Plant Circular RNA Database

Detail information of Os08g0118900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os08g0118900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_035664
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 1048480-1049018  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os08g0118900						
					
						Parent gene annotation
						
							Adenylate kinase family protein. (Os08t0118900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						4
					
						Tissues
						shoot, root, anther
					
						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
						Os08t0118900-01:2

General Information
CircRNA Name	Os08g0118900_circ_g.1
ID in PlantcircBase	osa_circ_035664
Alias	NA
Organism	Oryza sativa
Position	chr8: 1048480-1049018 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os08g0118900
Parent gene annotation	Adenylate kinase family protein. (Os08t0118900-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	4
Tissues	shoot, root, anther
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	Os08t0118900-01:2

			
						 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  
						
							GAGCCTTGGGAGCTGTACATGGCCTTCTCAGGTGCAACATGCTGCAGTTTTAGGTCTGGAGGAC
TCGAGAATGGAGAAGATGCGTGCTTATGCTGAACAGattgcaaattcggtgaatgaagggaaac
ttgtgcccgaggacattatatttggattgctgacgaagcgtcttgaggagggatacaataaggg
tgaaactg

						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: 393
Transcript exons: 1048480-1048620,1048767-1049018
ATTGCAAATTCGGTGAATGAAGGGAAACTTGTGCCCGAGGACATTATATTTGGATTGCTGACGA
AGCGTCTTGAGGAGGGATACAATAAGGGTGAAACTGGATTCATCCTTGATGGGATCCCACGCAC
TCATATGCAGGCGGAGATTCTCGATGAGATTGTGGATATCGACTTGGTTCTGAACTTCAAATGT
GCTGATAACTGTTTTATGAAGAGGCGGTTTGGTGGTGACATCTGCCCCCACTGTGGACAGCTTT
TTGATTTTAGCAAAACTGCGTCTTCAGACCGTAATCCGAGCCTTGGGAGCTGTACATGGCCTTC
TCAGGTGCAACATGCTGCAGTTTTAGGTCTGGAGGACTCGAGAATGGAGAAGATGCGTGCTTAT
GCTGAACAG
						
						Genomic sequence
						
							ATTGCAAATTCGGTGAATGAAGGGAAACTTGTGCCCGAGGACATTATATTTGGATTGCTGACGA
AGCGTCTTGAGGAGGGATACAATAAGGGTGAAACTGGATTCATCCTTGATGGGATCCCACGCAC
TCATATGCAGGCGGTAAGTTCCTGTTTGCCTTGTCTGCTTGAACTAAATAACAAAGTTCTCGGT
ATCATGTAATTAGCATTGACATTAGATGTATTGAATTTAGTTATGTCCAACACAGTTACTAATT
TCATTGATCTGTCTGTTTTTGAATGTTTCAGGAGATTCTCGATGAGATTGTGGATATCGACTTG
GTTCTGAACTTCAAATGTGCTGATAACTGTTTTATGAAGAGGCGGTTTGGTGGTGACATCTGCC
CCCACTGTGGACAGCTTTTTGATTTTAGCAAAACTGCGTCTTCAGACCGTAATCCGAGCCTTGG
GAGCTGTACATGGCCTTCTCAGGTGCAACATGCTGCAGTTTTAGGTCTGGAGGACTCGAGAATG
GAGAAGATGCGTGCTTATGCTGAACAG

Sequences
Splice junction sequence	GAGCCTTGGGAGCTGTACATGGCCTTCTCAGGTGCAACATGCTGCAGTTTTAGGTCTGGAGGAC TCGAGAATGGAGAAGATGCGTGCTTATGCTGAACAGattgcaaattcggtgaatgaagggaaac ttgtgcccgaggacattatatttggattgctgacgaagcgtcttgaggagggatacaataaggg tgaaactg
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: 393 Transcript exons: 1048480-1048620,1048767-1049018 ATTGCAAATTCGGTGAATGAAGGGAAACTTGTGCCCGAGGACATTATATTTGGATTGCTGACGA AGCGTCTTGAGGAGGGATACAATAAGGGTGAAACTGGATTCATCCTTGATGGGATCCCACGCAC TCATATGCAGGCGGAGATTCTCGATGAGATTGTGGATATCGACTTGGTTCTGAACTTCAAATGT GCTGATAACTGTTTTATGAAGAGGCGGTTTGGTGGTGACATCTGCCCCCACTGTGGACAGCTTT TTGATTTTAGCAAAACTGCGTCTTCAGACCGTAATCCGAGCCTTGGGAGCTGTACATGGCCTTC TCAGGTGCAACATGCTGCAGTTTTAGGTCTGGAGGACTCGAGAATGGAGAAGATGCGTGCTTAT GCTGAACAG
Genomic sequence	ATTGCAAATTCGGTGAATGAAGGGAAACTTGTGCCCGAGGACATTATATTTGGATTGCTGACGA AGCGTCTTGAGGAGGGATACAATAAGGGTGAAACTGGATTCATCCTTGATGGGATCCCACGCAC TCATATGCAGGCGGTAAGTTCCTGTTTGCCTTGTCTGCTTGAACTAAATAACAAAGTTCTCGGT ATCATGTAATTAGCATTGACATTAGATGTATTGAATTTAGTTATGTCCAACACAGTTACTAATT TCATTGATCTGTCTGTTTTTGAATGTTTCAGGAGATTCTCGATGAGATTGTGGATATCGACTTG GTTCTGAACTTCAAATGTGCTGATAACTGTTTTATGAAGAGGCGGTTTGGTGGTGACATCTGCC CCCACTGTGGACAGCTTTTTGATTTTAGCAAAACTGCGTCTTCAGACCGTAATCCGAGCCTTGG GAGCTGTACATGGCCTTCTCAGGTGCAACATGCTGCAGTTTTAGGTCTGGAGGACTCGAGAATG GAGAAGATGCGTGCTTATGCTGAACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_017726 						
					
						PMCS
						0.261370594

Conservation Information
Conserved circRNAs	osi_circ_017726
PMCS	0.261370594

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1048613-1049015(+)
1048613-1048970(-)
1048588-1049008(-)
						
						Potential amino acid sequence
						
							MQAEILDEIVDIDLVLNFKCADNCFMKRRFGGDICPHCGQLFDFSKTASSDRNPSLGSCTWPSQ
VQHAAVLGLEDSRMEKMRAYAEQIANSVNEGKLVPEDIIFGLLTKRLEEGYNKGETGFILDGIP
RTHMQAEILDEIVDIDLVLNFKCADNCFMKRRFGGDICPHCGQLFDFSKTASSDRNPSLGSCTW
PSQVQHAAVLGLEDSRMEKMRAYAEQIANSVNEGKLVPEDIIFGLLTKRLEEGYNKGETGFILD
GIPRTHMQAEILDEIVDIDLVLNFKCADNCFMKRRFGGDICPHCGQLFDFSKTASSDRNPSLGS
CTWPSQVQHAAVLGLEDSRMEKMRAYAEQIANSVNEGKLVPEDIIFGLLTKRLEEGYNKGETGF
ILDGIPRTHMQAEILDEIVDIDLVLNFKCADNCFMKRRFGGDICPHCGQLFDFSKTASSDRNPS
LGSCTWPSQVQHAAVLGLEDSRMEKMRAYAEQ(+)
MSAWDPIKDESSFTLIVSLLKTLRQQSKYNVLGHKFPFIHRICNLFSISTHLLHSRVLQT*(-)
MNPVSPLLYPSSRRFVSNPNIMSSGTSFPSFTEFAICSA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1048613-1049015(+) 1048613-1048970(-) 1048588-1049008(-)
Potential amino acid sequence	MQAEILDEIVDIDLVLNFKCADNCFMKRRFGGDICPHCGQLFDFSKTASSDRNPSLGSCTWPSQ VQHAAVLGLEDSRMEKMRAYAEQIANSVNEGKLVPEDIIFGLLTKRLEEGYNKGETGFILDGIP RTHMQAEILDEIVDIDLVLNFKCADNCFMKRRFGGDICPHCGQLFDFSKTASSDRNPSLGSCTW PSQVQHAAVLGLEDSRMEKMRAYAEQIANSVNEGKLVPEDIIFGLLTKRLEEGYNKGETGFILD GIPRTHMQAEILDEIVDIDLVLNFKCADNCFMKRRFGGDICPHCGQLFDFSKTASSDRNPSLGS CTWPSQVQHAAVLGLEDSRMEKMRAYAEQIANSVNEGKLVPEDIIFGLLTKRLEEGYNKGETGF ILDGIPRTHMQAEILDEIVDIDLVLNFKCADNCFMKRRFGGDICPHCGQLFDFSKTASSDRNPS LGSCTWPSQVQHAAVLGLEDSRMEKMRAYAEQ(+) MSAWDPIKDESSFTLIVSLLKTLRQQSKYNVLGHKFPFIHRICNLFSISTHLLHSRVLQT(-) MNPVSPLLYPSSRRFVSNPNIMSSGTSFPSFTEFAICSA(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0118900_circ_g.1

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