Plant Circular RNA Database

Detail information of Os08g0562700_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os08g0562700_circ_g.4
					
						ID in PlantcircBase
						osa_circ_038113
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 28174088-28175267  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os08g0562700						
					
						Parent gene annotation
						
							Similar to peptidase M1 family protein. (Os08t0562700-01);Simila
r to predicted protein. (Os08t0562700-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os08g0562700_circ_g.1 Os08g0562700_circ_g.2 Os08g0562700_circ_g.3 Os08g0562700_circ_g.5 Os08g0562700_circ_g.6 Os08g0562700_circ_g.7 Os08g0562700_circ_g.8 Os08g0562700_circ_g.9 Os08g0562700_circ_g.10 Os08g0562700_circ_g.11 Os08g0562700_circ_g.12 Os08g0562700_circ_g.13 Os08g0562700_circ_g.14 Os08g0562700_circ_g.15 Os08g0562700_circ_g.16 						
					
						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
						Os08t0562700-02:5
Os08t0562700-01:5

General Information
CircRNA Name	Os08g0562700_circ_g.4
ID in PlantcircBase	osa_circ_038113
Alias	NA
Organism	Oryza sativa
Position	chr8: 28174088-28175267 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os08g0562700
Parent gene annotation	Similar to peptidase M1 family protein. (Os08t0562700-01);Simila r to predicted protein. (Os08t0562700-02)
Parent gene strand	-
Alternative splicing	Os08g0562700_circ_g.1 Os08g0562700_circ_g.2 Os08g0562700_circ_g.3 Os08g0562700_circ_g.5 Os08g0562700_circ_g.6 Os08g0562700_circ_g.7 Os08g0562700_circ_g.8 Os08g0562700_circ_g.9 Os08g0562700_circ_g.10 Os08g0562700_circ_g.11 Os08g0562700_circ_g.12 Os08g0562700_circ_g.13 Os08g0562700_circ_g.14 Os08g0562700_circ_g.15 Os08g0562700_circ_g.16
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	Os08t0562700-02:5 Os08t0562700-01:5

			
						 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  
						
							ATCAACAAATTTAGGGTTCAGGGCCAGTGTTTTCTGTTGCTGGAAGTCAGCTACAAGACTGAGC
ATCAGTTTACGTGACAGCACCTGACCAGCTTCCCACcttgttcggattcctcatgtcaaaagca
gggtgaccaagtaacttttgaacgttagcaacatttccagggatgtctgatgtagcttgaagag
caaaccac

									
								

					

						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: 655
Transcript exons: 28174088-28174198,28174319-28174494,28174582-28174663,28
174904-28175050,28175129-28175267
CTTGTTCGGATTCCTCATGTCAAAAGCAGGGTGACCAAGTAACTTTTGAACGTTAGCAACATTT
CCAGGGATGTCTGATGTAGCTTGAAGAGCAAACCACTTGCTTACAACCAAATAATCATGCTGCC
ATTTGTTATAGAAGTCCAGAAGGGTGTCATCACGAACTTGGCCTGGATTTTGAGACAATGCTGC
TAGTGCAGCAAACTGCTCCGTCATGTTAGTAGCAGACTTGTATTCAACAAATGCAAGTTCAGTG
GTGTCCGGTTCATTCAGAGATGCAAGATAAGCAAGGCATGTGTTTTTCAATGCACGGCGGGCCA
TGCTATCATGGTTAAATGTATAAGCTTCAGAACTTCTGTTATTTGTCACTGTTGAAAGAAGGTC
ATCTTTGAGTTGAAGGGCAAGCTCCTTCTTAATAAAGGTACGGACAGCATGAACTGCATCAGGA
TCTGCAACTGGCATCATATCCATAATCTCCCCTTGACCCGGCAAAGTTATCGCTTTCGCAATGA
ATTCTTTATCCAAGCTTGTGTTCCGCAGGATTGATCTAAGTCCATCAACAAATTTAGGGTTCAG
GGCCAGTGTTTTCTGTTGCTGGAAGTCAGCTACAAGACTGAGCATCAGTTTACGTGACAGCACC
TGACCAGCTTCCCAC
						
					

						Genomic sequence
						
							CTTGTTCGGATTCCTCATGTCAAAAGCAGGGTGACCAAGTAACTTTTGAACGTTAGCAACATTT
CCAGGGATGTCTGATGTAGCTTGAAGAGCAAACCACTTGCTTACAACCTATTTGAGAAGAAAGA
CAAGTATGGGCTCCGATGTAAAAAGAAAATTACTGTGCTACTCTGGCATAGATGAATAGCACTT
ATGTATAAGAATGACACATATAAGCAGCAAGCATCTTACCAAATAATCATGCTGCCATTTGTTA
TAGAAGTCCAGAAGGGTGTCATCACGAACTTGGCCTGGATTTTGAGACAATGCTGCTAGTGCAG
CAAACTGCTCCGTCATGTTAGTAGCAGACTTGTATTCAACAAATGCAAGTTCAGTGGTGTCCGG
TTCATTCAGAGATGCAAGATAAGCTGAAAAACAAAACCAGGAAAATATATTTGAAACCACAGTG
TATGGAACAAAATTTCCATGTTAAAATGCTAGATGGAAAGACATACCAAGGCATGTGTTTTTCA
ATGCACGGCGGGCCATGCTATCATGGTTAAATGTATAAGCTTCAGAACTTCTGTTATTTGTCAC
CTGATGAAATAGACATAAATGTAAGTAAAAGACAAGCTCTCTCACACACAAAAATCCCACCCTT
TTGAGTATTCAATAATAAGCAAACAAAAAGCGAAAAAGGTACAACCGCCCTGGTTACGTTTTCA
GCATGTTTACTAGGCACAAGAGTGGAACTTATATCACCTTGAAAAACAATTACTACACCAAAGC
ACATTAGACAGTAACCACATCTACAGACAATAGCTTGGTGCCACTTACTGTTGAAAGAAGGTCA
TCTTTGAGTTGAAGGGCAAGCTCCTTCTTAATAAAGGTACGGACAGCATGAACTGCATCAGGAT
CTGCAACTGGCATCATATCCATAATCTCCCCTTGACCCGGCAAAGTTATCGCTTTCGCAATGAA
TTCCTAAAAGAACACATGTTAGACATTTTACAGTTGAATTCCGTATGATAAAATCATAGTAGCA
TCAGAAAAAAAAAATACTTTATCCAAGCTTGTGTTCCGCAGGATTGATCTAAGTCCATCAACAA
ATTTAGGGTTCAGGGCCAGTGTTTTCTGTTGCTGGAAGTCAGCTACAAGACTGAGCATCAGTTT
ACGTGACAGCACCTGACCAGCTTCCCAC
						
					

			
		

Sequences
Splice junction sequence	ATCAACAAATTTAGGGTTCAGGGCCAGTGTTTTCTGTTGCTGGAAGTCAGCTACAAGACTGAGC ATCAGTTTACGTGACAGCACCTGACCAGCTTCCCACcttgttcggattcctcatgtcaaaagca gggtgaccaagtaacttttgaacgttagcaacatttccagggatgtctgatgtagcttgaagag caaaccac
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: 655 Transcript exons: 28174088-28174198,28174319-28174494,28174582-28174663,28 174904-28175050,28175129-28175267 CTTGTTCGGATTCCTCATGTCAAAAGCAGGGTGACCAAGTAACTTTTGAACGTTAGCAACATTT CCAGGGATGTCTGATGTAGCTTGAAGAGCAAACCACTTGCTTACAACCAAATAATCATGCTGCC ATTTGTTATAGAAGTCCAGAAGGGTGTCATCACGAACTTGGCCTGGATTTTGAGACAATGCTGC TAGTGCAGCAAACTGCTCCGTCATGTTAGTAGCAGACTTGTATTCAACAAATGCAAGTTCAGTG GTGTCCGGTTCATTCAGAGATGCAAGATAAGCAAGGCATGTGTTTTTCAATGCACGGCGGGCCA TGCTATCATGGTTAAATGTATAAGCTTCAGAACTTCTGTTATTTGTCACTGTTGAAAGAAGGTC ATCTTTGAGTTGAAGGGCAAGCTCCTTCTTAATAAAGGTACGGACAGCATGAACTGCATCAGGA TCTGCAACTGGCATCATATCCATAATCTCCCCTTGACCCGGCAAAGTTATCGCTTTCGCAATGA ATTCTTTATCCAAGCTTGTGTTCCGCAGGATTGATCTAAGTCCATCAACAAATTTAGGGTTCAG GGCCAGTGTTTTCTGTTGCTGGAAGTCAGCTACAAGACTGAGCATCAGTTTACGTGACAGCACC TGACCAGCTTCCCAC
Genomic sequence	CTTGTTCGGATTCCTCATGTCAAAAGCAGGGTGACCAAGTAACTTTTGAACGTTAGCAACATTT CCAGGGATGTCTGATGTAGCTTGAAGAGCAAACCACTTGCTTACAACCTATTTGAGAAGAAAGA CAAGTATGGGCTCCGATGTAAAAAGAAAATTACTGTGCTACTCTGGCATAGATGAATAGCACTT ATGTATAAGAATGACACATATAAGCAGCAAGCATCTTACCAAATAATCATGCTGCCATTTGTTA TAGAAGTCCAGAAGGGTGTCATCACGAACTTGGCCTGGATTTTGAGACAATGCTGCTAGTGCAG CAAACTGCTCCGTCATGTTAGTAGCAGACTTGTATTCAACAAATGCAAGTTCAGTGGTGTCCGG TTCATTCAGAGATGCAAGATAAGCTGAAAAACAAAACCAGGAAAATATATTTGAAACCACAGTG TATGGAACAAAATTTCCATGTTAAAATGCTAGATGGAAAGACATACCAAGGCATGTGTTTTTCA ATGCACGGCGGGCCATGCTATCATGGTTAAATGTATAAGCTTCAGAACTTCTGTTATTTGTCAC CTGATGAAATAGACATAAATGTAAGTAAAAGACAAGCTCTCTCACACACAAAAATCCCACCCTT TTGAGTATTCAATAATAAGCAAACAAAAAGCGAAAAAGGTACAACCGCCCTGGTTACGTTTTCA GCATGTTTACTAGGCACAAGAGTGGAACTTATATCACCTTGAAAAACAATTACTACACCAAAGC ACATTAGACAGTAACCACATCTACAGACAATAGCTTGGTGCCACTTACTGTTGAAAGAAGGTCA TCTTTGAGTTGAAGGGCAAGCTCCTTCTTAATAAAGGTACGGACAGCATGAACTGCATCAGGAT CTGCAACTGGCATCATATCCATAATCTCCCCTTGACCCGGCAAAGTTATCGCTTTCGCAATGAA TTCCTAAAAGAACACATGTTAGACATTTTACAGTTGAATTCCGTATGATAAAATCATAGTAGCA TCAGAAAAAAAAAATACTTTATCCAAGCTTGTGTTCCGCAGGATTGATCTAAGTCCATCAACAA ATTTAGGGTTCAGGGCCAGTGTTTTCTGTTGCTGGAAGTCAGCTACAAGACTGAGCATCAGTTT ACGTGACAGCACCTGACCAGCTTCCCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007916* osi_circ_018181 						
					
						PMCS
						0.273689767

Conservation Information
Conserved circRNAs	osi_circ_007916* osi_circ_018181
PMCS	0.273689767

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28175235-28175240(-)
						
						Potential amino acid sequence
						
							MLSLVADFQQQKTLALNPKFVDGLRSILRNTSLDKEFIAKAITLPGQGEIMDMMPVADPDAVHA
VRTFIKKELALQLKDDLLSTVTNNRSSEAYTFNHDSMARRALKNTCLAYLASLNEPDTTELAFV
EYKSATNMTEQFAALAALSQNPGQVRDDTLLDFYNKWQHDYLVVSKWFALQATSDIPGNVANVQ
KLLGHPAFDMRNPNKVGSWSGAVT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28175235-28175240(-)
Potential amino acid sequence	MLSLVADFQQQKTLALNPKFVDGLRSILRNTSLDKEFIAKAITLPGQGEIMDMMPVADPDAVHA VRTFIKKELALQLKDDLLSTVTNNRSSEAYTFNHDSMARRALKNTCLAYLASLNEPDTTELAFV EYKSATNMTEQFAALAALSQNPGQVRDDTLLDFYNKWQHDYLVVSKWFALQATSDIPGNVANVQ KLLGHPAFDMRNPNKVGSWSGAVT*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0562700_circ_g.4

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