Plant Circular RNA Database

Detail information of Os03g0648300_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os03g0648300_circ_g.4
					
						ID in PlantcircBase
						osa_circ_020802
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 25117116-25122918  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0648300						
					
						Parent gene annotation
						
							Similar to Calmodulin binding protein. (Os03t0648300-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0648300_circ_g.1 Os03g0648300_circ_g.2 Os03g0648300_circ_g.3 						
					
						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
						Os03t0648300-01:5

General Information
CircRNA Name	Os03g0648300_circ_g.4
ID in PlantcircBase	osa_circ_020802
Alias	NA
Organism	Oryza sativa
Position	chr3: 25117116-25122918 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0648300
Parent gene annotation	Similar to Calmodulin binding protein. (Os03t0648300-01)
Parent gene strand	-
Alternative splicing	Os03g0648300_circ_g.1 Os03g0648300_circ_g.2 Os03g0648300_circ_g.3
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	Os03t0648300-01:5

			
						 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  
						
							TGCATTCCGGGCCTTTTCTTGCTTTCTTATACCAACCAGTGATTTAAACCACTTCGATGAAATA
CCCATGACAAACAACCTTTTTATATAGTTCAATGACcattagttggcagagataaccacttctt
gactggagtattcgcttgcacaagcttggcttttggttggcatgtggacaaagacgcaagatct
gttggctg

						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: 1223
Transcript exons: 25117116-25117608,25118590-25118703,25120815-25121042,25
121492-25121737,25122777-25122918
CATTAGTTGGCAGAGATAACCACTTCTTGACTGGAGTATTCGCTTGCACAAGCTTGGCTTTTGG
TTGGCATGTGGACAAAGACGCAAGATCTGTTGGCTGGGAGCTGACTTCTTCCAAAGCTTCATCT
GAAAGCTTTGACTTTTGTTTGCATGATCCCAAAGATGTTGAAGGTATATTTGGCGACCGTCCAA
ATGAAGCACAAGTTACATCAGAATATGATTTTTTATGGTTTATGCCTTTCTTCTTGTTAGAACC
ATTAGAAAGGGCACTTGAAACTTGAACTTTCCCCTTTGGTGTGATCTGAGACTTTGTTTCCATA
TCCTGCTTATCATCACACAGTGGCATAGTTTCTTTGGTGTTACTGTCAAGCAACCTGTTCTCCC
ATGGACGTACAGCCATCCACCTCTCTAACCAGTTTGATCCCCAGTGGCTGTCATCAAGTTCAAG
TCCTTGCGGAGTTGTAGGTTTCTGTTGCCTGGAACCTGCTTGTCGCTGATGAGTCAAAGCATAT
GCCATTGCTCTCTCACGCTTAGCAGCAGCTTCCTGCCTTTTCAATACTTTAGCTTGCAGTTCTT
CAACAGAACCAATACTGCCACACCAGCGTTCCTCAATTTCTCGAACATGATTCTCATGATCATC
TTGTTCAGGGACCTTCTTCCGTGCAACTTGGTTCTCTAAAGAAACACGAACTTGTCTTGCTCTG
ACACGAGCTTGAGCTCTTACTAGAGCTTGCATACACTGAAGTGTTTCTGATGTCTGCTTTCTTA
TGATATGACCCCTTACAAGGGCCTGCAGTATAACTATTCCTTTCAATGCCCGTAAAGCCCGTCT
AGCCAGGAATGCTCGAAACGCAGACTGAATGAGTGTTGCAGCCACATCCTCTTTAGTTTTATGC
TCTTCGGTTTGAGAAATATGTACTCCAAGCAATGTACTGTCTGAAGAAATGGAATCTGAAACTG
TCTGCGTGTTGGTGTCATCAGTCAATGGTTCACTTTGCACTGCAAGTTCTTCTACTAAGATTGC
ACGTTCAGTATCCAAAGAATGTTTCCGTTTGTGAAGCAACTGAGCAGCAGGGGTGCTTGTTTCG
CAGCTCTCTGCATTTTGTGCCTTTTCTTGTTTTTCTGCATTCCGGGCCTTTTCTTGCTTTCTTA
TACCAACCAGTGATTTAAACCACTTCGATGAAATACCCATGACAAACAACCTTTTTATATAGTT
CAATGAC
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TGCATTCCGGGCCTTTTCTTGCTTTCTTATACCAACCAGTGATTTAAACCACTTCGATGAAATA CCCATGACAAACAACCTTTTTATATAGTTCAATGACcattagttggcagagataaccacttctt gactggagtattcgcttgcacaagcttggcttttggttggcatgtggacaaagacgcaagatct gttggctg
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: 1223 Transcript exons: 25117116-25117608,25118590-25118703,25120815-25121042,25 121492-25121737,25122777-25122918 CATTAGTTGGCAGAGATAACCACTTCTTGACTGGAGTATTCGCTTGCACAAGCTTGGCTTTTGG TTGGCATGTGGACAAAGACGCAAGATCTGTTGGCTGGGAGCTGACTTCTTCCAAAGCTTCATCT GAAAGCTTTGACTTTTGTTTGCATGATCCCAAAGATGTTGAAGGTATATTTGGCGACCGTCCAA ATGAAGCACAAGTTACATCAGAATATGATTTTTTATGGTTTATGCCTTTCTTCTTGTTAGAACC ATTAGAAAGGGCACTTGAAACTTGAACTTTCCCCTTTGGTGTGATCTGAGACTTTGTTTCCATA TCCTGCTTATCATCACACAGTGGCATAGTTTCTTTGGTGTTACTGTCAAGCAACCTGTTCTCCC ATGGACGTACAGCCATCCACCTCTCTAACCAGTTTGATCCCCAGTGGCTGTCATCAAGTTCAAG TCCTTGCGGAGTTGTAGGTTTCTGTTGCCTGGAACCTGCTTGTCGCTGATGAGTCAAAGCATAT GCCATTGCTCTCTCACGCTTAGCAGCAGCTTCCTGCCTTTTCAATACTTTAGCTTGCAGTTCTT CAACAGAACCAATACTGCCACACCAGCGTTCCTCAATTTCTCGAACATGATTCTCATGATCATC TTGTTCAGGGACCTTCTTCCGTGCAACTTGGTTCTCTAAAGAAACACGAACTTGTCTTGCTCTG ACACGAGCTTGAGCTCTTACTAGAGCTTGCATACACTGAAGTGTTTCTGATGTCTGCTTTCTTA TGATATGACCCCTTACAAGGGCCTGCAGTATAACTATTCCTTTCAATGCCCGTAAAGCCCGTCT AGCCAGGAATGCTCGAAACGCAGACTGAATGAGTGTTGCAGCCACATCCTCTTTAGTTTTATGC TCTTCGGTTTGAGAAATATGTACTCCAAGCAATGTACTGTCTGAAGAAATGGAATCTGAAACTG TCTGCGTGTTGGTGTCATCAGTCAATGGTTCACTTTGCACTGCAAGTTCTTCTACTAAGATTGC ACGTTCAGTATCCAAAGAATGTTTCCGTTTGTGAAGCAACTGAGCAGCAGGGGTGCTTGTTTCG CAGCTCTCTGCATTTTGTGCCTTTTCTTGTTTTTCTGCATTCCGGGCCTTTTCTTGCTTTCTTA TACCAACCAGTGATTTAAACCACTTCGATGAAATACCCATGACAAACAACCTTTTTATATAGTT CAATGAC
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_014510 						
					
						PMCS
						0.324205584

Conservation Information
Conserved circRNAs	osi_circ_014510
PMCS	0.324205584

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25122889-25122913(-)
25117243-25122864(-)
						
						Potential amino acid sequence
						
							MGISSKWFKSLVGIRKQEKARNAEKQEKAQNAESCETSTPAAQLLHKRKHSLDTERAILVEELA
VQSEPLTDDTNTQTVSDSISSDSTLLGVHISQTEEHKTKEDVAATLIQSAFRAFLARRALRALK
GIVILQALVRGHIIRKQTSETLQCMQALVRAQARVRARQVRVSLENQVARKKVPEQDDHENHVR
EIEERWCGSIGSVEELQAKVLKRQEAAAKRERAMAYALTHQRQAGSRQQKPTTPQGLELDDSHW
GSNWLERWMAVRPWENRLLDSNTKETMPLCDDKQDMETKSQITPKGKVQVSSALSNGSNKKKGI
NHKKSYSDVTCASFGRSPNIPSTSLGSCKQKSKLSDEALEEVSSQPTDLASLSTCQPKAKLVQA
NTPVKKWLSLPTNGH*(-)
MKLWKKSAPSQQILRLCPHANQKPSLCKRILQSRSGYLCQLMVIELYKKVVCHGYFIEVV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25122889-25122913(-) 25117243-25122864(-)
Potential amino acid sequence	MGISSKWFKSLVGIRKQEKARNAEKQEKAQNAESCETSTPAAQLLHKRKHSLDTERAILVEELA VQSEPLTDDTNTQTVSDSISSDSTLLGVHISQTEEHKTKEDVAATLIQSAFRAFLARRALRALK GIVILQALVRGHIIRKQTSETLQCMQALVRAQARVRARQVRVSLENQVARKKVPEQDDHENHVR EIEERWCGSIGSVEELQAKVLKRQEAAAKRERAMAYALTHQRQAGSRQQKPTTPQGLELDDSHW GSNWLERWMAVRPWENRLLDSNTKETMPLCDDKQDMETKSQITPKGKVQVSSALSNGSNKKKGI NHKKSYSDVTCASFGRSPNIPSTSLGSCKQKSKLSDEALEEVSSQPTDLASLSTCQPKAKLVQA NTPVKKWLSLPTNGH(-) MKLWKKSAPSQQILRLCPHANQKPSLCKRILQSRSGYLCQLMVIELYKKVVCHGYFIEVV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0648300_circ_g.4

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