Plant Circular RNA Database

Detail information of Os03g0731500_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os03g0731500_circ_g.4
					
						ID in PlantcircBase
						osa_circ_021647
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 29938044-29943309  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.1 Os03g0731500_circ_g.2 Os03g0731500_circ_g.3 Os03g0731500_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os03t0731500-02:10
Os03t0731500-01:10

General Information
CircRNA Name	Os03g0731500_circ_g.4
ID in PlantcircBase	osa_circ_021647
Alias	NA
Organism	Oryza sativa
Position	chr3: 29938044-29943309 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.1 Os03g0731500_circ_g.2 Os03g0731500_circ_g.3 Os03g0731500_circ_g.5
Support reads	1
Tissues	shoot
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	Os03t0731500-02:10 Os03t0731500-01:10

			
						 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  
						
							GTGTATGGCCTCAACTCTAGTGCGAACTGGGTTTGTTCGCGGATCTATGACACAAGGAAATGGC
TGTTATCAGCATCGCTGCACAAATAACTCCTTAGAGattattttgattctgttcttgactcaag
gagcctgctcgagttcccgtgacggcaaaacatcgcctcctcaaggcctggatgctggggagaa
ggacattt

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	GTGTATGGCCTCAACTCTAGTGCGAACTGGGTTTGTTCGCGGATCTATGACACAAGGAAATGGC TGTTATCAGCATCGCTGCACAAATAACTCCTTAGAGattattttgattctgttcttgactcaag gagcctgctcgagttcccgtgacggcaaaacatcgcctcctcaaggcctggatgctggggagaa ggacattt
Assembled circRNA sequence	NA 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	NA
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.130528807

Conservation Information
Conserved circRNAs	NA
PMCS	0.130528807

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							29938219-29943306(+)
29938237-29943306(-)
						
					

						Potential amino acid sequence
						
							MPQVYHERRENMERLRGRHLLGVSSWHASQKNVKKPIRIYLNYDAVGHSPDRDCKTVGDIVKLG
EPPVPSIPGTPVCDPHGDPPLVGDCWYNCTVEDIAGEDKKQRLRKALGQTVEWFRKALAVEPVK
GNLRLSGYSACGQDGGVQLPHAYIEDGVANADLVLLVTTRPTTGNTLAWAVACERDQWGRAIAG
HVNVAPRHLTAEAETLLSATLIHEVMHVLGFDPHAFTHFRDERKRRRSQVTSQILDEKLGRMVT
RVVLPRVVMHSRHHYGAFSQNFTGLELEDGGGRGTSGSHWEKRLLMNEIMTGSVDTRSVVSKMT
LALLEDSGWYQANYSMAEHLDWGRNQGTEFVISPCNLWKGAYRCNTTQLSGCTYNREAEGYCPI
VSYSGDLPKWAQYFPQANKGGQSSLADYCTYYVAYSDGSCTDVNSARAPDRMLGEVRGSNSRCM
ASTLVRTGFVRGSMTQGNGCYQHRCTNNSLEIILILFLTQGACSSSRDGKTSPPQGLDAGEKDI
YLSHSCIHDEILHQRRRAWRKEYSVMPQVYHERRENMERLRGRHLLGVSSWHASQKNVKKPIRI
YLNYDAVGHSPDRDCKTVGDIVKLGEPPVPSIPGTPVCDPHGDPPLVGDCWYNCTVEDIAGEDK
KQRLRKALGQTVEWFRKALAVEPVKGNLRLSGYSACGQDGGVQLPHAYIEDGVANADLVLLVTT
RPTTGNTLAWAVACERDQWGRAIAGHVNVAPRHLTAEAETLLSATLIHEVMHVLGFDPHAFTHF
RDERKRRRSQVTSQILDEKLGRMVTRVVLPRVVMHSRHHYGAFSQNFTGLELEDGGGRGTSGSH
WEKRLLMNEIMTGSVDTRSVVSKMTLALLEDSGWYQANYSMAEHLDWGRNQGTEFVISPCNLWK
GAYRCNTTQLSGCTYNREAEGYCPIVSYSGDLPKWAQYFPQANKGGQSSLADYCTYYVAYSDGS
CTDVNSARAPDRMLGEVRGSNSRCMASTLVRTGFVRGSMTQGNGCYQHRCTNNSLEIILILFLT
QGACSSSRDGKTSPPQGLDAGEKDIYLSHSCIHDEILHQRRRAWRKEYSVMPQVYHERRENMER
LRGRHLLGVSSWHASQKNVKKPIRIYLNYDAVGHSPDRDCKTVGDIVKLGEPPVPSIPGTPVCD
PHGDPPLVGDCWYNCTVEDIAGEDKKQRLRKALGQTVEWFRKALAVEPVKGNLRLSGYSACGQD
GGVQLPHAYIEDGVANADLVLLVTTRPTTGNTLAWAVACERDQWGRAIAGHVNVAPRHLTAEAE
TLLSATLIHEVMHVLGFDPHAFTHFRDERKRRRSQVTSQILDEKLGRMVTRVVLPRVVMHSRHH
YGAFSQNFTGLELEDGGGRGTSGSHWEKRLLMNEIMTGSVDTRSVVSKMTLALLEDSGWYQANY
SMAEHLDWGRNQGTEFVISPCNLWKGAYRCNTTQLSGCTYNREAEGYCPIVSYSGDLPKWAQYF
PQANKGGQSSLADYCTYYVAYSDGSCTDVNSARAPDRMLGEVRGSNSRCMASTLVRTGFVRGSM
TQGNGCYQHRCTNNSLEIILILFLTQGACSSSRDGKTSPPQGLDAGEKDIYLSHSCIHDEILHQ
RRRAWRKEYSVMPQVYHERRENMERLRGRHLLGVSSWHASQKNVKKPIRIYLNYDAVGHSPDRD
CKTVGDIVKLGEPPVPSIPGTPVCDPHGDPPLVGDCWYNCTVEDIAGEDKKQRLRKALGQTVEW
FRKALAVEPVKGNLRLSGYSACGQDGGVQLPHAYIEDGVANADLVLLVTTRPTTGNTLAWAVAC
ERDQWGRAIAGHVNVAPRHLTAEAETLLSATLIHEVMHVLGFDPHAFTHFRDERKRRRSQVTSQ
ILDEKLGRMVTRVVLPRVVMHSRHHYGAFSQNFTGLELEDGGGRGTSGSHWEKRLLMNEIMTGS
VDTRSVVSKMTLALLEDSGWYQANYSMAEHLDWGRNQGTEFVISPCNLWKGAYRCNTTQLSGCT
YNREAEGYCPIVSYSGDLPKWAQYFPQANKGGQSSLADYCTYYVAYSDGSCTDVNSARAPDRML
GEVRGSNSRCMASTLVRTGFVRGSMTQGNGCYQHRCTNNSLE(+)
MVDLRHDRVLLPPGSSPLMKYFIMNARMAKVNVLLPSIQALRRRCFAVTGTRAGSLSQEQNQNN
L*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	29938219-29943306(+) 29938237-29943306(-)
Potential amino acid sequence	MPQVYHERRENMERLRGRHLLGVSSWHASQKNVKKPIRIYLNYDAVGHSPDRDCKTVGDIVKLG EPPVPSIPGTPVCDPHGDPPLVGDCWYNCTVEDIAGEDKKQRLRKALGQTVEWFRKALAVEPVK GNLRLSGYSACGQDGGVQLPHAYIEDGVANADLVLLVTTRPTTGNTLAWAVACERDQWGRAIAG HVNVAPRHLTAEAETLLSATLIHEVMHVLGFDPHAFTHFRDERKRRRSQVTSQILDEKLGRMVT RVVLPRVVMHSRHHYGAFSQNFTGLELEDGGGRGTSGSHWEKRLLMNEIMTGSVDTRSVVSKMT LALLEDSGWYQANYSMAEHLDWGRNQGTEFVISPCNLWKGAYRCNTTQLSGCTYNREAEGYCPI VSYSGDLPKWAQYFPQANKGGQSSLADYCTYYVAYSDGSCTDVNSARAPDRMLGEVRGSNSRCM ASTLVRTGFVRGSMTQGNGCYQHRCTNNSLEIILILFLTQGACSSSRDGKTSPPQGLDAGEKDI YLSHSCIHDEILHQRRRAWRKEYSVMPQVYHERRENMERLRGRHLLGVSSWHASQKNVKKPIRI YLNYDAVGHSPDRDCKTVGDIVKLGEPPVPSIPGTPVCDPHGDPPLVGDCWYNCTVEDIAGEDK KQRLRKALGQTVEWFRKALAVEPVKGNLRLSGYSACGQDGGVQLPHAYIEDGVANADLVLLVTT RPTTGNTLAWAVACERDQWGRAIAGHVNVAPRHLTAEAETLLSATLIHEVMHVLGFDPHAFTHF RDERKRRRSQVTSQILDEKLGRMVTRVVLPRVVMHSRHHYGAFSQNFTGLELEDGGGRGTSGSH WEKRLLMNEIMTGSVDTRSVVSKMTLALLEDSGWYQANYSMAEHLDWGRNQGTEFVISPCNLWK GAYRCNTTQLSGCTYNREAEGYCPIVSYSGDLPKWAQYFPQANKGGQSSLADYCTYYVAYSDGS CTDVNSARAPDRMLGEVRGSNSRCMASTLVRTGFVRGSMTQGNGCYQHRCTNNSLEIILILFLT QGACSSSRDGKTSPPQGLDAGEKDIYLSHSCIHDEILHQRRRAWRKEYSVMPQVYHERRENMER LRGRHLLGVSSWHASQKNVKKPIRIYLNYDAVGHSPDRDCKTVGDIVKLGEPPVPSIPGTPVCD PHGDPPLVGDCWYNCTVEDIAGEDKKQRLRKALGQTVEWFRKALAVEPVKGNLRLSGYSACGQD GGVQLPHAYIEDGVANADLVLLVTTRPTTGNTLAWAVACERDQWGRAIAGHVNVAPRHLTAEAE TLLSATLIHEVMHVLGFDPHAFTHFRDERKRRRSQVTSQILDEKLGRMVTRVVLPRVVMHSRHH YGAFSQNFTGLELEDGGGRGTSGSHWEKRLLMNEIMTGSVDTRSVVSKMTLALLEDSGWYQANY SMAEHLDWGRNQGTEFVISPCNLWKGAYRCNTTQLSGCTYNREAEGYCPIVSYSGDLPKWAQYF PQANKGGQSSLADYCTYYVAYSDGSCTDVNSARAPDRMLGEVRGSNSRCMASTLVRTGFVRGSM TQGNGCYQHRCTNNSLEIILILFLTQGACSSSRDGKTSPPQGLDAGEKDIYLSHSCIHDEILHQ RRRAWRKEYSVMPQVYHERRENMERLRGRHLLGVSSWHASQKNVKKPIRIYLNYDAVGHSPDRD CKTVGDIVKLGEPPVPSIPGTPVCDPHGDPPLVGDCWYNCTVEDIAGEDKKQRLRKALGQTVEW FRKALAVEPVKGNLRLSGYSACGQDGGVQLPHAYIEDGVANADLVLLVTTRPTTGNTLAWAVAC ERDQWGRAIAGHVNVAPRHLTAEAETLLSATLIHEVMHVLGFDPHAFTHFRDERKRRRSQVTSQ ILDEKLGRMVTRVVLPRVVMHSRHHYGAFSQNFTGLELEDGGGRGTSGSHWEKRLLMNEIMTGS VDTRSVVSKMTLALLEDSGWYQANYSMAEHLDWGRNQGTEFVISPCNLWKGAYRCNTTQLSGCT YNREAEGYCPIVSYSGDLPKWAQYFPQANKGGQSSLADYCTYYVAYSDGSCTDVNSARAPDRML GEVRGSNSRCMASTLVRTGFVRGSMTQGNGCYQHRCTNNSLE(+) MVDLRHDRVLLPPGSSPLMKYFIMNARMAKVNVLLPSIQALRRRCFAVTGTRAGSLSQEQNQNN L*(-)
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.4

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