Plant Circular RNA Database

Detail information of Os04g0441900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os04g0441900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_023931
					
						Alias
						Os04circ05861
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 21990638-21992247  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os04g0441900						
					
						Parent gene annotation
						
							Cleft lip and palate transmembrane 1 family protein. (Os04t04419
00-01);Similar to transmembrane CLPTM1 family protein. (Os04t044
1900-02);Similar to predicted protein. (Os04t0441900-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						3
					
						Tissues
						panicle
					
						Exon boundary  
						
							No-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  
						
							CT-AC							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
						Os04t0441900-01:4
Os04t0441900-03:4
Os04t0441900-02:4

General Information
CircRNA Name	Os04g0441900_circ_g.1
ID in PlantcircBase	osa_circ_023931
Alias	Os04circ05861
Organism	Oryza sativa
Position	chr4: 21990638-21992247 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os04g0441900
Parent gene annotation	Cleft lip and palate transmembrane 1 family protein. (Os04t04419 00-01);Similar to transmembrane CLPTM1 family protein. (Os04t044 1900-02);Similar to predicted protein. (Os04t0441900-03)
Parent gene strand	-
Alternative splicing	NA
Support reads	3
Tissues	panicle
Exon boundary	No-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	CT-AC 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	Os04t0441900-01:4 Os04t0441900-03:4 Os04t0441900-02:4

			
						 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  
						
							ACAGTCTCATTGAGTGCTATCAATTTATCTCTCAGTAGCCAAAACTCATTGAAGAATACAGTTG
GGTAGTAGTTGTTTGAAGATGGATCAACATTCAAATttcattgcaattgcgtcatactcctttg
tcttattctgtgcatatgattcacggtcccggaacctcaacatgggaatctttccacttctatc
gatctgaa

									
								

					

						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
						
							TTCATTGCAATTGCGTCATACTCCTTTGTCTTATTCTGTGCATATGATTCACGGTCCCGGAACC
TCAACATGGGAATCTTTCCACTTCTATCGATCTGAACAGGAGTGAAGAGTTGTGACAAATTGAT
CAAAGAAAACATCAGAACTGATGCAAAGATTTCTACATCATTGAGCTCAAAAGATGGATGCAAT
CACGCTATATAGACAAACACAATTATGTATGACGAAAAAATATCTTGCCATAGACTATACCTAG
TACCAAATATTAATGGTTTGACGTAACAAGAAAAGCCATAAAAATAAAGGGCTGATTTTGAGTT
GACTAAAATCACCAATACATTGGACTTCATGAACAGAATTGGCAAATGCACAAAACAAAGTTAA
ATCCAATACTCAAAATGGAGTAATCAGTGAAAAATCCACAATAATCATGAGATCTTTGTTATCT
CAATATACTAATGCTTTATCCATTAAAAATACCAGTGCTTTATTCAGTGCTATAAATACAACTT
TTCAGGTGAAGATCACTAGATCTATCAGTTCCATTTATACATTTTATTACTTTCACTTTTATGC
ATAAGATGGGTTCCATTCATACAATTATATCTGACTGAAAAATATTAAGAATAACAGAACTAGG
TGACAAAATGACCATAAAGGATAGAGAACCATATCTTAAATGGCCTACCTCAACATGCATTGCT
TTTCCAATCTTCCAAAATTCAATGCAAACACCAATTCCAGAGCTACCAAGGATCATCCATGAAG
TCTCATTGTCGAGCAGGTAGAGGAAAATAATCAGCTGGCATACAAAGTTCAGAACCACGGATTT
TGCTGATAGACCTTCCATGGACTTGTTCTTATTCCAGAACTGAATATCTAAGCAATGGCACAAG
AATATCATCAAATGTAAATGGAGTTACTTTTGGATAAAATACTTATGGTTACCATATACATGGT
AATATGTAACTATGCAATGTACGTACCATTTTTGAAAGCCAGAAAATCAAACAGAGAGTGGAAC
AGAGAAACAATCATGGTCAATCCCAAAAAGTATGGATTTCCTTCAAGGAAAACTCTCTGCAAAT
AACAAAAAGGAGTCGAGGGTCAGCTCAATGAGTAATCAAAACCATCCAAGGAAGATGGAAACTT
GTAACAATATCATTCAATCAACATACTAATAATATCACAAAAGTAACCATCTATAAGGCTCTAA
AGAATATGAAATAGAGGTGCATATGTAGTATACTAGTGGAATCTCAGCAAGATAAAGCAGGTAC
TGTAAGGGTGGTCACAGAGCATAGAAGGTATATATAAACAAAATGTGTGTATGTGGATAGATAC
AAATTTATAATTGAGGATATCTGCATGTACCTTGAGCTCATCAGCCTCCCCTTCAAGCATACTT
CCATAACTGCGATGAACTTGGAAGGACTGCTCCATCTGAAGAAATATTTGCCACTTGGTCATGC
TAATAGGACCAACTTCAAGGTTCAAAGGCAGTTCCTCCACAGTCTCATTGAGTGCTATCAATTT
ATCTCTCAGTAGCCAAAACTCATTGAAGAATACAGTTGGGTAGTAGTTGTTTGAAGATGGATCA
ACATTCAAAT
						
					

			
		

Sequences
Splice junction sequence	ACAGTCTCATTGAGTGCTATCAATTTATCTCTCAGTAGCCAAAACTCATTGAAGAATACAGTTG GGTAGTAGTTGTTTGAAGATGGATCAACATTCAAATttcattgcaattgcgtcatactcctttg tcttattctgtgcatatgattcacggtcccggaacctcaacatgggaatctttccacttctatc gatctgaa
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	TTCATTGCAATTGCGTCATACTCCTTTGTCTTATTCTGTGCATATGATTCACGGTCCCGGAACC TCAACATGGGAATCTTTCCACTTCTATCGATCTGAACAGGAGTGAAGAGTTGTGACAAATTGAT CAAAGAAAACATCAGAACTGATGCAAAGATTTCTACATCATTGAGCTCAAAAGATGGATGCAAT CACGCTATATAGACAAACACAATTATGTATGACGAAAAAATATCTTGCCATAGACTATACCTAG TACCAAATATTAATGGTTTGACGTAACAAGAAAAGCCATAAAAATAAAGGGCTGATTTTGAGTT GACTAAAATCACCAATACATTGGACTTCATGAACAGAATTGGCAAATGCACAAAACAAAGTTAA ATCCAATACTCAAAATGGAGTAATCAGTGAAAAATCCACAATAATCATGAGATCTTTGTTATCT CAATATACTAATGCTTTATCCATTAAAAATACCAGTGCTTTATTCAGTGCTATAAATACAACTT TTCAGGTGAAGATCACTAGATCTATCAGTTCCATTTATACATTTTATTACTTTCACTTTTATGC ATAAGATGGGTTCCATTCATACAATTATATCTGACTGAAAAATATTAAGAATAACAGAACTAGG TGACAAAATGACCATAAAGGATAGAGAACCATATCTTAAATGGCCTACCTCAACATGCATTGCT TTTCCAATCTTCCAAAATTCAATGCAAACACCAATTCCAGAGCTACCAAGGATCATCCATGAAG TCTCATTGTCGAGCAGGTAGAGGAAAATAATCAGCTGGCATACAAAGTTCAGAACCACGGATTT TGCTGATAGACCTTCCATGGACTTGTTCTTATTCCAGAACTGAATATCTAAGCAATGGCACAAG AATATCATCAAATGTAAATGGAGTTACTTTTGGATAAAATACTTATGGTTACCATATACATGGT AATATGTAACTATGCAATGTACGTACCATTTTTGAAAGCCAGAAAATCAAACAGAGAGTGGAAC AGAGAAACAATCATGGTCAATCCCAAAAAGTATGGATTTCCTTCAAGGAAAACTCTCTGCAAAT AACAAAAAGGAGTCGAGGGTCAGCTCAATGAGTAATCAAAACCATCCAAGGAAGATGGAAACTT GTAACAATATCATTCAATCAACATACTAATAATATCACAAAAGTAACCATCTATAAGGCTCTAA AGAATATGAAATAGAGGTGCATATGTAGTATACTAGTGGAATCTCAGCAAGATAAAGCAGGTAC TGTAAGGGTGGTCACAGAGCATAGAAGGTATATATAAACAAAATGTGTGTATGTGGATAGATAC AAATTTATAATTGAGGATATCTGCATGTACCTTGAGCTCATCAGCCTCCCCTTCAAGCATACTT CCATAACTGCGATGAACTTGGAAGGACTGCTCCATCTGAAGAAATATTTGCCACTTGGTCATGC TAATAGGACCAACTTCAAGGTTCAAAGGCAGTTCCTCCACAGTCTCATTGAGTGCTATCAATTT ATCTCTCAGTAGCCAAAACTCATTGAAGAATACAGTTGGGTAGTAGTTGTTTGAAGATGGATCA ACATTCAAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_005482* osi_circ_014396 						
					
						PMCS
						0.244008799

Conservation Information
Conserved circRNAs	osi_circ_005482* osi_circ_014396
PMCS	0.244008799

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015

circRNA

Detail information of Os04g0441900_circ_g.1

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