Plant Circular RNA Database

Detail information of Os04g0278550_circ_g.7

			
						 General Information
					
						CircRNA Name
						Os04g0278550_circ_g.7
					
						ID in PlantcircBase
						osa_circ_023266
					
						Alias
						Os_ciR9253
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 11767566-11784395  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os04g0278550						
					
						Parent gene annotation
						
							Hypothetical protein. (Os04t0278550-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os04g0278200_circ_g.1 Os04g0278550_circ_g.1 Os04g0278550_circ_g.2 Os04g0278550_circ_g.3 Os04g0278550_circ_g.4 Os04g0278550_circ_g.5 Os04g0278550_circ_g.6 Os04g0278550_circ_g.8 Os04g0278550_circ_g.9 Os04g0278550_circ_g.10 Os04g0278550_circ_g.11 Os04g0278550_circ_g.12 Os04g0278550_circ_g.13 Os04g0278550_circ_g.14 Os04g0278550_circ_g.15 Os04g0278550_circ_g.16 Os04g0278550_circ_g.17 Os04g0278550_circ_g.18 Os04g0278550_circ_g.19 						
					
						Support reads
						2/1
					
						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
						Os04t0278200-02:12
Os04t0278200-01:11
Os04t0278550-00:7
Os04t0278200-02:12
Os04t0278200-01:11

General Information
CircRNA Name	Os04g0278550_circ_g.7
ID in PlantcircBase	osa_circ_023266
Alias	Os_ciR9253
Organism	Oryza sativa
Position	chr4: 11767566-11784395 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ui-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os04g0278550
Parent gene annotation	Hypothetical protein. (Os04t0278550-00)
Parent gene strand	-
Alternative splicing	Os04g0278200_circ_g.1 Os04g0278550_circ_g.1 Os04g0278550_circ_g.2 Os04g0278550_circ_g.3 Os04g0278550_circ_g.4 Os04g0278550_circ_g.5 Os04g0278550_circ_g.6 Os04g0278550_circ_g.8 Os04g0278550_circ_g.9 Os04g0278550_circ_g.10 Os04g0278550_circ_g.11 Os04g0278550_circ_g.12 Os04g0278550_circ_g.13 Os04g0278550_circ_g.14 Os04g0278550_circ_g.15 Os04g0278550_circ_g.16 Os04g0278550_circ_g.17 Os04g0278550_circ_g.18 Os04g0278550_circ_g.19
Support reads	2/1
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	Os04t0278200-02:12 Os04t0278200-01:11 Os04t0278550-00:7 Os04t0278200-02:12 Os04t0278200-01:11

			
						 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  
						
							CAAGGCTAACCATGCTAAACTTTATTAGTGACAAGGAGGACAGTGACCTAGCAAGATCCAAACT
TGTCAGGGCAAGGCTACTTGTCAATGATTCAATCAGagaaacctagatgaagctgagaagtttt
tccaggcagccctacatgaagcgaaagaaggatttggactgagagatccacatgttgcgtcagc
ccttaaca

									
								

					

						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: 2196
Transcript exons: 11767566-11767670,11768828-11768928,11771554-11771632,11
772179-11772190,11772950-11773015,11774473-11774535,1177
4619-11774675,11781001-11781076,11782573-11782672,117827
59-11784170,11784271-11784395
AGAAACCTAGATGAAGCTGAGAAGTTTTTCCAGGCAGCCCTACATGAAGCGAAAGAAGGATTTG
GACTGAGAGATCCACATGTTGCGTCAGCCCTTAACAATCTGGCTGAGTTTTATAGGTTAAAGAA
AGAATACGAGAAGGCTGAGCTATTGTATCTGGAAGCAATTGAAATCCTGGAAGAATCATTTGGA
TCGGACGATATAAGGGTTGGAACTGCTTTGCATAGTCTTGGAATATGCTACCATCTTCAACGCA
AGTTTGCTCTAGCTCAGACATGTTATGAGCGTGCTTTGAAGATAGAAGGACGTGTTATGGGGAT
TGGTCATCCAGAGTATGCAAGCACAATGTACCTTCTTGGCAAGGTGTTAAGTCAACAAGGAAAA
GATGCAGAAGCCCTTATTGAAGAGTCTATCAGGATATTGGAGGAGTCTGGGCTTGGTGAGTCAC
CAATATGCATACAAAGAATGAGGTATCTCTCCACGGAGTTGATAAAGTCAAATCGACTTGCTGA
AGCTGAAAATTGGCAAAGGAAGATATTACATAATCTGGAACTCTCAAAGGGGTGGGATTCATTT
GACACTACGAATGCAGCTGAACTCTTAACAATGACTCTTCAAACCATGGGGAAGTTGAAGGAAT
CTGAAGAATTATTGGAAAGATGCCTTGAAGTCAGAAAAAGGATTTTGTCTGAGGAACATTTTCA
GGTTTGTATCATATTTAATGTTTCACGTGATCTTTAGTGGAAATAAAACATGAAAGCATCATCT
CAATGAAAAAACTCACGAGCTTTCTTACATGATCACAATTCTCTTGTTTCTTAAAATTATGGTT
GCCAGATCACTTACCAGGTATTTGAGTTTTTCACCACAAGCTCTGCTTTATTGGCAATTAACAC
AGACTGGGAGGTATTTGTGCCATGTGCCCCTGCCACGATGCTTGATTGGGAAGCAATGTAATCA
CTGTTGCTCCATATGTATTTTACTAGGTCATGGTGGCATCGCCAATTCATGTTGATTATCACCA
TTTCCATAGTTTGATGATTACATGATTAGATTGCTTCATTAGTGTTTCACTTCCTTGGTGCATG
CTGTGTCCTGAGAAGCTGAGCCCAAGAAATGCAAATGTTTTGTTGAAGAATGTAGGACTCCCTT
GCTTTAGGTAGAGTATTGTCCATATCACCAATGGCAATTGTCATTGTTGACTGATGGTTGCGGC
AGCTACGGCACACACAAGACCATGTGACCTGCATCTGCTATGTTGAGTTCACGGTGCACCCCTA
CATGTCAGGTGATACAGCAAAATGCCTAGTGGTGGGGAACTGGGGACTCTAGTGGCAAACTGGC
AATCAAAACTAATACTCTAATAGTAGCATTATGATGCTATGATCCTCAAATATTTGGATCAATC
TAATGAAAATAATAATTACCATATAGATACCCTTCAGTCACAAATAAGTGTTGTTTTAGAATCC
ATGCGACATAATTATTACTACATCCGTCCCAGAATATAAGAAGTTTTAGTGTTAGACACGGTTA
TTAAGAAAGTAAGTAGAATTAAATGGAGAGGTTGTGATTGGTTGAGAAGTGGAGGTAGGTGTAG
AAATTGAATGGTGGAGGGTTATGATTGGTTGGGAAGAGAATGTTGATGGAGAAGTTGTAATATT
TTTGGACAAAATTCTTAGTGCTAGAAGTTGTTATATTTTAAGACAGAGGGATTATTGTTTAGAA
TATAGATCTGGGTATATGAAAATAACATGGCCAAATTCGTTATATCAAAAAAGCTTTCATAATG
TCACGCTTCTGCAACTCATTTTGGATTTATGGAATTGAATTAAGTGGTCAAAGTTATGTCTTAT
TGGCTTTTGGCTTTGAAAAGTCGACACTTATTTGTGACTGGAGGGAGTACAGTTTAGTCTTCCA
CAAATATGTTATTGCGAGATTTACTGTTGAAGGTGCATCCCTGGAATCATGAAAAGTCAATAAC
ACCGAGAATTGGGTTTTCCTGCCGTTTCATATACAATCAATTTAATACTGGTTGTCACTAGCAA
CTAGCTGGAACCTAGTCCACCTGGTAGCTGTTACTTTGGTACACTTGGCAAGGCTAACCATGCT
AAACTTTATTAGTGACAAGGAGGACAGTGACCTAGCAAGATCCAAACTTGTCAGGGCAAGGCTA
CTTGTCAATGATTCAATCAG
						
					

						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	CAAGGCTAACCATGCTAAACTTTATTAGTGACAAGGAGGACAGTGACCTAGCAAGATCCAAACT TGTCAGGGCAAGGCTACTTGTCAATGATTCAATCAGagaaacctagatgaagctgagaagtttt tccaggcagccctacatgaagcgaaagaaggatttggactgagagatccacatgttgcgtcagc ccttaaca
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: 2196 Transcript exons: 11767566-11767670,11768828-11768928,11771554-11771632,11 772179-11772190,11772950-11773015,11774473-11774535,1177 4619-11774675,11781001-11781076,11782573-11782672,117827 59-11784170,11784271-11784395 AGAAACCTAGATGAAGCTGAGAAGTTTTTCCAGGCAGCCCTACATGAAGCGAAAGAAGGATTTG GACTGAGAGATCCACATGTTGCGTCAGCCCTTAACAATCTGGCTGAGTTTTATAGGTTAAAGAA AGAATACGAGAAGGCTGAGCTATTGTATCTGGAAGCAATTGAAATCCTGGAAGAATCATTTGGA TCGGACGATATAAGGGTTGGAACTGCTTTGCATAGTCTTGGAATATGCTACCATCTTCAACGCA AGTTTGCTCTAGCTCAGACATGTTATGAGCGTGCTTTGAAGATAGAAGGACGTGTTATGGGGAT TGGTCATCCAGAGTATGCAAGCACAATGTACCTTCTTGGCAAGGTGTTAAGTCAACAAGGAAAA GATGCAGAAGCCCTTATTGAAGAGTCTATCAGGATATTGGAGGAGTCTGGGCTTGGTGAGTCAC CAATATGCATACAAAGAATGAGGTATCTCTCCACGGAGTTGATAAAGTCAAATCGACTTGCTGA AGCTGAAAATTGGCAAAGGAAGATATTACATAATCTGGAACTCTCAAAGGGGTGGGATTCATTT GACACTACGAATGCAGCTGAACTCTTAACAATGACTCTTCAAACCATGGGGAAGTTGAAGGAAT CTGAAGAATTATTGGAAAGATGCCTTGAAGTCAGAAAAAGGATTTTGTCTGAGGAACATTTTCA GGTTTGTATCATATTTAATGTTTCACGTGATCTTTAGTGGAAATAAAACATGAAAGCATCATCT CAATGAAAAAACTCACGAGCTTTCTTACATGATCACAATTCTCTTGTTTCTTAAAATTATGGTT GCCAGATCACTTACCAGGTATTTGAGTTTTTCACCACAAGCTCTGCTTTATTGGCAATTAACAC AGACTGGGAGGTATTTGTGCCATGTGCCCCTGCCACGATGCTTGATTGGGAAGCAATGTAATCA CTGTTGCTCCATATGTATTTTACTAGGTCATGGTGGCATCGCCAATTCATGTTGATTATCACCA TTTCCATAGTTTGATGATTACATGATTAGATTGCTTCATTAGTGTTTCACTTCCTTGGTGCATG CTGTGTCCTGAGAAGCTGAGCCCAAGAAATGCAAATGTTTTGTTGAAGAATGTAGGACTCCCTT GCTTTAGGTAGAGTATTGTCCATATCACCAATGGCAATTGTCATTGTTGACTGATGGTTGCGGC AGCTACGGCACACACAAGACCATGTGACCTGCATCTGCTATGTTGAGTTCACGGTGCACCCCTA CATGTCAGGTGATACAGCAAAATGCCTAGTGGTGGGGAACTGGGGACTCTAGTGGCAAACTGGC AATCAAAACTAATACTCTAATAGTAGCATTATGATGCTATGATCCTCAAATATTTGGATCAATC TAATGAAAATAATAATTACCATATAGATACCCTTCAGTCACAAATAAGTGTTGTTTTAGAATCC ATGCGACATAATTATTACTACATCCGTCCCAGAATATAAGAAGTTTTAGTGTTAGACACGGTTA TTAAGAAAGTAAGTAGAATTAAATGGAGAGGTTGTGATTGGTTGAGAAGTGGAGGTAGGTGTAG AAATTGAATGGTGGAGGGTTATGATTGGTTGGGAAGAGAATGTTGATGGAGAAGTTGTAATATT TTTGGACAAAATTCTTAGTGCTAGAAGTTGTTATATTTTAAGACAGAGGGATTATTGTTTAGAA TATAGATCTGGGTATATGAAAATAACATGGCCAAATTCGTTATATCAAAAAAGCTTTCATAATG TCACGCTTCTGCAACTCATTTTGGATTTATGGAATTGAATTAAGTGGTCAAAGTTATGTCTTAT TGGCTTTTGGCTTTGAAAAGTCGACACTTATTTGTGACTGGAGGGAGTACAGTTTAGTCTTCCA CAAATATGTTATTGCGAGATTTACTGTTGAAGGTGCATCCCTGGAATCATGAAAAGTCAATAAC ACCGAGAATTGGGTTTTCCTGCCGTTTCATATACAATCAATTTAATACTGGTTGTCACTAGCAA CTAGCTGGAACCTAGTCCACCTGGTAGCTGTTACTTTGGTACACTTGGCAAGGCTAACCATGCT AAACTTTATTAGTGACAAGGAGGACAGTGACCTAGCAAGATCCAAACTTGTCAGGGCAAGGCTA CTTGTCAATGATTCAATCAG
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
						0.191862749

Conservation Information
Conserved circRNAs	NA
PMCS	0.191862749

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11784308-11767572(+)
						
						Potential amino acid sequence
						
							MLNFISDKEDSDLARSKLVRARLLVNDSIRET*(+)
						
						Sponge-miRNAs
						
							osa-miR2866 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11784308-11767572(+)
Potential amino acid sequence	MLNFISDKEDSDLARSKLVRARLLVNDSIRET*(+)
Sponge-miRNAs	osa-miR2866
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os04g0278550_circ_g.7

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