Plant Circular RNA Database

Detail information of Os01g0809300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0809300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_004503
					
						Alias
						Os_ciR3543
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 34380217-34381440  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0809300						
					
						Parent gene annotation
						
							Leucine-rich repeat, N-terminal domain containing protein. (Os01
t0809300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0809300_circ_g.2 Os01g0809300_circ_g.3 Os01g0809300_circ_g.4 Os01g0809300_circ_g.5 Os01g0809300_circ_g.6 Os01g0809300_circ_g.7 Os01g0809300_circ_g.8 Os01g0809300_circ_g.9 Os01g0809300_circ_g.10 Os01g0809300_circ_g.11 						
					
						Support reads
						2/2
					
						Tissues
						root/shoot, 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
						Os01t0809300-01:4

General Information
CircRNA Name	Os01g0809300_circ_g.1
ID in PlantcircBase	osa_circ_004503
Alias	Os_ciR3543
Organism	Oryza sativa
Position	chr1: 34380217-34381440 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0809300
Parent gene annotation	Leucine-rich repeat, N-terminal domain containing protein. (Os01 t0809300-01)
Parent gene strand	+
Alternative splicing	Os01g0809300_circ_g.2 Os01g0809300_circ_g.3 Os01g0809300_circ_g.4 Os01g0809300_circ_g.5 Os01g0809300_circ_g.6 Os01g0809300_circ_g.7 Os01g0809300_circ_g.8 Os01g0809300_circ_g.9 Os01g0809300_circ_g.10 Os01g0809300_circ_g.11
Support reads	2/2
Tissues	root/shoot, 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	Os01t0809300-01:4

			
						 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  
						
							GATAAATTTTACCCCCTTGTTCTTTCAGTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCC
TACATCAGGACCATTTGAGCACATTCCCCTAAGCAAggatcttgggaatttgaacttatctggt
catctggtgcctgagcttggaaagttggatcatctgcaatatctgtaagcttttcttgcccatg
tggtttga

									
								

					

						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: 360
Transcript exons: 34380217-34380288,34380657-34380800,34381218-34381289,34
381369-34381440
GGATCTTGGGAATTTGAACTTATCTGGTCATCTGGTGCCTGAGCTTGGAAAGTTGGATCATCTG
CAATATCTGGAGCTATACAAGAATAATATTCAAGGAACGATCCCATCGGAACTTGGTAATTTGA
AGAATCTTATAAGCTTGGACCTGTACAAGAACAACATTTCTGGGACTATACCTCCAACACTTGG
GAAATTAACGTCCCTTGTATTCTTGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGG
GAACTGGCCGGAATATCTAGTCTTAAAGTTGTTGATGTTTCAAGCAATGATCTGTGTGGAACAA
TTCCTACATCAGGACCATTTGAGCACATTCCCCTAAGCAA
						
					

						Genomic sequence
						
							GGATCTTGGGAATTTGAACTTATCTGGTCATCTGGTGCCTGAGCTTGGAAAGTTGGATCATCTG
CAATATCTGTAAGCTTTTCTTGCCCATGTGGTTTGATTCTTTGCTAGTTCTTCTCAATTATTTT
GTTTTACTTCTAATATGACATAGTTTAGTGATTGAGGTAGATAAGATACCATCTCATGTCCTTC
CCACCGCACTCCTAAAACATGATATTGTGACATGGTTTTATACTTTTATGCATATTCTATGGTT
GAACATTTATGTAAGATCCATTTTCTTTTATCTCCAAGATATCTGTCAAGTTCTATTCTCATAC
AGTTTGTGATGTCTGAGAATGATGTATTGAAGTTTTGTTTAGTTTAATGTATGATTGTTAGTTA
TTCGCATAATTTATATTGATGCACTTTGGTAGTATTAACCATCAGCATTGGAACAGGGAGCTAT
ACAAGAATAATATTCAAGGAACGATCCCATCGGAACTTGGTAATTTGAAGAATCTTATAAGCTT
GGACCTGTACAAGAACAACATTTCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTT
GTATTCTTGTAAGTTTGTGTTATTCAAATGATCTCATTGTAAAATAGTTCTAAGTTCTCACATG
TTAGCTACTGATTTCATGCCGTATATGCACATTCTGCATACTTCCTCCATTTCAAACTACAATG
CCTGTGTTTTTACATTCTTACTTCAAAATAAATACGTGTATATCATATAGGTTTATTGATCCAT
ACTCTCTTTTATCTTTGCTGCCTCTTCATCATTTGCGAGCAAACACCTACACAAACTATTTCTA
TCATGGCTATTTTCTGATTTAACTTCGTTAGTCCCTGTTCATGCTTTATAAGAAATAAGCGGGA
ATGCATATTGATGTCTTTAAAACTTTACCTTCAGCTTGTTTGAATTTTCTGGTGGTTTGTTGAC
TTATGCATTCTATCTTTCTAACACATTATTATGCTTTGAAGGCGGCTCAATGGCAATCGCTTGA
CTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTGTAAGTACAATTCCT
GGTGCTGAGTGCTTGGCTGCAAACAATCTTGAATGTGATAAATTTTACCCCCTTGTTCTTTCAG
TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATTTGAGCACATTCCC
CTAAGCAA
						
					

			
		

Sequences
Splice junction sequence	GATAAATTTTACCCCCTTGTTCTTTCAGTGATGTTTCAAGCAATGATCTGTGTGGAACAATTCC TACATCAGGACCATTTGAGCACATTCCCCTAAGCAAggatcttgggaatttgaacttatctggt catctggtgcctgagcttggaaagttggatcatctgcaatatctgtaagcttttcttgcccatg tggtttga
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: 360 Transcript exons: 34380217-34380288,34380657-34380800,34381218-34381289,34 381369-34381440 GGATCTTGGGAATTTGAACTTATCTGGTCATCTGGTGCCTGAGCTTGGAAAGTTGGATCATCTG CAATATCTGGAGCTATACAAGAATAATATTCAAGGAACGATCCCATCGGAACTTGGTAATTTGA AGAATCTTATAAGCTTGGACCTGTACAAGAACAACATTTCTGGGACTATACCTCCAACACTTGG GAAATTAACGTCCCTTGTATTCTTGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGG GAACTGGCCGGAATATCTAGTCTTAAAGTTGTTGATGTTTCAAGCAATGATCTGTGTGGAACAA TTCCTACATCAGGACCATTTGAGCACATTCCCCTAAGCAA
Genomic sequence	GGATCTTGGGAATTTGAACTTATCTGGTCATCTGGTGCCTGAGCTTGGAAAGTTGGATCATCTG CAATATCTGTAAGCTTTTCTTGCCCATGTGGTTTGATTCTTTGCTAGTTCTTCTCAATTATTTT GTTTTACTTCTAATATGACATAGTTTAGTGATTGAGGTAGATAAGATACCATCTCATGTCCTTC CCACCGCACTCCTAAAACATGATATTGTGACATGGTTTTATACTTTTATGCATATTCTATGGTT GAACATTTATGTAAGATCCATTTTCTTTTATCTCCAAGATATCTGTCAAGTTCTATTCTCATAC AGTTTGTGATGTCTGAGAATGATGTATTGAAGTTTTGTTTAGTTTAATGTATGATTGTTAGTTA TTCGCATAATTTATATTGATGCACTTTGGTAGTATTAACCATCAGCATTGGAACAGGGAGCTAT ACAAGAATAATATTCAAGGAACGATCCCATCGGAACTTGGTAATTTGAAGAATCTTATAAGCTT GGACCTGTACAAGAACAACATTTCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTT GTATTCTTGTAAGTTTGTGTTATTCAAATGATCTCATTGTAAAATAGTTCTAAGTTCTCACATG TTAGCTACTGATTTCATGCCGTATATGCACATTCTGCATACTTCCTCCATTTCAAACTACAATG CCTGTGTTTTTACATTCTTACTTCAAAATAAATACGTGTATATCATATAGGTTTATTGATCCAT ACTCTCTTTTATCTTTGCTGCCTCTTCATCATTTGCGAGCAAACACCTACACAAACTATTTCTA TCATGGCTATTTTCTGATTTAACTTCGTTAGTCCCTGTTCATGCTTTATAAGAAATAAGCGGGA ATGCATATTGATGTCTTTAAAACTTTACCTTCAGCTTGTTTGAATTTTCTGGTGGTTTGTTGAC TTATGCATTCTATCTTTCTAACACATTATTATGCTTTGAAGGCGGCTCAATGGCAATCGCTTGA CTGGGCCAATCCCAAGGGAACTGGCCGGAATATCTAGTCTTAAAGTTGTGTAAGTACAATTCCT GGTGCTGAGTGCTTGGCTGCAAACAATCTTGAATGTGATAAATTTTACCCCCTTGTTCTTTCAG TGATGTTTCAAGCAATGATCTGTGTGGAACAATTCCTACATCAGGACCATTTGAGCACATTCCC CTAAGCAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010841 						
					
						PMCS
						0.440303427

Conservation Information
Conserved circRNAs	osi_circ_010841
PMCS	0.440303427

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							34380696-34381406(-)
						
						Potential amino acid sequence
						
							MGSFLEYYSCIAPDIADDPTFQAQAPDDQISSNSQDPCLGECAQMVLM*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	34380696-34381406(-)
Potential amino acid sequence	MGSFLEYYSCIAPDIADDPTFQAQAPDDQISSNSQDPCLGECAQMVLM*(-)
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 Os01g0809300_circ_g.1

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