG
TTTGTGCACATTTTTTATCCATGAAATTGGGATTGGCTAACAAGGCAAGAGGATTGATGTTGGA
ACAGCGTTCATCAGCAAGTTCCAGTCTTCCAGAGATGAAGTACTAGCTTGTGTATGGCGTGGTG
ATGGTGCAGGGACGACCGGAAGACAGGCTCGAGGGTGTTGGCTTTTGGGCCAGCTTTAGTGGCT
GATGTCCAAGGCGAGCTTGAGGCCTCAAGGGAGATCAGGAATGGAACAGGTGGGACGGCCAGCG
CCTGTGCGAGGCCTGAGATGGGGAGAAGGATTGAAGAGGAAGATGGTATATTGGTATATTGCAA
AAATAATAGAAAGAAAAAGAAAACTAACAGAAGTTTGGATGGAGTGCTAAAATCAGTAACGGAG
GTAAACTTTCAATGCTATTAAAGTGAACCGGAACCTTTCGATGCTATAAAACCAAAAACAAAAA
CTTTCGGTGCTCTATAACCAATTTTGCCATAATAAAACCTAGGACTAGATGGGGCATTTGCTAG
TACTAGATACATTGTACTAGGAAACGTCACATCCGGTCCTAGATTCTTATATTTTGGGACTGAG
GTAAGTATCAAACTGGTACATAATGATCATCTAGGGTCAAATCTTAAACATGCCACCTAGACGT
TGGTAACGTTAAGTATTAGGAACCCTTGGAATTGCAATGGGACAACGTGCATACAAGTCACCAT
ACAAATACGCAGAAGAGCCCATTAGAATAGGGTAAATACACAACTAGCTATAAGATACATCTAG
CAGTTTGCACTTTGCCCAGCCAAATCACTCTCTTCCCAGGGTACCCCTTCCTTTCTTTCTCTTG
CATGACTAGTGGACCACATCAGGTTTATTTGGCAAACTGATCTTAGCAAACTCAGGTACCATAT
CTAAATGGACGCCGGGTAAACGAAATACGAAAGAATAAATGCATCTTCAGCTTGCCAAAGCGAT
TTTTGGCATGGAATTGATTGTCACTGGTTTTAACTGTTGGAAGGTGCAAATTCAACAGTTTGAG
TTGAGAAGTGTTTTCTGGACTCACACGAAAGTAGAAGGGGAGTAGAATGGACTCCTGAATAAAA
AATTGGAAGCTTTACACAAAAAAGTGGAAATCTTTCAGAGAATATATCTTACTTTCATGAATGA
AATTATCAAACCAACAGAAGTATGAAATGCACAAACTTACAGCATTTTGATAGGCTTTGACTGA
ATGATGAAGCTTCATGTGATCCCAGGATCCACTCACGAAAAAGCTTGTCAGATATGCATTACCC
AGATTAT
						
					

			
		

Sequences
Splice junction sequence	CTTACAGCATTTTGATAGGCTTTGACTGAATGATGAAGCTTCATGTGATCCCAGGATCCACTCA CGAAAAAGCTTGTCAGATATGCATTACCCAGATTATattggagcaatgttgtcgtgtcttatca aaagaatgactttccccaacacagcaactgtcttgttcaaaccctctgataggatgcctatggt tgctttct
Assembled circRNA sequence	NA 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	NA
Genomic sequence	ATTGGAGCAATGTTGTCGTGTCTTATCAAAAGAATGACTTTCCCCAACACAGCAACTGTCTTGT TCAAACCCTCTGATAGGATGCCTATGGTTGCTTTCTTGTGAGATGATTTTACTAGAGAGAATAA AGGAGAAAACGTATAAAAACCAACAGGAGTACAAAAGAAATCTTATACAGGCTTGAATATATGC CAAGTGACAGTGAAAGTATTACTGTTGACTTCACTCAAAGAAGACACTGATGATGCTAATCTCT TGGATCGTAATTGTCCCTGTGGAAGAAATTATTCATAAGTACAAATAAATAAGAAAATAAGTTA TTCCAAAACAAATCATTGTCAATTCATGACAAATGAAACTTGAAGCCTTTTATGCAGGCAAAAA CAACTTGAACTTCAGAATGGTTTTATGATTATGTGTGGCACCATGCAGGAATTACTGTTCACGC TTGTGAACAGTAAGCGCGGAACTCTAGCATCTAGTTGCGTTAGGAGACAATTTGCTTGAGTTAG CAGTTTGATTGGAGATGAGATTTTTGGGTTGTTTAAGTTATGTGTTAGCATATTCGAGTTAAAT CTATCCCTTTCTTATTAAAGATATGTTATTAGACCATAAACGGCTAAATCACTACAAAGAACAA GACACATCTACCATTCACATCAACCAAAGTTTCTACCTGAAGTTCATCATTCCAATCTATAATG TTCTCTCTTCTGTTCAACCAACGCCGCTTGCTTGTCTTCTCAGCAATATTTTATTTACCCAATG AACTAAAGGTTTATTAGTCGCAGTCTAGCATATTTCGTAAAAGTAACTCCATAGATCGCTATAG TTATGAAAAAAGATGTATTCTATTTTGTGTTATTTTGCTTTGTTTTGCCAAGTTGCATGAATAT GGACAACATAAAGTTCTTATATTCATGGTTGGTAAGTAGGAAGCCTCTTTGATTTAGAATAAGA TAAAATGCGAGTTCAAAAGGTTAAGATGGAAGAATTTTCATCTGTTTATGTTAAACTCTGGTCT ACATGCCATAGTTACATACTCCCTCCGTCCCATAATAAGCGCAGTTCTATCCGTCTTATTTGAA ATATTTTTATGATTAGTATTTTTATTGTTATTAGATGATAAAATATGAATAGTACTTTATGCGT GACTTAACTTTTCAATTTTTTTCATAAATTTTTCAAATAAGATGGACAGTCAAACGTTGGGCAC GGAAACTTATGGCTGCACTTATAATGGGACGGAGGGAGTAGAAGATACCTTCATTGCACTATCT AGCTTATCAAGGAGACTGATGATCTTCTGAACTTCTGTATCAGCACCAAGACCAGGATCTTTTA AAGCTGCAGCTTCAAATCCACGAAGTGCTCTTTCATAGTTCTCTAGGTATTTGTCAGCCTGGAA GGAACCAAAACAAATAACATATTACACAAAAGGATGTCCTATACTTGGCGGAAAATTCAGTTGA TTTAGCTACCCAGTTTAAGTTATGATCCGGGTTACTCACTGTGGCACAATTATAGTAGAGGTCT GGATTACATTTCGTAGTCTCATCCTTTTCCTGAGCATAAAATGAATTCAATTATATTCATATAA TAAAACAAACAAGGCCACCCAACACACGCCCACCCAAAATCAGGAGGTGGGGGTGGGGATGGGG GTGGGGGTGAGGGGGGTCAACTCTAGCACCCATTACCTAACCGTTCGCTTTGCAGACTCTAATT AGTAACTACTCCCTCCATCCGAAAATAATAATAGGGAAAATTGATTATAGAGCACCAAAAGTTT CTGTTTTTGGTTTTATAGCACCAAAAGGTTCCGGTTCATTTTAGTAGCATTGCAAGTTACCTCC GTTACTGATTTTGGCACTATCCAAATTGACGTTATCTCCCCCACCTTGCCCCGTCTATCTTCTT CATCCTCCCCAAAAGGTGAGTTCCATTCCATGGCACAGCTGTAGAGACGAGCAGGAGGGGCGCA GCACTTCGTCAAGCTCGAGTGCAGTGCAAGCAGACGAGATCTGGGGTGCCAGTGGACATCATCA CAAGCTGCAGGACGCACGTTCAGCTGTCCAGGTGAGCTCATGTATGGTCGTGCATCCAGTCTAG CTTGTGGACTTGTGGTTCAGCAACATTGTTCTGCCTGTATGATACCCACCCTGCTATACTTCAG TTTGTGCACATTTTTTATCCATGAAATTGGGATTGGCTAACAAGGCAAGAGGATTGATGTTGGA ACAGCGTTCATCAGCAAGTTCCAGTCTTCCAGAGATGAAGTACTAGCTTGTGTATGGCGTGGTG ATGGTGCAGGGACGACCGGAAGACAGGCTCGAGGGTGTTGGCTTTTGGGCCAGCTTTAGTGGCT GATGTCCAAGGCGAGCTTGAGGCCTCAAGGGAGATCAGGAATGGAACAGGTGGGACGGCCAGCG CCTGTGCGAGGCCTGAGATGGGGAGAAGGATTGAAGAGGAAGATGGTATATTGGTATATTGCAA AAATAATAGAAAGAAAAAGAAAACTAACAGAAGTTTGGATGGAGTGCTAAAATCAGTAACGGAG GTAAACTTTCAATGCTATTAAAGTGAACCGGAACCTTTCGATGCTATAAAACCAAAAACAAAAA CTTTCGGTGCTCTATAACCAATTTTGCCATAATAAAACCTAGGACTAGATGGGGCATTTGCTAG TACTAGATACATTGTACTAGGAAACGTCACATCCGGTCCTAGATTCTTATATTTTGGGACTGAG GTAAGTATCAAACTGGTACATAATGATCATCTAGGGTCAAATCTTAAACATGCCACCTAGACGT TGGTAACGTTAAGTATTAGGAACCCTTGGAATTGCAATGGGACAACGTGCATACAAGTCACCAT ACAAATACGCAGAAGAGCCCATTAGAATAGGGTAAATACACAACTAGCTATAAGATACATCTAG CAGTTTGCACTTTGCCCAGCCAAATCACTCTCTTCCCAGGGTACCCCTTCCTTTCTTTCTCTTG CATGACTAGTGGACCACATCAGGTTTATTTGGCAAACTGATCTTAGCAAACTCAGGTACCATAT CTAAATGGACGCCGGGTAAACGAAATACGAAAGAATAAATGCATCTTCAGCTTGCCAAAGCGAT TTTTGGCATGGAATTGATTGTCACTGGTTTTAACTGTTGGAAGGTGCAAATTCAACAGTTTGAG TTGAGAAGTGTTTTCTGGACTCACACGAAAGTAGAAGGGGAGTAGAATGGACTCCTGAATAAAA AATTGGAAGCTTTACACAAAAAAGTGGAAATCTTTCAGAGAATATATCTTACTTTCATGAATGA AATTATCAAACCAACAGAAGTATGAAATGCACAAACTTACAGCATTTTGATAGGCTTTGACTGA ATGATGAAGCTTCATGTGATCCCAGGATCCACTCACGAAAAAGCTTGTCAGATATGCATTACCC AGATTAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_009538 						
					
						PMCS
						0.206626292

Conservation Information
Conserved circRNAs	osi_circ_009538
PMCS	0.206626292

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17620479-17617134(+)
17620426-17617066(+)
17620441-17620494(-)
						
						Potential amino acid sequence
						
							MHYPDYIGAMLSCLIKRMTFPNTATVLFKPSDRMPMVAFL*(+)
MMKLHVIPGSTHEKACQICITQIILEQCCRVLSKE*(+)
MKLHHSVKAYQNAEKDETTKCNPDLYYNCATADKYLENYERALRGFEAAALKDPGLGADTEVQK
IISLLDKLDSAMKGQLRSKRLASSVSSLSEVNIKSSHKKATIGILSEGLNKTVAVLGKVILLIR
HDNIAPI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	17620479-17617134(+) 17620426-17617066(+) 17620441-17620494(-)
Potential amino acid sequence	MHYPDYIGAMLSCLIKRMTFPNTATVLFKPSDRMPMVAFL(+) MMKLHVIPGSTHEKACQICITQIILEQCCRVLSKE(+) MKLHHSVKAYQNAEKDETTKCNPDLYYNCATADKYLENYERALRGFEAAALKDPGLGADTEVQK IISLLDKLDSAMKGQLRSKRLASSVSSLSEVNIKSSHKKATIGILSEGLNKTVAVLGKVILLIR HDNIAPI*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os01g0506200_circ_g.3

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