Plant Circular RNA Database

Detail information of Os03g0731500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0731500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_021644
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 29938044-29938932  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0731500						
					
						Parent gene annotation
						
							Similar to Major surface glycoprotein-like. (Os03t0731500-01);Si
milar to Major surface glycoprotein-like. (Os03t0731500-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0731500_circ_g.2 Os03g0731500_circ_g.3 Os03g0731500_circ_g.4 Os03g0731500_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						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
						Os03t0731500-01:3
Os03t0731500-02:3

General Information
CircRNA Name	Os03g0731500_circ_g.1
ID in PlantcircBase	osa_circ_021644
Alias	NA
Organism	Oryza sativa
Position	chr3: 29938044-29938932 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0731500
Parent gene annotation	Similar to Major surface glycoprotein-like. (Os03t0731500-01);Si milar to Major surface glycoprotein-like. (Os03t0731500-02)
Parent gene strand	+
Alternative splicing	Os03g0731500_circ_g.2 Os03g0731500_circ_g.3 Os03g0731500_circ_g.4 Os03g0731500_circ_g.5
Support reads	1
Tissues	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	Os03t0731500-01:3 Os03t0731500-02:3

			
						 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  
						
							GCCTTAGCTGTTGAACCTGTCAAAGGGAACCTTCGGCTCAGTGGGTACTCTGCTTGTGGTCAGG
ATGGAGGTGTACAGCTCCCCCATGCATATATTGAAGattattttgattctgttcttgactcaag
gagcctgctcgagttcccgtgacggcaaaacatcgcctcctcaaggcctggatgctggggagaa
ggacattt

						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: 634
Transcript exons: 29938044-29938403,29938483-29938623,29938800-29938932
ATTATTTTGATTCTGTTCTTGACTCAAGGAGCCTGCTCGAGTTCCCGTGACGGCAAAACATCGC
CTCCTCAAGGCCTGGATGCTGGGGAGAAGGACATTTACCTTAGCCATTCTTGCATTCATGATGA
AATACTTCATCAGCGGCGACGAGCCTGGCGGAAGGAGTACTCTGTCATGCCTCAAGTCTACCAT
GAACGCAGAGAGAACATGGAACGGCTAAGAGGAAGACACTTGCTGGGGGTGTCATCTTGGCATG
CTTCACAGAAGAATGTCAAAAAGCCAATACGGATTTATCTCAACTATGACGCTGTTGGGCATTC
ACCTGACAGGGACTGTAAAACTGTTGGTGACATTGTTAAGCTCGGGGAACCTCCTGTTCCATCA
ATACCAGGAACACCTGTCTGTGATCCTCATGGAGACCCACCATTGGTGGGAGATTGCTGGTACA
ATTGCACCGTTGAGGATATAGCCGGGGAGGACAAGAAGCAAAGGCTTCGAAAGGCACTGGGACA
GACAGTAGAGTGGTTCAGAAAAGCCTTAGCTGTTGAACCTGTCAAAGGGAACCTTCGGCTCAGT
GGGTACTCTGCTTGTGGTCAGGATGGAGGTGTACAGCTCCCCCATGCATATATTGAAG
						
						Genomic sequence
						
							ATTATTTTGATTCTGTTCTTGACTCAAGGAGCCTGCTCGAGTTCCCGTGACGGCAAAACATCGC
CTCCTCAAGGCCTGGATGCTGGGGAGAAGGACATTTACCTTAGCCATTCTTGCATTCATGATGA
AATACTTCATCAGCGGCGACGAGCCTGGCGGAAGGAGTACTCTGTCATGCCTCAAGTCTACCAT
GAACGCAGAGAGAACATGGAACGGCTAAGAGGAAGACACTTGCTGGGGGTGTCATCTTGGCATG
CTTCACAGAAGAATGTCAAAAAGCCAATACGGATTTATCTCAACTATGACGCTGTTGGGCATTC
ACCTGACAGGGACTGTAAAACTGTTGGTGACATTGTTAAGGTAGGTTTAGCTTTTGATTGTGCT
GGCAGCTGCTTCACCGGCGAAGTATATTGTTAAGTTTGTTGTTTGTTCATGTTAGCTCGGGGAA
CCTCCTGTTCCATCAATACCAGGAACACCTGTCTGTGATCCTCATGGAGACCCACCATTGGTGG
GAGATTGCTGGTACAATTGCACCGTTGAGGATATAGCCGGGGAGGACAAGAAGCAAAGGCTTCG
AAAGGTTCATTTTTCTGCCTTCTGTGGTTTCTGCCTGCCACTTCAGTTTGCACTCCATCATGAC
TTGAAAATATGATCTGCCAATGATCTTAAGTCTTGACTGTGATGGAAGATGTAGTAATGCTAGT
CCCTTGTGTTATTGATATCTTTGTTTTTATGCTGAATCGGACCATTGGACAGGCACTGGGACAG
ACAGTAGAGTGGTTCAGAAAAGCCTTAGCTGTTGAACCTGTCAAAGGGAACCTTCGGCTCAGTG
GGTACTCTGCTTGTGGTCAGGATGGAGGTGTACAGCTCCCCCATGCATATATTGAAG

Sequences
Splice junction sequence	GCCTTAGCTGTTGAACCTGTCAAAGGGAACCTTCGGCTCAGTGGGTACTCTGCTTGTGGTCAGG ATGGAGGTGTACAGCTCCCCCATGCATATATTGAAGattattttgattctgttcttgactcaag gagcctgctcgagttcccgtgacggcaaaacatcgcctcctcaaggcctggatgctggggagaa ggacattt
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: 634 Transcript exons: 29938044-29938403,29938483-29938623,29938800-29938932 ATTATTTTGATTCTGTTCTTGACTCAAGGAGCCTGCTCGAGTTCCCGTGACGGCAAAACATCGC CTCCTCAAGGCCTGGATGCTGGGGAGAAGGACATTTACCTTAGCCATTCTTGCATTCATGATGA AATACTTCATCAGCGGCGACGAGCCTGGCGGAAGGAGTACTCTGTCATGCCTCAAGTCTACCAT GAACGCAGAGAGAACATGGAACGGCTAAGAGGAAGACACTTGCTGGGGGTGTCATCTTGGCATG CTTCACAGAAGAATGTCAAAAAGCCAATACGGATTTATCTCAACTATGACGCTGTTGGGCATTC ACCTGACAGGGACTGTAAAACTGTTGGTGACATTGTTAAGCTCGGGGAACCTCCTGTTCCATCA ATACCAGGAACACCTGTCTGTGATCCTCATGGAGACCCACCATTGGTGGGAGATTGCTGGTACA ATTGCACCGTTGAGGATATAGCCGGGGAGGACAAGAAGCAAAGGCTTCGAAAGGCACTGGGACA GACAGTAGAGTGGTTCAGAAAAGCCTTAGCTGTTGAACCTGTCAAAGGGAACCTTCGGCTCAGT GGGTACTCTGCTTGTGGTCAGGATGGAGGTGTACAGCTCCCCCATGCATATATTGAAG
Genomic sequence	ATTATTTTGATTCTGTTCTTGACTCAAGGAGCCTGCTCGAGTTCCCGTGACGGCAAAACATCGC CTCCTCAAGGCCTGGATGCTGGGGAGAAGGACATTTACCTTAGCCATTCTTGCATTCATGATGA AATACTTCATCAGCGGCGACGAGCCTGGCGGAAGGAGTACTCTGTCATGCCTCAAGTCTACCAT GAACGCAGAGAGAACATGGAACGGCTAAGAGGAAGACACTTGCTGGGGGTGTCATCTTGGCATG CTTCACAGAAGAATGTCAAAAAGCCAATACGGATTTATCTCAACTATGACGCTGTTGGGCATTC ACCTGACAGGGACTGTAAAACTGTTGGTGACATTGTTAAGGTAGGTTTAGCTTTTGATTGTGCT GGCAGCTGCTTCACCGGCGAAGTATATTGTTAAGTTTGTTGTTTGTTCATGTTAGCTCGGGGAA CCTCCTGTTCCATCAATACCAGGAACACCTGTCTGTGATCCTCATGGAGACCCACCATTGGTGG GAGATTGCTGGTACAATTGCACCGTTGAGGATATAGCCGGGGAGGACAAGAAGCAAAGGCTTCG AAAGGTTCATTTTTCTGCCTTCTGTGGTTTCTGCCTGCCACTTCAGTTTGCACTCCATCATGAC TTGAAAATATGATCTGCCAATGATCTTAAGTCTTGACTGTGATGGAAGATGTAGTAATGCTAGT CCCTTGTGTTATTGATATCTTTGTTTTTATGCTGAATCGGACCATTGGACAGGCACTGGGACAG ACAGTAGAGTGGTTCAGAAAAGCCTTAGCTGTTGAACCTGTCAAAGGGAACCTTCGGCTCAGTG GGTACTCTGCTTGTGGTCAGGATGGAGGTGTACAGCTCCCCCATGCATATATTGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_005077* 						
					
						PMCS
						0.325228309

Conservation Information
Conserved circRNAs	osi_circ_005077*
PMCS	0.325228309

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29938219-29938090(+)
29938898-29938090(+)
29938237-29938872(-)
						
						Potential amino acid sequence
						
							MPQVYHERRENMERLRGRHLLGVSSWHASQKNVKKPIRIYLNYDAVGHSPDRDCKTVGDIVKLG
EPPVPSIPGTPVCDPHGDPPLVGDCWYNCTVEDIAGEDKKQRLRKALGQTVEWFRKALAVEPVK
GNLRLSGYSACGQDGGVQLPHAYIEDYFDSVLDSRSLLEFP*(+)
MEVYSSPMHILKIILILFLTQGACSSSRDGKTSPPQGLDAGEKDIYLSHSCIHDEILHQRRRAW
RKEYSVMPQVYHERRENMERLRGRHLLGVSSWHASQKNVKKPIRIYLNYDAVGHSPDRDCKTVG
DIVKLGEPPVPSIPGTPVCDPHGDPPLVGDCWYNCTVEDIAGEDKKQRLRKALGQTVEWFRKAL
AVEPVKGNLRLSGYSACGQDGGVQLPHAYIEDYFDSVLDSRSLLEFP*(+)
MVDLRHDRVLLPPGSSPLMKYFIMNARMAKVNVLLPSIQALRRRCFAVTGTRAGSLSQEQNQNN
LQYMHGGAVHLHPDHKQSTH*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29938219-29938090(+) 29938898-29938090(+) 29938237-29938872(-)
Potential amino acid sequence	MPQVYHERRENMERLRGRHLLGVSSWHASQKNVKKPIRIYLNYDAVGHSPDRDCKTVGDIVKLG EPPVPSIPGTPVCDPHGDPPLVGDCWYNCTVEDIAGEDKKQRLRKALGQTVEWFRKALAVEPVK GNLRLSGYSACGQDGGVQLPHAYIEDYFDSVLDSRSLLEFP(+) MEVYSSPMHILKIILILFLTQGACSSSRDGKTSPPQGLDAGEKDIYLSHSCIHDEILHQRRRAW RKEYSVMPQVYHERRENMERLRGRHLLGVSSWHASQKNVKKPIRIYLNYDAVGHSPDRDCKTVG DIVKLGEPPVPSIPGTPVCDPHGDPPLVGDCWYNCTVEDIAGEDKKQRLRKALGQTVEWFRKAL AVEPVKGNLRLSGYSACGQDGGVQLPHAYIEDYFDSVLDSRSLLEFP(+) MVDLRHDRVLLPPGSSPLMKYFIMNARMAKVNVLLPSIQALRRRCFAVTGTRAGSLSQEQNQNN LQYMHGGAVHLHPDHKQSTH*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0731500_circ_g.1

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