Plant Circular RNA Database

Detail information of Os05g0358500_circ_g.14

			
						 General Information
					
						CircRNA Name
						Os05g0358500_circ_g.14
					
						ID in PlantcircBase
						osa_circ_027579
					
						Alias
						Os05circ08536/Os_ciR1475
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 17018555-17019556  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os05g0358500						
					
						Parent gene annotation
						
							Protein phosphatase 2C domain containing protein. (Os05t0358500-
01);Protein phosphatase 2C domain containing protein. (Os05t0358
500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0358500_circ_g.15 Os05g0358500_circ_g.16 Os05g0358500_circ_g.17 						
					
						Support reads
						4/10/14
					
						Tissues
						leaf and panicle/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
						Os05t0358500-01:2
Os05t0358500-02:2

General Information
CircRNA Name	Os05g0358500_circ_g.14
ID in PlantcircBase	osa_circ_027579
Alias	Os05circ08536/Os_ciR1475
Organism	Oryza sativa
Position	chr5: 17018555-17019556 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os05g0358500
Parent gene annotation	Protein phosphatase 2C domain containing protein. (Os05t0358500- 01);Protein phosphatase 2C domain containing protein. (Os05t0358 500-02)
Parent gene strand	-
Alternative splicing	Os05g0358500_circ_g.15 Os05g0358500_circ_g.16 Os05g0358500_circ_g.17
Support reads	4/10/14
Tissues	leaf and panicle/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	Os05t0358500-01:2 Os05t0358500-02:2

			
						 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  
						
							GCGGCAGCGACTCCCTCACCGCCTTCGCCACGTAGTGGCCCCACTGCCCGTGCCCGTCGAAGAT
GCCGCACAACACGCTCCCCTCCTCGCACCCGAATCCcccgtcggtggcgaggatgacgaagtgg
tcctgggcggtgatccggcggtgcgtcacctccggcgccgagatgacgccgtaatccttgacgc
agtagtcg

									
								

					

						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: 657
Transcript exons: 17018555-17018778,17019124-17019556
CCCGTCGGTGGCGAGGATGACGAAGTGGTCCTGGGCGGTGATCCGGCGGTGCGTCACCTCCGGC
GCCGAGATGACGCCGTAATCCTTGACGCAGTAGTCGCCGAAGGCGCGCGACATGGCGAGGCCTG
GGCCCTCCCTGTCCGGCCGCCACACCCGGTGCACCCCGGGCTCGTCGGCGAGGCACTGCACCCT
CCCGTTGCACTCCATGATCCTCTCCCTCTCCTGGGGCAGGTTGGGCTTGAAGTCGACGGTGAGC
TGCACGGCGGCGAGGCGGGCGCCGCCACCGTCGTCGGGGGAGGCGGTGGCCAGGACGGCGCGCG
AGTCGCCGACGTTGGCGACGACGAGGAGGTCGCCGTGCTTGACGAGGGACAGCGCGGTGCAGCC
GCTGTGGACGGCGTCGAGGCGGCGGCTGGCGCGGAGCTCGGCGTCGACGGCGGCGCAGGCGGCC
AGGTAGGACTGGCGCCACAGGTCGGGCCGGCACTCGCAGAGCCGCTTCTCGCCGCCGTCGATGA
GCGCCGCCAGCGTCACGGCCTCCCGCCACCGCCGGAGCAGCGCCGGCGGCAGCGACTCCCTCAC
CGCCTTCGCCACGTAGTGGCCCCACTGCCCGTGCCCGTCGAAGATGCCGCACAACACGCTCCCC
TCCTCGCACCCGAATCC
						
					

						Genomic sequence
						
							CCCGTCGGTGGCGAGGATGACGAAGTGGTCCTGGGCGGTGATCCGGCGGTGCGTCACCTCCGGC
GCCGAGATGACGCCGTAATCCTTGACGCAGTAGTCGCCGAAGGCGCGCGACATGGCGAGGCCTG
GGCCCTCCCTGTCCGGCCGCCACACCCGGTGCACCCCGGGCTCGTCGGCGAGGCACTGCACCCT
CCCGTTGCACTCCATGATCCTCTCCCTCTCCTCTGCATCCACGCAATGCAAACATCAGCAATAG
CGGTAGGACATACTCTTATATTAAGCAGAGAAATTATTCTAAACTCCAGAGAGACATCCTCTCG
TTGGTTATGTCATGTAAATGGTTATAAAAAGGTTTTAGAAAACAATAACGTAGCTTAATATGTG
ATAAATGACTCCATTCAAGTTTAACTTATACAAGTTGTCTTTAAAATAAATAACTTATACAAGT
TGTAGAAAAACATTTTTTTTTGCAGGGAGTAATCTATTATATATTAATTTATTATTTTAATTTT
TTTATAACATGTAAACGACTGGAAGATGTCTCCGTGAGTGTTTGACGGCGAACTTACGGGGCAG
GTTGGGCTTGAAGTCGACGGTGAGCTGCACGGCGGCGAGGCGGGCGCCGCCACCGTCGTCGGGG
GAGGCGGTGGCCAGGACGGCGCGCGAGTCGCCGACGTTGGCGACGACGAGGAGGTCGCCGTGCT
TGACGAGGGACAGCGCGGTGCAGCCGCTGTGGACGGCGTCGAGGCGGCGGCTGGCGCGGAGCTC
GGCGTCGACGGCGGCGCAGGCGGCCAGGTAGGACTGGCGCCACAGGTCGGGCCGGCACTCGCAG
AGCCGCTTCTCGCCGCCGTCGATGAGCGCCGCCAGCGTCACGGCCTCCCGCCACCGCCGGAGCA
GCGCCGGCGGCAGCGACTCCCTCACCGCCTTCGCCACGTAGTGGCCCCACTGCCCGTGCCCGTC
GAAGATGCCGCACAACACGCTCCCCTCCTCGCACCCGAATCC
						
					

			
		

Sequences
Splice junction sequence	GCGGCAGCGACTCCCTCACCGCCTTCGCCACGTAGTGGCCCCACTGCCCGTGCCCGTCGAAGAT GCCGCACAACACGCTCCCCTCCTCGCACCCGAATCCcccgtcggtggcgaggatgacgaagtgg tcctgggcggtgatccggcggtgcgtcacctccggcgccgagatgacgccgtaatccttgacgc agtagtcg
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: 657 Transcript exons: 17018555-17018778,17019124-17019556 CCCGTCGGTGGCGAGGATGACGAAGTGGTCCTGGGCGGTGATCCGGCGGTGCGTCACCTCCGGC GCCGAGATGACGCCGTAATCCTTGACGCAGTAGTCGCCGAAGGCGCGCGACATGGCGAGGCCTG GGCCCTCCCTGTCCGGCCGCCACACCCGGTGCACCCCGGGCTCGTCGGCGAGGCACTGCACCCT CCCGTTGCACTCCATGATCCTCTCCCTCTCCTGGGGCAGGTTGGGCTTGAAGTCGACGGTGAGC TGCACGGCGGCGAGGCGGGCGCCGCCACCGTCGTCGGGGGAGGCGGTGGCCAGGACGGCGCGCG AGTCGCCGACGTTGGCGACGACGAGGAGGTCGCCGTGCTTGACGAGGGACAGCGCGGTGCAGCC GCTGTGGACGGCGTCGAGGCGGCGGCTGGCGCGGAGCTCGGCGTCGACGGCGGCGCAGGCGGCC AGGTAGGACTGGCGCCACAGGTCGGGCCGGCACTCGCAGAGCCGCTTCTCGCCGCCGTCGATGA GCGCCGCCAGCGTCACGGCCTCCCGCCACCGCCGGAGCAGCGCCGGCGGCAGCGACTCCCTCAC CGCCTTCGCCACGTAGTGGCCCCACTGCCCGTGCCCGTCGAAGATGCCGCACAACACGCTCCCC TCCTCGCACCCGAATCC
Genomic sequence	CCCGTCGGTGGCGAGGATGACGAAGTGGTCCTGGGCGGTGATCCGGCGGTGCGTCACCTCCGGC GCCGAGATGACGCCGTAATCCTTGACGCAGTAGTCGCCGAAGGCGCGCGACATGGCGAGGCCTG GGCCCTCCCTGTCCGGCCGCCACACCCGGTGCACCCCGGGCTCGTCGGCGAGGCACTGCACCCT CCCGTTGCACTCCATGATCCTCTCCCTCTCCTCTGCATCCACGCAATGCAAACATCAGCAATAG CGGTAGGACATACTCTTATATTAAGCAGAGAAATTATTCTAAACTCCAGAGAGACATCCTCTCG TTGGTTATGTCATGTAAATGGTTATAAAAAGGTTTTAGAAAACAATAACGTAGCTTAATATGTG ATAAATGACTCCATTCAAGTTTAACTTATACAAGTTGTCTTTAAAATAAATAACTTATACAAGT TGTAGAAAAACATTTTTTTTTGCAGGGAGTAATCTATTATATATTAATTTATTATTTTAATTTT TTTATAACATGTAAACGACTGGAAGATGTCTCCGTGAGTGTTTGACGGCGAACTTACGGGGCAG GTTGGGCTTGAAGTCGACGGTGAGCTGCACGGCGGCGAGGCGGGCGCCGCCACCGTCGTCGGGG GAGGCGGTGGCCAGGACGGCGCGCGAGTCGCCGACGTTGGCGACGACGAGGAGGTCGCCGTGCT TGACGAGGGACAGCGCGGTGCAGCCGCTGTGGACGGCGTCGAGGCGGCGGCTGGCGCGGAGCTC GGCGTCGACGGCGGCGCAGGCGGCCAGGTAGGACTGGCGCCACAGGTCGGGCCGGCACTCGCAG AGCCGCTTCTCGCCGCCGTCGATGAGCGCCGCCAGCGTCACGGCCTCCCGCCACCGCCGGAGCA GCGCCGGCGGCAGCGACTCCCTCACCGCCTTCGCCACGTAGTGGCCCCACTGCCCGTGCCCGTC GAAGATGCCGCACAACACGCTCCCCTCCTCGCACCCGAATCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_015366 						
					
						PMCS
						0.295384448

Conservation Information
Conserved circRNAs	osi_circ_015366
PMCS	0.295384448

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17019520-17018633(+)
17018763-17018557(-)
						
						Potential amino acid sequence
						
							MPHNTLPSSHPNPPSVARMTKWSWAVIRRCVTSGAEMTP*(+)
MECNGRVQCLADEPGVHRVWRPDREGPGLAMSRAFGDYCVKDYGVISAPEVTHRRITAQDHFVI
LATDGGFGCEEGSVLCGIFDGHGQWGHYVAKAVRESLPPALLRRWREAVTLAALIDGGEKRLCE
CRPDLWRQSYLAACAAVDAELRASRRLDAVHSGCTALSLVKHGDLLVVANVGDSRAVLATASPD
DGGGARLAAVQLTVDFKPNLPQERERIMECNGRVQCLADEPGVHRVWRPDREGPGLAMSRAFGD
YCVKDYGVISAPEVTHRRITAQDHFVILATDGGFGCEEGSVLCGIFDGHGQWGHYVAKAVRESL
PPALLRRWREAVTLAALIDGGEKRLCECRPDLWRQSYLAACAAVDAELRASRRLDAVHSGCTAL
SLVKHGDLLVVANVGDSRAVLATASPDDGGGARLAAVQLTVDFKPNLPQERERIMECNGRVQCL
ADEPGVHRVWRPDREGPGLAMSRAFGDYCVKDYGVISAPEVTHRRITAQDHFVILATDGGFGCE
EGSVLCGIFDGHGQWGHYVAKAVRESLPPALLRRWREAVTLAALIDGGEKRLCECRPDLWRQSY
LAACAAVDAELRASRRLDAVHSGCTALSLVKHGDLLVVANVGDSRAVLATASPDDGGGARLAAV
QLTVDFKPNLPQERERIMECNGRVQCLADEPGVHRVWRPDREGPGLAMSRAFGDYCVKDYGVIS
APEVTHRRITAQDHFVILATDG(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to Pi-starvation

Functional Information
Coding potential	Y
Potential coding position	17019520-17018633(+) 17018763-17018557(-)
Potential amino acid sequence	MPHNTLPSSHPNPPSVARMTKWSWAVIRRCVTSGAEMTP*(+) MECNGRVQCLADEPGVHRVWRPDREGPGLAMSRAFGDYCVKDYGVISAPEVTHRRITAQDHFVI LATDGGFGCEEGSVLCGIFDGHGQWGHYVAKAVRESLPPALLRRWREAVTLAALIDGGEKRLCE CRPDLWRQSYLAACAAVDAELRASRRLDAVHSGCTALSLVKHGDLLVVANVGDSRAVLATASPD DGGGARLAAVQLTVDFKPNLPQERERIMECNGRVQCLADEPGVHRVWRPDREGPGLAMSRAFGD YCVKDYGVISAPEVTHRRITAQDHFVILATDGGFGCEEGSVLCGIFDGHGQWGHYVAKAVRESL PPALLRRWREAVTLAALIDGGEKRLCECRPDLWRQSYLAACAAVDAELRASRRLDAVHSGCTAL SLVKHGDLLVVANVGDSRAVLATASPDDGGGARLAAVQLTVDFKPNLPQERERIMECNGRVQCL ADEPGVHRVWRPDREGPGLAMSRAFGDYCVKDYGVISAPEVTHRRITAQDHFVILATDGGFGCE EGSVLCGIFDGHGQWGHYVAKAVRESLPPALLRRWREAVTLAALIDGGEKRLCECRPDLWRQSY LAACAAVDAELRASRRLDAVHSGCTALSLVKHGDLLVVANVGDSRAVLATASPDDGGGARLAAV QLTVDFKPNLPQERERIMECNGRVQCLADEPGVHRVWRPDREGPGLAMSRAFGDYCVKDYGVIS APEVTHRRITAQDHFVILATDG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to Pi-starvation

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

circRNA

Detail information of Os05g0358500_circ_g.14

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