Plant Circular RNA Database

Detail information of Os05g0582450_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0582450_circ_g.2
					
						ID in PlantcircBase
						osa_circ_029104
					
						Alias
						Os_ciR5485
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 28990999-28993543  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ei-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os05g0582450						
					
						Parent gene annotation
						
							Hypothetical protein. (Os05t0582450-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0582450_circ_g.1 Os05g0582400_circ_g.1 						
					
						Support reads
						3/2
					
						Tissues
						root/shoot, 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  
						
							GT-AG							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
						Os05t0582400-01:4
Os05t0582400-01:4
Os05t0582450-00:5

General Information
CircRNA Name	Os05g0582450_circ_g.2
ID in PlantcircBase	osa_circ_029104
Alias	Os_ciR5485
Organism	Oryza sativa
Position	chr5: 28990999-28993543 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ei-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os05g0582450
Parent gene annotation	Hypothetical protein. (Os05t0582450-00)
Parent gene strand	-
Alternative splicing	Os05g0582450_circ_g.1 Os05g0582400_circ_g.1
Support reads	3/2
Tissues	root/shoot, 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	GT-AG 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	Os05t0582400-01:4 Os05t0582400-01:4 Os05t0582450-00:5

			
						 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  
						
							CCCCTTCTCTCAAAAGTTTCCTAATGCAGATCCTTTGGCACTAAAACTCTTGCAACGGTTATTA
GCCTTTGATCCAAAGGACCGTCCAACTGCTGAAGAGagctctgcggaggagttttttacagagt
atggtgatgcgaaccggtacaggatccaagaagtcattggtaagggaagctatggggttgtgtg
ctctgcca

									
								

					

						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: 998
Transcript exons: 28990999-28991404,28992383-28992510,28992599-28992658,28
993140-28993543
AGCTCTGCGGAGGAGTTTTTTACAGAGTATGGTGATGCGAACCGGTACAGGATCCAAGAAGTCA
TTGGTAAGGGAAGCTATGGGGTTGTGTGCTCTGCCATTGATTTGCACACTAGACAGAAGGTGGC
GATCAAGAAGGTGCACAATATTTTTGAGCATGTCTCGGATGCTGCGCGTATTCTCCGTGAGATC
AAGCTTCTGAGACTCCTAAGGCATCCGGACATTGTTGAGATCAAGCACATTATGCTACCTCCGT
CAAGAAGGGACTTCAAAGATATTTATGTTGTTTTTGAGCTTATGGAATCTGATCTCCACCAAGT
TATAAAGGCTAATGATGACTTAACAAAAGAGCACTACCAATTTTTCCTTTATCAATTACTCCGG
GCCCTCAAATACATTCATACTGCTAGTGTTTATCACCGTGATCTGAAGCCCAAGAACATTTTAG
CAAATTCTAACTGCAAACTGAAAATATGTGATTTCGGACTAGCACGAGTTGCATTCAATGATAC
CCCAACAACTGTCTTCTGGACGGATTATGTAGCAACAAGATGGTACAGGGCTCCAGAGCTCTGT
GGATCCTTCTTCTCAAAGTATACACCAGCTATTGACATTTGGAGCATTGGGTGCATCTTTGCTG
AGGTGTTGACAGGGAAGCCTTTGTTTCCTGGTAAAAATGTTGTCCATCAGTTAGACTTGATGAC
TGATCTTCTAGGAACACCTTCCATGGATACAATTTCCCGGGTATGATAATACTGTTAGGTAAAA
GTTTTTTGTAGGTCCTCCTGGGAGGAGACTTCAGTGACCCCCAACATTTGTCTTATTGTTCTCT
TCCTTTCCAGGTTCGGAATGAGAAAGCAAGACGGTACTTGAGCAGCATGAGAAAGAAAGATCCA
GTCCCCTTCTCTCAAAAGTTTCCTAATGCAGATCCTTTGGCACTAAAACTCTTGCAACGGTTAT
TAGCCTTTGATCCAAAGGACCGTCCAACTGCTGAAGAG
						
					

						Genomic sequence
						
							AGCTCTGCGGAGGAGTTTTTTACAGAGTATGGTGATGCGAACCGGTACAGGATCCAAGAAGTCA
TTGGTAAGGGAAGCTATGGGGTTGTGTGCTCTGCCATTGATTTGCACACTAGACAGAAGGTGGC
GATCAAGAAGGTGCACAATATTTTTGAGCATGTCTCGGATGCTGCGCGTATTCTCCGTGAGATC
AAGCTTCTGAGACTCCTAAGGCATCCGGACATTGTTGAGATCAAGCACATTATGCTACCTCCGT
CAAGAAGGGACTTCAAAGATATTTATGTTGTTTTTGAGCTTATGGAATCTGATCTCCACCAAGT
TATAAAGGCTAATGATGACTTAACAAAAGAGCACTACCAATTTTTCCTTTATCAATTACTCCGG
GCCCTCAAATACATTCATACTGGTAGGAAACATTAACTCCTTCAGCTCTAGTTCCATTTCCCCC
TTTTAGATAGTGTGCATCTGTAGTCTGTATATTAGTTACCCCCTTTGATCTCATTTCACAATGC
AGCATTCTGTGGTTAGTCTTATATGTATTGCATATTCATTGCATAGAGGGAAGTCACCTACTCA
TCATGCCCTTCAACCACTCTCCCCATGTGTTTGTGCTTCAGTATAATTATAAAAGAAAGTGAAG
TAATGGGGTAGTTATGGCTTCCTCGGTGACCATGTCTAGATAATCTACAGTGAATGTGAGAATA
TTTTTATTTACCAAAGGTTGCTTGGAGTGCAGTCAATCAAATGCAGATAATAAATCACCATATT
TTTGCAAACCAATTTAGCAGCAGGGGCTTTCCCCTTTATGATGTAAAACCAAGTTAACCAATGG
GTTTGTGTATGATTTCTGTAGATTATAATTTTACCTATTATTAATCTGGTTCCTTGCTTTGTGC
TAGCTGGTCCAACCATGATACCTGTTACTATCCCTCTATATTTTAATATGTCCACTTAACATAT
CCATTTACATATCAGTCTGCGTCCTTTTAGTTTGTTCAAACTAGTAGCTTTCTTTTAGCCCACA
CGCCTTCTAAAATTACCATGAAAGTAAATTATACTTAATTGTAACAGTCAAGGTATAAGACCTG
ACTGTAAGTTCATGGAAGCTTTGTGACTTATTTAGCACTCTTGTCATTTTCCTCATTACATTTA
TGTAGTATCTACTCTGATAAGGACACAGTCTGATTGCTTGAGGGGATTCTTGTCCAATAATTGT
CATAGGTATTGACTTGCCACTGGCCACTGCTAAAAACACATCAACCATGCCCTGTTGTTTTTCT
ACCTTATTGACACCCTGTGTAAAATCTTATGACTCAATTGCATATTATTCTTTTATTTTTCTAT
TGCCATAATGTGTGCTAACACTGAGTTTATATAACTGTAGCTAGTGTTTATCACCGTGATCTGA
AGCCCAAGAACATTTTAGCAAATTCTAACTGCAAACTGAAAATATGTGATTTCGGACTAGCACG
AGTTGCATTCAATGATACCCCAACAACTGTCTTCTGGACGGTATGTTAGTACGAAGCACAAACC
CAACACCAACTGATTTGGTTGAAGTACCACCATGATTTATGGACATAACACGTATGCTCTGCAG
GATTATGTAGCAACAAGATGGTACAGGGCTCCAGAGCTCTGTGGATCCTTCTTCTCAAAGGTGA
GCTTTGCAGTTCATGCATATGTTTATCCTGACAGAAATACAATGTGCTTGTTAGACTTGACGAT
GTCATATTATGTTTTATTTGGTATTTTCTCTTTTATATGTTTTTATAAAGCATATACAATTCAT
CTTTGTGTTTCTTTGATACTGTTTATCCATTTTTGCTAGATTTATATCCGTTCAATCTTGTTCT
GATATCATTTTTTTGTTCTGTTTTGTATTTTAATTCAAGGACTTATTATTATTTCCCATCAATT
CCATGTTTTACGCAAATATGGACCAATATCCTGCTGAATAGCAACGTTTACAACAATTCAGATT
ACTGTAAAAAAAAAGCAACTTAGAACAGTACAAGCTTTTTTAAAAAAAATTCACATGCCTGGTG
AACTAATGTGCTGCTTTTATGCTTATCATAATTTTTCAAGGGTGTGGTTATATGCAGCATCTTA
ATGTGTTTTGCATTATCATTTCACTGCAGTATACACCAGCTATTGACATTTGGAGCATTGGGTG
CATCTTTGCTGAGGTGTTGACAGGGAAGCCTTTGTTTCCTGGTAAAAATGTTGTCCATCAGTTA
GACTTGATGACTGATCTTCTAGGAACACCTTCCATGGATACAATTTCCCGGGTATGATAATACT
GTTAGGTAAAAGTTTTTTGTAGGTCCTCCTGGGAGGAGACTTCAGTGACCCCCAACATTTGTCT
TATTGTTCTCTTCCTTTCCAGGTTCGGAATGAGAAAGCAAGACGGTACTTGAGCAGCATGAGAA
AGAAAGATCCAGTCCCCTTCTCTCAAAAGTTTCCTAATGCAGATCCTTTGGCACTAAAACTCTT
GCAACGGTTATTAGCCTTTGATCCAAAGGACCGTCCAACTGCTGAAGAG
						
					

			
		

Sequences
Splice junction sequence	CCCCTTCTCTCAAAAGTTTCCTAATGCAGATCCTTTGGCACTAAAACTCTTGCAACGGTTATTA GCCTTTGATCCAAAGGACCGTCCAACTGCTGAAGAGagctctgcggaggagttttttacagagt atggtgatgcgaaccggtacaggatccaagaagtcattggtaagggaagctatggggttgtgtg ctctgcca
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: 998 Transcript exons: 28990999-28991404,28992383-28992510,28992599-28992658,28 993140-28993543 AGCTCTGCGGAGGAGTTTTTTACAGAGTATGGTGATGCGAACCGGTACAGGATCCAAGAAGTCA TTGGTAAGGGAAGCTATGGGGTTGTGTGCTCTGCCATTGATTTGCACACTAGACAGAAGGTGGC GATCAAGAAGGTGCACAATATTTTTGAGCATGTCTCGGATGCTGCGCGTATTCTCCGTGAGATC AAGCTTCTGAGACTCCTAAGGCATCCGGACATTGTTGAGATCAAGCACATTATGCTACCTCCGT CAAGAAGGGACTTCAAAGATATTTATGTTGTTTTTGAGCTTATGGAATCTGATCTCCACCAAGT TATAAAGGCTAATGATGACTTAACAAAAGAGCACTACCAATTTTTCCTTTATCAATTACTCCGG GCCCTCAAATACATTCATACTGCTAGTGTTTATCACCGTGATCTGAAGCCCAAGAACATTTTAG CAAATTCTAACTGCAAACTGAAAATATGTGATTTCGGACTAGCACGAGTTGCATTCAATGATAC CCCAACAACTGTCTTCTGGACGGATTATGTAGCAACAAGATGGTACAGGGCTCCAGAGCTCTGT GGATCCTTCTTCTCAAAGTATACACCAGCTATTGACATTTGGAGCATTGGGTGCATCTTTGCTG AGGTGTTGACAGGGAAGCCTTTGTTTCCTGGTAAAAATGTTGTCCATCAGTTAGACTTGATGAC TGATCTTCTAGGAACACCTTCCATGGATACAATTTCCCGGGTATGATAATACTGTTAGGTAAAA GTTTTTTGTAGGTCCTCCTGGGAGGAGACTTCAGTGACCCCCAACATTTGTCTTATTGTTCTCT TCCTTTCCAGGTTCGGAATGAGAAAGCAAGACGGTACTTGAGCAGCATGAGAAAGAAAGATCCA GTCCCCTTCTCTCAAAAGTTTCCTAATGCAGATCCTTTGGCACTAAAACTCTTGCAACGGTTAT TAGCCTTTGATCCAAAGGACCGTCCAACTGCTGAAGAG
Genomic sequence	AGCTCTGCGGAGGAGTTTTTTACAGAGTATGGTGATGCGAACCGGTACAGGATCCAAGAAGTCA TTGGTAAGGGAAGCTATGGGGTTGTGTGCTCTGCCATTGATTTGCACACTAGACAGAAGGTGGC GATCAAGAAGGTGCACAATATTTTTGAGCATGTCTCGGATGCTGCGCGTATTCTCCGTGAGATC AAGCTTCTGAGACTCCTAAGGCATCCGGACATTGTTGAGATCAAGCACATTATGCTACCTCCGT CAAGAAGGGACTTCAAAGATATTTATGTTGTTTTTGAGCTTATGGAATCTGATCTCCACCAAGT TATAAAGGCTAATGATGACTTAACAAAAGAGCACTACCAATTTTTCCTTTATCAATTACTCCGG GCCCTCAAATACATTCATACTGGTAGGAAACATTAACTCCTTCAGCTCTAGTTCCATTTCCCCC TTTTAGATAGTGTGCATCTGTAGTCTGTATATTAGTTACCCCCTTTGATCTCATTTCACAATGC AGCATTCTGTGGTTAGTCTTATATGTATTGCATATTCATTGCATAGAGGGAAGTCACCTACTCA TCATGCCCTTCAACCACTCTCCCCATGTGTTTGTGCTTCAGTATAATTATAAAAGAAAGTGAAG TAATGGGGTAGTTATGGCTTCCTCGGTGACCATGTCTAGATAATCTACAGTGAATGTGAGAATA TTTTTATTTACCAAAGGTTGCTTGGAGTGCAGTCAATCAAATGCAGATAATAAATCACCATATT TTTGCAAACCAATTTAGCAGCAGGGGCTTTCCCCTTTATGATGTAAAACCAAGTTAACCAATGG GTTTGTGTATGATTTCTGTAGATTATAATTTTACCTATTATTAATCTGGTTCCTTGCTTTGTGC TAGCTGGTCCAACCATGATACCTGTTACTATCCCTCTATATTTTAATATGTCCACTTAACATAT CCATTTACATATCAGTCTGCGTCCTTTTAGTTTGTTCAAACTAGTAGCTTTCTTTTAGCCCACA CGCCTTCTAAAATTACCATGAAAGTAAATTATACTTAATTGTAACAGTCAAGGTATAAGACCTG ACTGTAAGTTCATGGAAGCTTTGTGACTTATTTAGCACTCTTGTCATTTTCCTCATTACATTTA TGTAGTATCTACTCTGATAAGGACACAGTCTGATTGCTTGAGGGGATTCTTGTCCAATAATTGT CATAGGTATTGACTTGCCACTGGCCACTGCTAAAAACACATCAACCATGCCCTGTTGTTTTTCT ACCTTATTGACACCCTGTGTAAAATCTTATGACTCAATTGCATATTATTCTTTTATTTTTCTAT TGCCATAATGTGTGCTAACACTGAGTTTATATAACTGTAGCTAGTGTTTATCACCGTGATCTGA AGCCCAAGAACATTTTAGCAAATTCTAACTGCAAACTGAAAATATGTGATTTCGGACTAGCACG AGTTGCATTCAATGATACCCCAACAACTGTCTTCTGGACGGTATGTTAGTACGAAGCACAAACC CAACACCAACTGATTTGGTTGAAGTACCACCATGATTTATGGACATAACACGTATGCTCTGCAG GATTATGTAGCAACAAGATGGTACAGGGCTCCAGAGCTCTGTGGATCCTTCTTCTCAAAGGTGA GCTTTGCAGTTCATGCATATGTTTATCCTGACAGAAATACAATGTGCTTGTTAGACTTGACGAT GTCATATTATGTTTTATTTGGTATTTTCTCTTTTATATGTTTTTATAAAGCATATACAATTCAT CTTTGTGTTTCTTTGATACTGTTTATCCATTTTTGCTAGATTTATATCCGTTCAATCTTGTTCT GATATCATTTTTTTGTTCTGTTTTGTATTTTAATTCAAGGACTTATTATTATTTCCCATCAATT CCATGTTTTACGCAAATATGGACCAATATCCTGCTGAATAGCAACGTTTACAACAATTCAGATT ACTGTAAAAAAAAAGCAACTTAGAACAGTACAAGCTTTTTTAAAAAAAATTCACATGCCTGGTG AACTAATGTGCTGCTTTTATGCTTATCATAATTTTTCAAGGGTGTGGTTATATGCAGCATCTTA ATGTGTTTTGCATTATCATTTCACTGCAGTATACACCAGCTATTGACATTTGGAGCATTGGGTG CATCTTTGCTGAGGTGTTGACAGGGAAGCCTTTGTTTCCTGGTAAAAATGTTGTCCATCAGTTA GACTTGATGACTGATCTTCTAGGAACACCTTCCATGGATACAATTTCCCGGGTATGATAATACT GTTAGGTAAAAGTTTTTTGTAGGTCCTCCTGGGAGGAGACTTCAGTGACCCCCAACATTTGTCT TATTGTTCTCTTCCTTTCCAGGTTCGGAATGAGAAAGCAAGACGGTACTTGAGCAGCATGAGAA AGAAAGATCCAGTCCCCTTCTCTCAAAAGTTTCCTAATGCAGATCCTTTGGCACTAAAACTCTT GCAACGGTTATTAGCCTTTGATCCAAAGGACCGTCCAACTGCTGAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.284461575

Conservation Information
Conserved circRNAs	NA
PMCS	0.284461575

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28993425-28993292(+)
28991065-28993455(-)
28991159-28993507(-)
						
						Potential amino acid sequence
						
							MRKKDPVPFSQKFPNADPLALKLLQRLLAFDPKDRPTAEESSAEEFFTEYGDANRYRIQEVIGK
GSYGVVCSAIDLHTRQKVAIKKVHNIFEHVSDAARILREIKLLRLLRHPDIVEIKHIMLPPSRR
DFKDIYVVFELMESDLHQVIKANDDLTKEHYQFFLYQLLRALKYIHTASVYHRDLKPKNILANS
NCKLKICDFGLARVAFNDTPTTVFWTDYVATRWYRAPELCGSFFSKYTPAIDIWSIGCIFAEVL
TGKPLFPGKNVVHQLDLMTDLLGTPSMDTISRV*(+)
MTSWILYRFASPYSVKNSSAELSSAVGRSFGSKANNRCKSFSAKGSALGNF*(-)
MLKNIVHLLDRHLLSSVQINGRAHNPIASLTNDFLDPVPVRITILCKKLLRRALFSSWTVLWIK
G*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28993425-28993292(+) 28991065-28993455(-) 28991159-28993507(-)
Potential amino acid sequence	MRKKDPVPFSQKFPNADPLALKLLQRLLAFDPKDRPTAEESSAEEFFTEYGDANRYRIQEVIGK GSYGVVCSAIDLHTRQKVAIKKVHNIFEHVSDAARILREIKLLRLLRHPDIVEIKHIMLPPSRR DFKDIYVVFELMESDLHQVIKANDDLTKEHYQFFLYQLLRALKYIHTASVYHRDLKPKNILANS NCKLKICDFGLARVAFNDTPTTVFWTDYVATRWYRAPELCGSFFSKYTPAIDIWSIGCIFAEVL TGKPLFPGKNVVHQLDLMTDLLGTPSMDTISRV(+) MTSWILYRFASPYSVKNSSAELSSAVGRSFGSKANNRCKSFSAKGSALGNF(-) MLKNIVHLLDRHLLSSVQINGRAHNPIASLTNDFLDPVPVRITILCKKLLRRALFSSWTVLWIK G*(-)
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 Os05g0582450_circ_g.2

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