Plant Circular RNA Database

Detail information of Os02g0714000_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0714000_circ_g.1
					
						ID in PlantcircBase
						osa_circ_016238
					
						Alias
						Os_ciR8033
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 29595186-29595991  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0714000						
					
						Parent gene annotation
						
							Similar to Yarrowia lipolytica chromosome C of strain CLIB99 of 
Yarrowia lipolytica. (Os02t0714000-01);Similar to Yarrowia lipol
ytica chromosome C of strain CLIB99 of Yarrowia lipolytica. (Os0
2t0714000-02);Hypothetical gene. (Os02t0714000-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0714000_circ_g.2 						
					
						Support reads
						2/1
					
						Tissues
						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  
						
							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
						Os02t0714000-01:2
Os02t0714000-02:2

General Information
CircRNA Name	Os02g0714000_circ_g.1
ID in PlantcircBase	osa_circ_016238
Alias	Os_ciR8033
Organism	Oryza sativa
Position	chr2: 29595186-29595991 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0714000
Parent gene annotation	Similar to Yarrowia lipolytica chromosome C of strain CLIB99 of Yarrowia lipolytica. (Os02t0714000-01);Similar to Yarrowia lipol ytica chromosome C of strain CLIB99 of Yarrowia lipolytica. (Os0 2t0714000-02);Hypothetical gene. (Os02t0714000-03)
Parent gene strand	+
Alternative splicing	Os02g0714000_circ_g.2
Support reads	2/1
Tissues	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	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	Os02t0714000-01:2 Os02t0714000-02:2

			
						 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  
						
							TTGGCGTTCCAGTTCCAAGGGGTGTTTATGTAGGGGGTTATGGTCAGCACCGGACACTTCCTCT
TGGGTATTACCAAGGATTCCCGGTTCCGCAATACAGgtgacgttccgcgatcctgagtcggcga
ggaaggcatgcgaggacccgacgccggtgatcgacggcaggcgtgccaattgtaacctggcgtc
gcttggcc

						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: 251
Transcript exons: 29595186-29595309,29595865-29595991
GTGACGTTCCGCGATCCTGAGTCGGCGAGGAAGGCATGCGAGGACCCGACGCCGGTGATCGACG
GCAGGCGTGCCAATTGTAACCTGGCGTCGCTTGGCCGCGCTCAGCCTGCAGTTCCTCTCGGGAG
GCCAAGATCAGCTGGGTCCTACTTTGGCGTTCCAGTTCCAAGGGGTGTTTATGTAGGGGGTTAT
GGTCAGCACCGGACACTTCCTCTTGGGTATTACCAAGGATTCCCGGTTCCGCAATACAG
						
						Genomic sequence
						
							GTGACGTTCCGCGATCCTGAGTCGGCGAGGAAGGCATGCGAGGACCCGACGCCGGTGATCGACG
GCAGGCGTGCCAATTGTAACCTGGCGTCGCTTGGCCGCGCTCAGCCTGCAGTTCCTCTCGGTAT
TGATCTCCCTGCCTTGACACTGATTTGCACTAACTTATTCGAGTAGATTATGAGCACATTTTGA
TACCACCGTGAGGATTTGCTTGCTAGCAAGTTACTGCAGTGGTATCTGTGGTATGATTGTGTTG
CCTTCTGCAAACTTATTTGATCGGTTCTACATTGTGTTTGCTCTAGAATTTAGTTACCCGCACT
CGTCCTCCTAGAATAAGACAACTATGGAAAGAAGAAAAATTGATAATCAAGTGAACATAGGTAC
AGTCAACTATATACCTTCTCAAGTGGGTTTGGGACTTAAAATAACACCACAGGTGAGCTAAAAT
GATACTGAGCATTCATTTGAACAGAAGTACTGATGATGTTGGTGTTTGGCATGTGCTTGTTTTG
TTTTGCAAACAAAAAACTACAAATTACAGTATGCCACCCCTAATGGTGATACGATGACTACTAA
TATACCATTTTGGTACCTTAAACAGTTCTTGGAAGTGCTCATGCGGTGATAATAGTTCTATTTC
TGTAAGCATTTGTTCTGAATACATGCACAATCTTTTCAGGGAGGCCAAGATCAGCTGGGTCCTA
CTTTGGCGTTCCAGTTCCAAGGGGTGTTTATGTAGGGGGTTATGGTCAGCACCGGACACTTCCT
CTTGGGTATTACCAAGGATTCCCGGTTCCGCAATACAG

Sequences
Splice junction sequence	TTGGCGTTCCAGTTCCAAGGGGTGTTTATGTAGGGGGTTATGGTCAGCACCGGACACTTCCTCT TGGGTATTACCAAGGATTCCCGGTTCCGCAATACAGgtgacgttccgcgatcctgagtcggcga ggaaggcatgcgaggacccgacgccggtgatcgacggcaggcgtgccaattgtaacctggcgtc gcttggcc
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: 251 Transcript exons: 29595186-29595309,29595865-29595991 GTGACGTTCCGCGATCCTGAGTCGGCGAGGAAGGCATGCGAGGACCCGACGCCGGTGATCGACG GCAGGCGTGCCAATTGTAACCTGGCGTCGCTTGGCCGCGCTCAGCCTGCAGTTCCTCTCGGGAG GCCAAGATCAGCTGGGTCCTACTTTGGCGTTCCAGTTCCAAGGGGTGTTTATGTAGGGGGTTAT GGTCAGCACCGGACACTTCCTCTTGGGTATTACCAAGGATTCCCGGTTCCGCAATACAG
Genomic sequence	GTGACGTTCCGCGATCCTGAGTCGGCGAGGAAGGCATGCGAGGACCCGACGCCGGTGATCGACG GCAGGCGTGCCAATTGTAACCTGGCGTCGCTTGGCCGCGCTCAGCCTGCAGTTCCTCTCGGTAT TGATCTCCCTGCCTTGACACTGATTTGCACTAACTTATTCGAGTAGATTATGAGCACATTTTGA TACCACCGTGAGGATTTGCTTGCTAGCAAGTTACTGCAGTGGTATCTGTGGTATGATTGTGTTG CCTTCTGCAAACTTATTTGATCGGTTCTACATTGTGTTTGCTCTAGAATTTAGTTACCCGCACT CGTCCTCCTAGAATAAGACAACTATGGAAAGAAGAAAAATTGATAATCAAGTGAACATAGGTAC AGTCAACTATATACCTTCTCAAGTGGGTTTGGGACTTAAAATAACACCACAGGTGAGCTAAAAT GATACTGAGCATTCATTTGAACAGAAGTACTGATGATGTTGGTGTTTGGCATGTGCTTGTTTTG TTTTGCAAACAAAAAACTACAAATTACAGTATGCCACCCCTAATGGTGATACGATGACTACTAA TATACCATTTTGGTACCTTAAACAGTTCTTGGAAGTGCTCATGCGGTGATAATAGTTCTATTTC TGTAAGCATTTGTTCTGAATACATGCACAATCTTTTCAGGGAGGCCAAGATCAGCTGGGTCCTA CTTTGGCGTTCCAGTTCCAAGGGGTGTTTATGTAGGGGGTTATGGTCAGCACCGGACACTTCCT CTTGGGTATTACCAAGGATTCCCGGTTCCGCAATACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.345390984

Conservation Information
Conserved circRNAs	NA
PMCS	0.345390984

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29595932-29595202(+)
29595224-29595878(-)
						
						Potential amino acid sequence
						
							MVSTGHFLLGITKDSRFRNTGDVPRS*(+)
MPSSPTQDRGTSPVLRNRESLVIPKRKCPVLTITPYINTPWNWNAKVGPS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29595932-29595202(+) 29595224-29595878(-)
Potential amino acid sequence	MVSTGHFLLGITKDSRFRNTGDVPRS(+) MPSSPTQDRGTSPVLRNRESLVIPKRKCPVLTITPYINTPWNWNAKVGPS(-)
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 Os02g0714000_circ_g.1

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