Plant Circular RNA Database

Detail information of Os05g0573300_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os05g0573300_circ_g.3
					
						ID in PlantcircBase
						osa_circ_029040
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 28553284-28556038  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0573300						
					
						Parent gene annotation
						
							Similar to CTP synthase 1 (EC 6.3.4.2) (UTP--ammonia ligase 1) (
CTP synthetase 1). (Os05t0573300-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0573300_circ_g.1 Os05g0573300_circ_g.2 Os05g0573300_circ_g.4 Os05g0573300_circ_g.5 Os05g0573300_circ_g.6 						
					
						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
						Os05t0573400-00:9
Os05t0573300-01:13
Os05t0573400-00:9

General Information
CircRNA Name	Os05g0573300_circ_g.3
ID in PlantcircBase	osa_circ_029040
Alias	NA
Organism	Oryza sativa
Position	chr5: 28553284-28556038 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0573300
Parent gene annotation	Similar to CTP synthase 1 (EC 6.3.4.2) (UTP--ammonia ligase 1) ( CTP synthetase 1). (Os05t0573300-01)
Parent gene strand	-
Alternative splicing	Os05g0573300_circ_g.1 Os05g0573300_circ_g.2 Os05g0573300_circ_g.4 Os05g0573300_circ_g.5 Os05g0573300_circ_g.6
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	Os05t0573400-00:9 Os05t0573300-01:13 Os05t0573400-00:9

			
						 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  
						
							TGGTGAAGCAGAGCTGCTACCTCACCACCATCGTCCAAAACAAACACTTCACCGTGCTCGAATG
GAGACATGGTTCCAGCATCGGTGTTGAGGTAAGGATctctgtggctgcagaatcttcaagatca
caggaaggaacccaatccaccacaagttttctgtccaaagcaaccgatgcatgcagaagagcct
gaaaggaa

									
								

					

						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
						
							CTCTGTGGCTGCAGAATCTTCAAGATCACAGGAAGGAACCCAATCCACCACAAGTTTTCTGTCC
AAAGCAACCGATGCATGCAGAAGAGCCTGAAAGGAATACCGAACTAGGTAATGCCCCAAAATCT
AGTTGAAAGGGATATATCCAATGTATTGCTAACACCAACAAGCTCGGAAGCATGTCTAGCAGCA
ACTGAACAGCTGTTGACTGATGCACAAATACATGTCCAAGTCAGTCAGAAAAGTCACCTTCAAA
ACTGACAAGTAGGAGTCTGATAGGCCAGTATACTTTCCAACCATGGCAATCCTAACCTGCAAAT
ATGTTCGCAGTGACTATGAGCACCAAATTATTGATCATGTACATGTACTGATGTATATCTAAAA
GCAAAAGTTCAGAGTAAAATGAGACTAACAGGAGTTTTCAGTTTGTCGAATTTGCTGGCTCTTT
CAGTCCATTCAGTCAGCTTAGGTGCTCGAGGCACTTTTCCCACACTACATGTCACAACCAAGAA
TACATTTAAGTCATGAAAAGAAATGACTCCAGGTGTTGAGTTCATCGTATCTTTGGCCAGCAGA
CATACCATTGAAGATCTAAAACTTTCAGAATAGATTCATGAGCCTTCTGGTCCTATAAGAAAGC
ACAAGTTGTTACTGAGATTATTTTAAAAATAATACCATCCATGTACTGGGACAAGTTTTATGTG
ACATACCCTAAGCAACAAAGGGATGTGCCAGATGTTGGTAACATCGTGAAGATTGACAATATTT
GAGATCTGCAATATGAAATCAAACTAAGAATTCAGGTTGCCCGGAGCAAAATACATTTAGAAAT
ACTTGGTGAAAGCAGCATTGTTACCGGAACGTGGCAAAATTGTGCGAGTTTCACTTTCACATTT
TCTTCAAGTGGCTGTCAGAAAGCACAAAGCAAGCAATGTATAAAGCCACCATCAGACCGAAAAC
AACACTTTTGAAGGAAACATAAATACAAAAACAAGTGCTACTACTGCATGATTGAGTACCTGAG
TACTGCGACATGCTAAAATATCAGGTATCAGTCCAAGTCCTCTTAGTCCACGGACACTATGTTG
GGTAGGTTTGGTTTTCTACAAAAGATTCATAGGAAAAGTCAAGAAAAATGCATATTTTTATGAC
TGTGACACTGTATTTAGATGAATTGTGGTGCCTCCACATGAGGAATAAGTACCTGTTCACCAAC
TACATTTAGAACTGGTACAAGACTGACATGAACTAGGCAAAAGTTTCCAGCCCCTGAAACACAA
ATTGGAAAATGATCAGTAGGAGTTAAATGCTGTTTGCAAATGAAAGAAAATAGAAATAAATAGC
TATGGAGTCCACTGTTTTCTCACCTACGCGGTATGAAAATTGACCTAATGCTTCAATAAAAGGC
ATTGATTCAATATCCCCTGCATCAAGAATGCCACTGTCGTTATGTGGCGAAAAGATTGTCTCCT
GCATCGGAATACTAGAACAACTATGGGAACAATTGAGCACAGAATAGTATATTCTGTGGTGCTC
AAAACTGTGCAGTGTTATTATTTTCTAAAAAATGATGTGGTTTGCTTCAGTAGTCTGTTTTTCA
CCTATAGTGCCACCAAGTTCTATTACACAAACATCAGCTGGCTCATCTGTGCCATCAACTGGAT
TCATTGCCACACGTTCAATCCACTCCTGTATTTCATCCGTAATGTGTGGTACAACCTGATAAAG
TGAATTAACTCAGAATTCAGCAAATTCATCATCAACTAAGTTATGGAACAGAAAAAACAAGAGA
TGAAATTCTAATTACCAATTCTCACCTGAACAGTTTTTCCCAAGTAGTCTCCTCTTCGTTCCTT
GTCAATAACAGCCTGCAGTTTGGGAATTACAAGAAAAAATATTAATAATTAGTAGACGATAAAT
TCTTGTTAAGTTTAAATTTACTCTTAGAAAAATAGGTATAATTAGCAGGGTATCTATGCTCATA
GAAGCATATAATACTCAAGTGGTCCTGAAATACCGACAGTTGCATGATAGCAAACAGCTGCAGC
TTGACATTCAAACTGCTCACGGTGAATCTACCCTATGACAGGTTCAATATCGACATGTCTATCA
CCAGCCTTTAGACTACAGAACCAGGATATTGTCCACATGTATAAACGGAATAGAAAAAGATCTG
TGGTGTGAGATATAAACCACTAACTTTGGACTAGAAAGCAAGTCATACTGAAAGTCTTGTGCGC
ACTCAGATAGAGACTCTTTATTCCAATTACCTGATAGATCTTTCCCGTGGTTATATTGTTGTCA
CGAGTCAACTTGATGTCCAGAAATCGCTCATAATTTCCAAGGTCCAAGTCCACCTTAGACAAAA
AGAGAGAACGAAATGAAGTTCAGTTTAGTCAAAGAAAGAAAATTTTGTAGTTATCACAAAAACA
CACACTCTACAATGGAACCTCCTTTCTACAAACAAGTGGACAACAGGACAAGTGCATGGAATGC
TGCTAGTGACCAACTGCTAGTCCATGATAATTCAAGCCAAGCATGAGGAGAATATGCTCGAGTC
AGTGCAGTGCAGTTTCTGGCGTGCATTTTGTAACCTATGGTGCACTCTCTGCGACTATCTCATA
ATGAAATAGCTAAGTGAAAGCCGAAAGGAGATGGTGAAGCAGAGCTGCTACCTCACCACCATCG
TCCAAAACAAACACTTCACCGTGCTCGAATGGAGACATGGTTCCAGCATCGGTGTTGAGGTAAG
GAT
						
					

			
		

Sequences
Splice junction sequence	TGGTGAAGCAGAGCTGCTACCTCACCACCATCGTCCAAAACAAACACTTCACCGTGCTCGAATG GAGACATGGTTCCAGCATCGGTGTTGAGGTAAGGATctctgtggctgcagaatcttcaagatca caggaaggaacccaatccaccacaagttttctgtccaaagcaaccgatgcatgcagaagagcct gaaaggaa
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	CTCTGTGGCTGCAGAATCTTCAAGATCACAGGAAGGAACCCAATCCACCACAAGTTTTCTGTCC AAAGCAACCGATGCATGCAGAAGAGCCTGAAAGGAATACCGAACTAGGTAATGCCCCAAAATCT AGTTGAAAGGGATATATCCAATGTATTGCTAACACCAACAAGCTCGGAAGCATGTCTAGCAGCA ACTGAACAGCTGTTGACTGATGCACAAATACATGTCCAAGTCAGTCAGAAAAGTCACCTTCAAA ACTGACAAGTAGGAGTCTGATAGGCCAGTATACTTTCCAACCATGGCAATCCTAACCTGCAAAT ATGTTCGCAGTGACTATGAGCACCAAATTATTGATCATGTACATGTACTGATGTATATCTAAAA GCAAAAGTTCAGAGTAAAATGAGACTAACAGGAGTTTTCAGTTTGTCGAATTTGCTGGCTCTTT CAGTCCATTCAGTCAGCTTAGGTGCTCGAGGCACTTTTCCCACACTACATGTCACAACCAAGAA TACATTTAAGTCATGAAAAGAAATGACTCCAGGTGTTGAGTTCATCGTATCTTTGGCCAGCAGA CATACCATTGAAGATCTAAAACTTTCAGAATAGATTCATGAGCCTTCTGGTCCTATAAGAAAGC ACAAGTTGTTACTGAGATTATTTTAAAAATAATACCATCCATGTACTGGGACAAGTTTTATGTG ACATACCCTAAGCAACAAAGGGATGTGCCAGATGTTGGTAACATCGTGAAGATTGACAATATTT GAGATCTGCAATATGAAATCAAACTAAGAATTCAGGTTGCCCGGAGCAAAATACATTTAGAAAT ACTTGGTGAAAGCAGCATTGTTACCGGAACGTGGCAAAATTGTGCGAGTTTCACTTTCACATTT TCTTCAAGTGGCTGTCAGAAAGCACAAAGCAAGCAATGTATAAAGCCACCATCAGACCGAAAAC AACACTTTTGAAGGAAACATAAATACAAAAACAAGTGCTACTACTGCATGATTGAGTACCTGAG TACTGCGACATGCTAAAATATCAGGTATCAGTCCAAGTCCTCTTAGTCCACGGACACTATGTTG GGTAGGTTTGGTTTTCTACAAAAGATTCATAGGAAAAGTCAAGAAAAATGCATATTTTTATGAC TGTGACACTGTATTTAGATGAATTGTGGTGCCTCCACATGAGGAATAAGTACCTGTTCACCAAC TACATTTAGAACTGGTACAAGACTGACATGAACTAGGCAAAAGTTTCCAGCCCCTGAAACACAA ATTGGAAAATGATCAGTAGGAGTTAAATGCTGTTTGCAAATGAAAGAAAATAGAAATAAATAGC TATGGAGTCCACTGTTTTCTCACCTACGCGGTATGAAAATTGACCTAATGCTTCAATAAAAGGC ATTGATTCAATATCCCCTGCATCAAGAATGCCACTGTCGTTATGTGGCGAAAAGATTGTCTCCT GCATCGGAATACTAGAACAACTATGGGAACAATTGAGCACAGAATAGTATATTCTGTGGTGCTC AAAACTGTGCAGTGTTATTATTTTCTAAAAAATGATGTGGTTTGCTTCAGTAGTCTGTTTTTCA CCTATAGTGCCACCAAGTTCTATTACACAAACATCAGCTGGCTCATCTGTGCCATCAACTGGAT TCATTGCCACACGTTCAATCCACTCCTGTATTTCATCCGTAATGTGTGGTACAACCTGATAAAG TGAATTAACTCAGAATTCAGCAAATTCATCATCAACTAAGTTATGGAACAGAAAAAACAAGAGA TGAAATTCTAATTACCAATTCTCACCTGAACAGTTTTTCCCAAGTAGTCTCCTCTTCGTTCCTT GTCAATAACAGCCTGCAGTTTGGGAATTACAAGAAAAAATATTAATAATTAGTAGACGATAAAT TCTTGTTAAGTTTAAATTTACTCTTAGAAAAATAGGTATAATTAGCAGGGTATCTATGCTCATA GAAGCATATAATACTCAAGTGGTCCTGAAATACCGACAGTTGCATGATAGCAAACAGCTGCAGC TTGACATTCAAACTGCTCACGGTGAATCTACCCTATGACAGGTTCAATATCGACATGTCTATCA CCAGCCTTTAGACTACAGAACCAGGATATTGTCCACATGTATAAACGGAATAGAAAAAGATCTG TGGTGTGAGATATAAACCACTAACTTTGGACTAGAAAGCAAGTCATACTGAAAGTCTTGTGCGC ACTCAGATAGAGACTCTTTATTCCAATTACCTGATAGATCTTTCCCGTGGTTATATTGTTGTCA CGAGTCAACTTGATGTCCAGAAATCGCTCATAATTTCCAAGGTCCAAGTCCACCTTAGACAAAA AGAGAGAACGAAATGAAGTTCAGTTTAGTCAAAGAAAGAAAATTTTGTAGTTATCACAAAAACA CACACTCTACAATGGAACCTCCTTTCTACAAACAAGTGGACAACAGGACAAGTGCATGGAATGC TGCTAGTGACCAACTGCTAGTCCATGATAATTCAAGCCAAGCATGAGGAGAATATGCTCGAGTC AGTGCAGTGCAGTTTCTGGCGTGCATTTTGTAACCTATGGTGCACTCTCTGCGACTATCTCATA ATGAAATAGCTAAGTGAAAGCCGAAAGGAGATGGTGAAGCAGAGCTGCTACCTCACCACCATCG TCCAAAACAAACACTTCACCGTGCTCGAATGGAGACATGGTTCCAGCATCGGTGTTGAGGTAAG GAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.135683978

Conservation Information
Conserved circRNAs	NA
PMCS	0.135683978

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28553365-28555989(-)
28556011-28555594(-)
						
						Potential amino acid sequence
						
							MHRLLWTENLWWIGFLPVILKILQPQRSLPQHRCWNHVSIRAR*(-)
MSPFEHGEVFVLDDGGEVDLDLGNYERFLDIKLTRDNNITTGKIYQAVIDKERRGDYLGKTVQV
VPHITDEIQEWIERVAMNPVDGTDEPADVCVIELGGTIGDIESMPFIEALGQFSYRVGAGNFCL
VHVSLVPVLNVVGEQKTKPTQHSVRGLRGLGLIPDILACRSTQPLEENVKVKLAQFCHVPISNI
VNLHDVTNIWHIPLLLRDQKAHESILKVLDLQCVGKVPRAPKLTEWTERASKFDKLKTPVRIAM
VGKYTGLSDSYLSVLKALLHASVALDRKLVVDWVPSCDLEDSAATEILTSTPMLEPCLHSSTVK
CLFWTMVVRWTWTLEIMSDFWTSS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28553365-28555989(-) 28556011-28555594(-)
Potential amino acid sequence	MHRLLWTENLWWIGFLPVILKILQPQRSLPQHRCWNHVSIRAR(-) MSPFEHGEVFVLDDGGEVDLDLGNYERFLDIKLTRDNNITTGKIYQAVIDKERRGDYLGKTVQV VPHITDEIQEWIERVAMNPVDGTDEPADVCVIELGGTIGDIESMPFIEALGQFSYRVGAGNFCL VHVSLVPVLNVVGEQKTKPTQHSVRGLRGLGLIPDILACRSTQPLEENVKVKLAQFCHVPISNI VNLHDVTNIWHIPLLLRDQKAHESILKVLDLQCVGKVPRAPKLTEWTERASKFDKLKTPVRIAM VGKYTGLSDSYLSVLKALLHASVALDRKLVVDWVPSCDLEDSAATEILTSTPMLEPCLHSSTVK CLFWTMVVRWTWTLEIMSDFWTSS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0573300_circ_g.3

Address

Any questions?

Supported by