Plant Circular RNA Database

Detail information of Os03g0641700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0641700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_020753
					
						Alias
						Os03circ20883
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 24728296-24730024  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl
					
						Parent gene
						
							Os03g0641700						
					
						Parent gene annotation
						
							Similar to predicted protein. (Os03t0641700-01);Conserved hypoth
etical protein. (Os03t0641700-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0641700_circ_g.2 Os03g0641700_circ_g.3 Os03g0641700_circ_g.4 Os03g0641700_circ_g.5 Os03g0641700_circ_g.6 						
					
						Support reads
						2/1
					
						Tissues
						panicle/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
						Os03t0641700-02:5
Os03t0641700-01:3

General Information
CircRNA Name	Os03g0641700_circ_g.1
ID in PlantcircBase	osa_circ_020753
Alias	Os03circ20883
Organism	Oryza sativa
Position	chr3: 24728296-24730024 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl
Parent gene	Os03g0641700
Parent gene annotation	Similar to predicted protein. (Os03t0641700-01);Conserved hypoth etical protein. (Os03t0641700-02)
Parent gene strand	+
Alternative splicing	Os03g0641700_circ_g.2 Os03g0641700_circ_g.3 Os03g0641700_circ_g.4 Os03g0641700_circ_g.5 Os03g0641700_circ_g.6
Support reads	2/1
Tissues	panicle/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	Os03t0641700-02:5 Os03t0641700-01:3

			
						 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  
						
							ATGACAAGTTTGTTTCTGGTTAGCCTTGTAATGTGACTCCGTGTTGAATGCTGTCAAAGGTAGC
TTTGAAGTTCTTGCTTGGCAATATCACTTCCCGAAGgtggaccgtggacatgcacactacaaat
gtcagggtttaatcggatgggttctgatggcaattttggcaaaggtgagcttttagttgctttt
ttaacatg

									
								

					

						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: 825
Transcript exons: 24728296-24728367,24728970-24729256,24729376-24729627,24
729717-24729771,24729866-24730024
GTGGACCGTGGACATGCACACTACAAATGTCAGGGTTTAATCGGATGGGTTCTGATGGCAATTT
TGGCAAAGGTCCACGGGAGCTCACTGGTGCTGTTGACTTAATTAGCCGTTACAAGCTCCTGAAC
CATCATAGTTTCTTTTGCAAGAAACCTTTGCCACTGGCAATTTCCGATACAAATTATCTTCACA
ATGTTGTGGGAGACACAGAAATACGTAAAGGGGAAGGAATGGAGCTTGATCAACTCTTTCAGGA
TGCATACCTAAGGGAGAAGACCTCTTACATTCAACCCTTTGACATGGAAACACTTGGACAAGCA
TTTCAGCTGCGAGAAACAGCACCAATAGATTTGCCTTCTGCTGAAAAAGGTACGCCAACTATAT
CGGGTAAATCAAAGATCAAGTCCAAAGACAAAGTAAAGAAGCATAAAAGGCACAAGGAGAAAGA
CAAGGACAAGTACAAGGATCAGAAGAAGCACAAACATCGCCATAAAGATCGGAGTAAAGATAAA
GAAAAAGAAAAAGAAAAAGAAAAGGAAAAAGAAAAGAAGAAGGATAAGAGTGCGCATCACGATT
CAGGAGCTGATCGCTCCAAAAAACATCATGAGAAGAAGAGGAAGCAAGAGGGATTGGAAGATTT
GGCAAGTGGTCATAACCCCAAGAAAGTACAAAAGCGCAAAAATCAATGAAATGAGCAATGGGTT
TCGTTAGTTCTCATGCAAGATATGACAAGTTTGTTTCTGGTTAGCCTTGTAATGTGACTCCGTG
TTGAATGCTGTCAAAGGTAGCTTTGAAGTTCTTGCTTGGCAATATCACTTCCCGAAG
						
					

						Genomic sequence
						
							GTGGACCGTGGACATGCACACTACAAATGTCAGGGTTTAATCGGATGGGTTCTGATGGCAATTT
TGGCAAAGGTGAGCTTTTAGTTGCTTTTTTAACATGAGTGGGTCTCCACATGTATATGGATATG
CATCCATATGCGTTGAGATATGAAGCAAACTTTCAAAACTGAAGCCAACATCTCATACTAATTT
TTTATATCATTGCACAAATCTTAGTGCACATTGGGTGCATAGGAATAAGGTAGTGCATGGACAT
CCATATAAAAATATATATATTTGTGGAGTTATATTTACCAATTTTAATTTATATTCTTTTAATG
CTTACTAGCAAAGGAAAAAAGTGTAGGCTATCTCTGGGTCTACCATGTTGAACAGATTTGAAAT
AAGATTTAGTGTTTAGATAAATCGGATAAATACATAAGTGAATGAATGAAAGAAGCATATGCCT
TATGGTAGTTTTGATCCGAGTAAGTTATGATCTTTTCTGCTTGTCATACTTGTAGATCTTGACT
AGAACAATGTGTCAGTGATGCATTCGCAACAATTAAAGTCACTTCATGTAGGACATCCTTTTAA
CTGTCACAGTATGAAGGCTGCCACTCAATCACATAGCCATCTAGTGCTATCACTGTTTTGCATG
CAAAAAAATATATCGTTTGCTTTTGGTATTTCAGGTCCACGGGAGCTCACTGGTGCTGTTGACT
TAATTAGCCGTTACAAGCTCCTGAACCATCATAGTTTCTTTTGCAAGAAACCTTTGCCACTGGC
AATTTCCGATACAAATTATCTTCACAATGTTGTGGGAGACACAGAAATACGTAAAGGGGAAGGA
ATGGAGCTTGATCAACTCTTTCAGGATGCATACCTAAGGGAGAAGACCTCTTACATTCAACCCT
TTGACATGGAAACACTTGGACAAGCATTTCAGCTGCGAGAAACAGCACCAATAGATTTGCCTTC
TGTAATATCTCTCTCTTAAGAGCATATTTTATTTCTTGCAATTTGCCTTCTGTTAAGAACATTT
ACTTCGTTTGCTGCAATTACTCTTTCTTCTTATCGCAACGCTGTTGTATTCACCAGGCTGAAAA
AGGTACGCCAACTATATCGGGTAAATCAAAGATCAAGTCCAAAGACAAAGTAAAGAAGCATAAA
AGGCACAAGGAGAAAGACAAGGACAAGTACAAGGATCAGAAGAAGCACAAACATCGCCATAAAG
ATCGGAGTAAAGATAAAGAAAAAGAAAAAGAAAAAGAAAAGGAAAAAGAAAAGAAGAAGGATAA
GAGTGCGCATCACGATTCAGGAGCTGATCGCTCCAAAAAACATCATGAGAAGGTTGTTCTATCT
ACCCTGCTTGATGCAAAAGTCAGCCTACCTGATTCACACTTTGTCATGTGCTCTAAAATTTTGA
TGAATTATTTCAGAAGAGGAAGCAAGAGGGATTGGAAGATTTGGCAAGTGGTCATAACCCCAAG
AAAGGTAAGTGAACATTCGTTCAGTAATGTATTACTGCCTGTTGCGCTTATGCTTCGTTAACAT
TTTTGTCCTTGTTACCCTTGTTGATCTATGACAGTACAAAAGCGCAAAAATCAATGAAATGAGC
AATGGGTTTCGTTAGTTCTCATGCAAGATATGACAAGTTTGTTTCTGGTTAGCCTTGTAATGTG
ACTCCGTGTTGAATGCTGTCAAAGGTAGCTTTGAAGTTCTTGCTTGGCAATATCACTTCCCGAA
G
						
					

			
		

Sequences
Splice junction sequence	ATGACAAGTTTGTTTCTGGTTAGCCTTGTAATGTGACTCCGTGTTGAATGCTGTCAAAGGTAGC TTTGAAGTTCTTGCTTGGCAATATCACTTCCCGAAGgtggaccgtggacatgcacactacaaat gtcagggtttaatcggatgggttctgatggcaattttggcaaaggtgagcttttagttgctttt ttaacatg
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: 825 Transcript exons: 24728296-24728367,24728970-24729256,24729376-24729627,24 729717-24729771,24729866-24730024 GTGGACCGTGGACATGCACACTACAAATGTCAGGGTTTAATCGGATGGGTTCTGATGGCAATTT TGGCAAAGGTCCACGGGAGCTCACTGGTGCTGTTGACTTAATTAGCCGTTACAAGCTCCTGAAC CATCATAGTTTCTTTTGCAAGAAACCTTTGCCACTGGCAATTTCCGATACAAATTATCTTCACA ATGTTGTGGGAGACACAGAAATACGTAAAGGGGAAGGAATGGAGCTTGATCAACTCTTTCAGGA TGCATACCTAAGGGAGAAGACCTCTTACATTCAACCCTTTGACATGGAAACACTTGGACAAGCA TTTCAGCTGCGAGAAACAGCACCAATAGATTTGCCTTCTGCTGAAAAAGGTACGCCAACTATAT CGGGTAAATCAAAGATCAAGTCCAAAGACAAAGTAAAGAAGCATAAAAGGCACAAGGAGAAAGA CAAGGACAAGTACAAGGATCAGAAGAAGCACAAACATCGCCATAAAGATCGGAGTAAAGATAAA GAAAAAGAAAAAGAAAAAGAAAAGGAAAAAGAAAAGAAGAAGGATAAGAGTGCGCATCACGATT CAGGAGCTGATCGCTCCAAAAAACATCATGAGAAGAAGAGGAAGCAAGAGGGATTGGAAGATTT GGCAAGTGGTCATAACCCCAAGAAAGTACAAAAGCGCAAAAATCAATGAAATGAGCAATGGGTT TCGTTAGTTCTCATGCAAGATATGACAAGTTTGTTTCTGGTTAGCCTTGTAATGTGACTCCGTG TTGAATGCTGTCAAAGGTAGCTTTGAAGTTCTTGCTTGGCAATATCACTTCCCGAAG
Genomic sequence	GTGGACCGTGGACATGCACACTACAAATGTCAGGGTTTAATCGGATGGGTTCTGATGGCAATTT TGGCAAAGGTGAGCTTTTAGTTGCTTTTTTAACATGAGTGGGTCTCCACATGTATATGGATATG CATCCATATGCGTTGAGATATGAAGCAAACTTTCAAAACTGAAGCCAACATCTCATACTAATTT TTTATATCATTGCACAAATCTTAGTGCACATTGGGTGCATAGGAATAAGGTAGTGCATGGACAT CCATATAAAAATATATATATTTGTGGAGTTATATTTACCAATTTTAATTTATATTCTTTTAATG CTTACTAGCAAAGGAAAAAAGTGTAGGCTATCTCTGGGTCTACCATGTTGAACAGATTTGAAAT AAGATTTAGTGTTTAGATAAATCGGATAAATACATAAGTGAATGAATGAAAGAAGCATATGCCT TATGGTAGTTTTGATCCGAGTAAGTTATGATCTTTTCTGCTTGTCATACTTGTAGATCTTGACT AGAACAATGTGTCAGTGATGCATTCGCAACAATTAAAGTCACTTCATGTAGGACATCCTTTTAA CTGTCACAGTATGAAGGCTGCCACTCAATCACATAGCCATCTAGTGCTATCACTGTTTTGCATG CAAAAAAATATATCGTTTGCTTTTGGTATTTCAGGTCCACGGGAGCTCACTGGTGCTGTTGACT TAATTAGCCGTTACAAGCTCCTGAACCATCATAGTTTCTTTTGCAAGAAACCTTTGCCACTGGC AATTTCCGATACAAATTATCTTCACAATGTTGTGGGAGACACAGAAATACGTAAAGGGGAAGGA ATGGAGCTTGATCAACTCTTTCAGGATGCATACCTAAGGGAGAAGACCTCTTACATTCAACCCT TTGACATGGAAACACTTGGACAAGCATTTCAGCTGCGAGAAACAGCACCAATAGATTTGCCTTC TGTAATATCTCTCTCTTAAGAGCATATTTTATTTCTTGCAATTTGCCTTCTGTTAAGAACATTT ACTTCGTTTGCTGCAATTACTCTTTCTTCTTATCGCAACGCTGTTGTATTCACCAGGCTGAAAA AGGTACGCCAACTATATCGGGTAAATCAAAGATCAAGTCCAAAGACAAAGTAAAGAAGCATAAA AGGCACAAGGAGAAAGACAAGGACAAGTACAAGGATCAGAAGAAGCACAAACATCGCCATAAAG ATCGGAGTAAAGATAAAGAAAAAGAAAAAGAAAAAGAAAAGGAAAAAGAAAAGAAGAAGGATAA GAGTGCGCATCACGATTCAGGAGCTGATCGCTCCAAAAAACATCATGAGAAGGTTGTTCTATCT ACCCTGCTTGATGCAAAAGTCAGCCTACCTGATTCACACTTTGTCATGTGCTCTAAAATTTTGA TGAATTATTTCAGAAGAGGAAGCAAGAGGGATTGGAAGATTTGGCAAGTGGTCATAACCCCAAG AAAGGTAAGTGAACATTCGTTCAGTAATGTATTACTGCCTGTTGCGCTTATGCTTCGTTAACAT TTTTGTCCTTGTTACCCTTGTTGATCTATGACAGTACAAAAGCGCAAAAATCAATGAAATGAGC AATGGGTTTCGTTAGTTCTCATGCAAGATATGACAAGTTTGTTTCTGGTTAGCCTTGTAATGTG ACTCCGTGTTGAATGCTGTCAAAGGTAGCTTTGAAGTTCTTGCTTGGCAATATCACTTCCCGAA G

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.282461346

Conservation Information
Conserved circRNAs	NA
PMCS	0.282461346

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24729973-24728332(+)
24728312-24729946(-)
						
						Potential amino acid sequence
						
							MLSKVALKFLLGNITSRRWTVDMHTTNVRV*(+)
MSTVHLREVILPSKNFKATFDSIQHGVTLQG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24729973-24728332(+) 24728312-24729946(-)
Potential amino acid sequence	MLSKVALKFLLGNITSRRWTVDMHTTNVRV(+) MSTVHLREVILPSKNFKATFDSIQHGVTLQG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os03g0641700_circ_g.1

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