Plant Circular RNA Database

Detail information of Os08g0343300_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os08g0343300_circ_g.3
					
						ID in PlantcircBase
						osa_circ_036799
					
						Alias
						Os08circ07209/Os_ciR11386
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 15499432-15499929  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os08g0343300						
					
						Parent gene annotation
						
							Zinc finger, RING/FYVE/PHD-type domain containing protein. (Os08
t0343300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0343300_circ_g.2 Os08g0343300_circ_g.4 Os08g0343300_circ_g.5 Os08g0343300_circ_g.6 						
					
						Support reads
						2/2/2
					
						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  
						
							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
						Os08t0343300-01:2

General Information
CircRNA Name	Os08g0343300_circ_g.3
ID in PlantcircBase	osa_circ_036799
Alias	Os08circ07209/Os_ciR11386
Organism	Oryza sativa
Position	chr8: 15499432-15499929 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os08g0343300
Parent gene annotation	Zinc finger, RING/FYVE/PHD-type domain containing protein. (Os08 t0343300-01)
Parent gene strand	+
Alternative splicing	Os08g0343300_circ_g.2 Os08g0343300_circ_g.4 Os08g0343300_circ_g.5 Os08g0343300_circ_g.6
Support reads	2/2/2
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	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	Os08t0343300-01:2

			
						 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  
						
							ACATTTGCTTCTGCGTCTCATTCTGAACGGCAGGTGGGCATGAAATCCAAACGAGAGGATGATG
ATGAGGGTGTTGAATGGGAAGAAGAGCAACCTGCAGgttgaagttgcattgtctggcaccggtg
taaaagatgaaggtgctgaatcaggtacaaatggtaacgggctgaaagtcttgcctccatggat
gatcaaac

						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: 409
Transcript exons: 15499432-15499653,15499743-15499929
GTTGAAGTTGCATTGTCTGGCACCGGTGTAAAAGATGAAGGTGCTGAATCAGGTACAAATGGTA
ACGGGCTGAAAGTCTTGCCTCCATGGATGATCAAACAAGGTATGAATCTTACAAAAGAACAAAG
AGGAGAGACCAGTAACTCATCAAATCTAGATGAAAAATCAGAAGTCAAGGATGAGAAAAAACAG
GACTCAAAAGAAGATGAGAAGAGTATACAGGATGAATACATAAAGGCTTATTATGAGGCCTTAA
GGAAAAGACAGGACGAAGAAGAAGCGAAAAGGAAGATACAGCAGGAAGGGGATACATTTGCTTC
TGCGTCTCATTCTGAACGGCAGGTGGGCATGAAATCCAAACGAGAGGATGATGATGAGGGTGTT
GAATGGGAAGAAGAGCAACCTGCAG
						
						Genomic sequence
						
							GTTGAAGTTGCATTGTCTGGCACCGGTGTAAAAGATGAAGGTGCTGAATCAGGTACAAATGGTA
ACGGGCTGAAAGTCTTGCCTCCATGGATGATCAAACAAGGTATGAATCTTACAAAAGAACAAAG
AGGAGAGACCAGTAACTCATCAAATCTAGATGAAAAATCAGAAGTCAAGGATGAGAAAAAACAG
GACTCAAAAGAAGATGAGAAGAGTATACAGGTCAGTTTGGGAATGAACATAAAATCTGATTTTA
CTTTTAAGATTTATTTTCTGTTCAGAGATACTTATGTTATTCTTTTATTGTGTAGGATGAATAC
ATAAAGGCTTATTATGAGGCCTTAAGGAAAAGACAGGACGAAGAAGAAGCGAAAAGGAAGATAC
AGCAGGAAGGGGATACATTTGCTTCTGCGTCTCATTCTGAACGGCAGGTGGGCATGAAATCCAA
ACGAGAGGATGATGATGAGGGTGTTGAATGGGAAGAAGAGCAACCTGCAG

Sequences
Splice junction sequence	ACATTTGCTTCTGCGTCTCATTCTGAACGGCAGGTGGGCATGAAATCCAAACGAGAGGATGATG ATGAGGGTGTTGAATGGGAAGAAGAGCAACCTGCAGgttgaagttgcattgtctggcaccggtg taaaagatgaaggtgctgaatcaggtacaaatggtaacgggctgaaagtcttgcctccatggat gatcaaac
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: 409 Transcript exons: 15499432-15499653,15499743-15499929 GTTGAAGTTGCATTGTCTGGCACCGGTGTAAAAGATGAAGGTGCTGAATCAGGTACAAATGGTA ACGGGCTGAAAGTCTTGCCTCCATGGATGATCAAACAAGGTATGAATCTTACAAAAGAACAAAG AGGAGAGACCAGTAACTCATCAAATCTAGATGAAAAATCAGAAGTCAAGGATGAGAAAAAACAG GACTCAAAAGAAGATGAGAAGAGTATACAGGATGAATACATAAAGGCTTATTATGAGGCCTTAA GGAAAAGACAGGACGAAGAAGAAGCGAAAAGGAAGATACAGCAGGAAGGGGATACATTTGCTTC TGCGTCTCATTCTGAACGGCAGGTGGGCATGAAATCCAAACGAGAGGATGATGATGAGGGTGTT GAATGGGAAGAAGAGCAACCTGCAG
Genomic sequence	GTTGAAGTTGCATTGTCTGGCACCGGTGTAAAAGATGAAGGTGCTGAATCAGGTACAAATGGTA ACGGGCTGAAAGTCTTGCCTCCATGGATGATCAAACAAGGTATGAATCTTACAAAAGAACAAAG AGGAGAGACCAGTAACTCATCAAATCTAGATGAAAAATCAGAAGTCAAGGATGAGAAAAAACAG GACTCAAAAGAAGATGAGAAGAGTATACAGGTCAGTTTGGGAATGAACATAAAATCTGATTTTA CTTTTAAGATTTATTTTCTGTTCAGAGATACTTATGTTATTCTTTTATTGTGTAGGATGAATAC ATAAAGGCTTATTATGAGGCCTTAAGGAAAAGACAGGACGAAGAAGAAGCGAAAAGGAAGATAC AGCAGGAAGGGGATACATTTGCTTCTGCGTCTCATTCTGAACGGCAGGTGGGCATGAAATCCAA ACGAGAGGATGATGATGAGGGTGTTGAATGGGAAGAAGAGCAACCTGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.251416098

Conservation Information
Conserved circRNAs	NA
PMCS	0.251416098

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							15499523-15499433(+)
15499889-15499433(+)
15499521-15499849(-)
15499755-15499775(-)
						
						Potential amino acid sequence
						
							MIKQGMNLTKEQRGETSNSSNLDEKSEVKDEKKQDSKEDEKSIQDEYIKAYYEALRKRQDEEEA
KRKIQQEGDTFASASHSERQVGMKSKREDDDEGVEWEEEQPAG*(+)
MMMRVLNGKKSNLQVEVALSGTGVKDEGAESGTNGNGLKVLPPWMIKQGMNLTKEQRGETSNSS
NLDEKSEVKDEKKQDSKEDEKSIQDEYIKAYYEALRKRQDEEEAKRKIQQEGDTFASASHSERQ
VGMKSKREDDDEGVEWEEEQPAG*(+)
MEARLSARYHLYLIQHLHLLHRCQTMQLQPAGCSSSHSTPSSSSSRLDFMPTCRSE*(-)
MYSSCILFSSSFESCFFSSLTSDFSSRFDELLVSPLCSFVRFIPCLIIHGGKTFSPLPFVPDSA
PSSFTPVPDNATSTCRLLFFPFNTLIIILSFGFHAHLPFRMRRRSKCIPFLLYLPFRFFFVLSF
P*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	15499523-15499433(+) 15499889-15499433(+) 15499521-15499849(-) 15499755-15499775(-)
Potential amino acid sequence	MIKQGMNLTKEQRGETSNSSNLDEKSEVKDEKKQDSKEDEKSIQDEYIKAYYEALRKRQDEEEA KRKIQQEGDTFASASHSERQVGMKSKREDDDEGVEWEEEQPAG(+) MMMRVLNGKKSNLQVEVALSGTGVKDEGAESGTNGNGLKVLPPWMIKQGMNLTKEQRGETSNSS NLDEKSEVKDEKKQDSKEDEKSIQDEYIKAYYEALRKRQDEEEAKRKIQQEGDTFASASHSERQ VGMKSKREDDDEGVEWEEEQPAG(+) MEARLSARYHLYLIQHLHLLHRCQTMQLQPAGCSSSHSTPSSSSSRLDFMPTCRSE(-) MYSSCILFSSSFESCFFSSLTSDFSSRFDELLVSPLCSFVRFIPCLIIHGGKTFSPLPFVPDSA PSSFTPVPDNATSTCRLLFFPFNTLIIILSFGFHAHLPFRMRRRSKCIPFLLYLPFRFFFVLSF P(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os08g0343300_circ_g.3

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