Plant Circular RNA Database

Detail information of Os02g0707900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0707900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_016173
					
						Alias
						Os_ciR8019
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 29262974-29263382  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0707900						
					
						Parent gene annotation
						
							Rossmann-like alpha/beta/alpha sandwich fold domain containing p
rotein. (Os02t0707900-01);Rossmann-like alpha/beta/alpha sandwic
h fold domain containing protein. (Os02t0707900-02);Hypothetical
 conserved gene. (Os02t0707900-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/2
					
						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  
						
							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
						Os02t0707900-02:2
Os02t0707900-01:2

General Information
CircRNA Name	Os02g0707900_circ_g.1
ID in PlantcircBase	osa_circ_016173
Alias	Os_ciR8019
Organism	Oryza sativa
Position	chr2: 29262974-29263382 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0707900
Parent gene annotation	Rossmann-like alpha/beta/alpha sandwich fold domain containing p rotein. (Os02t0707900-01);Rossmann-like alpha/beta/alpha sandwic h fold domain containing protein. (Os02t0707900-02);Hypothetical conserved gene. (Os02t0707900-03)
Parent gene strand	-
Alternative splicing	NA
Support reads	2/2
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	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	Os02t0707900-02:2 Os02t0707900-01:2

			
						 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  
						
							ACAAAGTGCTCGAGCAAGTGAAGCCCTCTTATCTTGTCTCTCTGTTTCATTCTCTGAAAGTCTG
GTGGAGATGCATAGATGCTATCCATATCATCAAATCctctgaaatggtccaaggcccctacttc
ccacaactagaagatctggttgaactctcttcacctcgctgcagatgacttcctttggatcccc
ttgtttaa

						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
						
							CTCTGAAATGGTCCAAGGCCCCTACTTCCCACAACTAGAAGATCTGGTTGAACTCTCTTCACCT
CGCTGCAGATGACTTCCTTTGGATCCCCTTGTTTAATCCATGCTTCACATTTTATCTGCAAATA
ATTAGACAAACGCCAGAACATTAAACAAAAAAGATCAGTACTATTGGCTATTGGAGTCTGCAAT
AGTCAAGAAAACACACTTAATTTTCTGTGTGCTGACCAATTTCAATTAACCATCCTCAGGAAAA
GGACTGAAAAGAAATATGGAGGTTTGATTACCTCCAGTTGATGGCATTGATTCACAAAGTGCTC
GAGCAAGTGAAGCCCTCTTATCTTGTCTCTCTGTTTCATTCTCTGAAAGTCTGGTGGAGATGCA
TAGATGCTATCCATATCATCAAATC

Sequences
Splice junction sequence	ACAAAGTGCTCGAGCAAGTGAAGCCCTCTTATCTTGTCTCTCTGTTTCATTCTCTGAAAGTCTG GTGGAGATGCATAGATGCTATCCATATCATCAAATCctctgaaatggtccaaggcccctacttc ccacaactagaagatctggttgaactctcttcacctcgctgcagatgacttcctttggatcccc ttgtttaa
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	CTCTGAAATGGTCCAAGGCCCCTACTTCCCACAACTAGAAGATCTGGTTGAACTCTCTTCACCT CGCTGCAGATGACTTCCTTTGGATCCCCTTGTTTAATCCATGCTTCACATTTTATCTGCAAATA ATTAGACAAACGCCAGAACATTAAACAAAAAAGATCAGTACTATTGGCTATTGGAGTCTGCAAT AGTCAAGAAAACACACTTAATTTTCTGTGTGCTGACCAATTTCAATTAACCATCCTCAGGAAAA GGACTGAAAAGAAATATGGAGGTTTGATTACCTCCAGTTGATGGCATTGATTCACAAAGTGCTC GAGCAAGTGAAGCCCTCTTATCTTGTCTCTCTGTTTCATTCTCTGAAAGTCTGGTGGAGATGCA TAGATGCTATCCATATCATCAAATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.172983007

Conservation Information
Conserved circRNAs	NA
PMCS	0.172983007

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29263078-29262976(+)
29263271-29263046(+)
29263373-29263378(-)
						
						Potential amino acid sequence
						
							MLHILSPVDGIDSQSARASEALLSCLSVSFSESLVEMHRCYPYHQIL*(+)
MALIHKVLEQVKPSYLVSLFHSLKVWWRCIDAIHIIKSSEMVQGPYFPQLEDLVELSSPRCR*(
+)
MDSIYASPPDFQRMKQRDKIRGLHLLEHFVNQCHQLEIKCEAWIKQGDPKEVICSEVKRVQPDL
LVVGSRGLGPFQRI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29263078-29262976(+) 29263271-29263046(+) 29263373-29263378(-)
Potential amino acid sequence	MLHILSPVDGIDSQSARASEALLSCLSVSFSESLVEMHRCYPYHQIL(+) MALIHKVLEQVKPSYLVSLFHSLKVWWRCIDAIHIIKSSEMVQGPYFPQLEDLVELSSPRCR( +) MDSIYASPPDFQRMKQRDKIRGLHLLEHFVNQCHQLEIKCEAWIKQGDPKEVICSEVKRVQPDL LVVGSRGLGPFQRI*(-)
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 Os02g0707900_circ_g.1

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