Plant Circular RNA Database

Detail information of Os08g0248800_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os08g0248800_circ_g.1
					
						ID in PlantcircBase
						osa_circ_036519
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 9072673-9074009  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							Os08g0248800						
					
						Parent gene annotation
						
							Similar to Aspartate carbamoyltransferase 3, chloroplast precurs
or (EC 2.1.3.2) (Aspartate transcarbamylase 3) (ATCase 3). (Os08
t0248800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						6
					
						Tissues
						seed
					
						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  
						
							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
						Os08t0248800-01:3

General Information
CircRNA Name	Os08g0248800_circ_g.1
ID in PlantcircBase	osa_circ_036519
Alias	NA
Organism	Oryza sativa
Position	chr8: 9072673-9074009 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	Os08g0248800
Parent gene annotation	Similar to Aspartate carbamoyltransferase 3, chloroplast precurs or (EC 2.1.3.2) (Aspartate transcarbamylase 3) (ATCase 3). (Os08 t0248800-01)
Parent gene strand	-
Alternative splicing	NA
Support reads	6
Tissues	seed
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	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	Os08t0248800-01:3

			
						 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  
						
							ACTGGAATGTCTGCAGTGGCGGCTGCTCTCCTTGCAGCCCCACTTTCAAAATGTCTCAGAACAA
TAATATCAGAATAACCCTCAACAGTCCTTATGGTATctcatcaagccttggaaggggatgcatg
ataacagcatgttttggcagcacatctaagaccttcttgtccacaatgtacttaccacgagctg
cttcataa

									
								

					

						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: 551
Transcript exons: 9072673-9072909,9073014-9073187,9073870-9074009
CTCATCAAGCCTTGGAAGGGGATGCATGATAACAGCATGTTTTGGCAGCACATCTAAGACCTTC
TTGTCCACAATGTACTTACCACGAGCTGCTTCATAAAGATCTATCCTCTCACCGAATCTTTCTT
TTTGAATGCGTGTTTGATAAATAACATCGCATTTTGATGCCACCTCCAACAAATCTGAACTTTC
TTCCCACTCAACACCTTGAGAAGTTAAGTATTCCTTGATGTCATCCTTCATTTTTACAACATCT
GGAGATACAAAGTATATCTTAATGTTTTGGTATTTGGCAATCAAATAGGCTAGAGAACGAACAG
TTCTTCCATTAGCAAGGTCTCCAACCAAACCAAGTTTTATTCCATCTAGTGTGCCAATTTCTCT
CTCTATTGAATAGACATCCAATAAAGCCTGAGTTGGATGTTGCCCTGGCCCATCGCCTGCATTA
ATAACTGGAATGTCTGCAGTGGCGGCTGCTCTCCTTGCAGCCCCACTTTCAAAATGTCTCAGAA
CAATAATATCAGAATAACCCTCAACAGTCCTTATGGTAT
						
					

						Genomic sequence
						
							CTCATCAAGCCTTGGAAGGGGATGCATGATAACAGCATGTTTTGGCAGCACATCTAAGACCTTC
TTGTCCACAATGTACTTACCACGAGCTGCTTCATAAAGATCTATCCTCTCACCGAATCTTTCTT
TTTGAATGCGTGTTTGATAAATAACATCGCATTTTGATGCCACCTCCAACAAATCTGAACTTTC
TTCCCACTCAACACCTTGAGAAGTTAAGTATTCCTTGATGTCATCCTATGGGACAGAAGAAAAA
AATCATCATCCAATCTGTTCTATCTGGGCCATAACAGACATCAAAAGAGCGGAATGCAGTTAAC
ATTTGATAGGACGAGTAATACCTTCATTTTTACAACATCTGGAGATACAAAGTATATCTTAATG
TTTTGGTATTTGGCAATCAAATAGGCTAGAGAACGAACAGTTCTTCCATTAGCAAGGTCTCCAA
CCAAACCAAGTTTTATTCCATCTAGTGTGCCAATTTCTCTCTCTATTGAATAGACATCCAATAA
AGCCTGAACAAAAGAACAAAATTATCAATTACAAATAAAATAGTACATAAATCATACTGCATCA
GGATTCAGGATGTAAGAACAGAAACTAGATTCCAAACTGATTTTAGTTATCAACATGATGGCAG
AGATAAAGAGATACAGTGGACAAACCTATAAAGCTGCCACAAGTATTAAGCTGAAAATGTGTTT
ATAAAGCTGCAACATTCTTACTTGCCTAAAGGAATACCAGACTAGCTAGAAACACTGATTCACT
GACACCCATTCATTTCATCCTATTCACTAGCAATACAACAAAAATGTTGTATATCCCCAAGAGG
AGCACTGATAATTTTACAGGTGTTGTTACTATGGAGTATTCAGTGTCATGAATTAACTATAAAT
GCTCCAGAGAAAGCTTAATAATAAAATGAAATCTGCATCCACATCACTATACAGTCTATTTTAT
CAGCCGGTAATATGTGATTCTGATCAACACCGTACATTGGCAACAAAACTGCAATTTCTATTGA
ATGATCCATCCAGAGTCTGGTCAGAACATCATTCGTTAAAATGCATTTTTAGCTCCTTAAGAAA
ACAGCAATCACCTGCCTAAAACTGTCCTTTTCCAGGAATCCAAGCATGATGACACTGTTTATTG
GTAAAAACAAGAGAGTTCAAAAGGAGTCAGGGGCAGAACAATTACCTGAGTTGGATGTTGCCCT
GGCCCATCGCCTGCATTAATAACTGGAATGTCTGCAGTGGCGGCTGCTCTCCTTGCAGCCCCAC
TTTCAAAATGTCTCAGAACAATAATATCAGAATAACCCTCAACAGTCCTTATGGTAT
						
					

			
		

Sequences
Splice junction sequence	ACTGGAATGTCTGCAGTGGCGGCTGCTCTCCTTGCAGCCCCACTTTCAAAATGTCTCAGAACAA TAATATCAGAATAACCCTCAACAGTCCTTATGGTATctcatcaagccttggaaggggatgcatg ataacagcatgttttggcagcacatctaagaccttcttgtccacaatgtacttaccacgagctg cttcataa
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: 551 Transcript exons: 9072673-9072909,9073014-9073187,9073870-9074009 CTCATCAAGCCTTGGAAGGGGATGCATGATAACAGCATGTTTTGGCAGCACATCTAAGACCTTC TTGTCCACAATGTACTTACCACGAGCTGCTTCATAAAGATCTATCCTCTCACCGAATCTTTCTT TTTGAATGCGTGTTTGATAAATAACATCGCATTTTGATGCCACCTCCAACAAATCTGAACTTTC TTCCCACTCAACACCTTGAGAAGTTAAGTATTCCTTGATGTCATCCTTCATTTTTACAACATCT GGAGATACAAAGTATATCTTAATGTTTTGGTATTTGGCAATCAAATAGGCTAGAGAACGAACAG TTCTTCCATTAGCAAGGTCTCCAACCAAACCAAGTTTTATTCCATCTAGTGTGCCAATTTCTCT CTCTATTGAATAGACATCCAATAAAGCCTGAGTTGGATGTTGCCCTGGCCCATCGCCTGCATTA ATAACTGGAATGTCTGCAGTGGCGGCTGCTCTCCTTGCAGCCCCACTTTCAAAATGTCTCAGAA CAATAATATCAGAATAACCCTCAACAGTCCTTATGGTAT
Genomic sequence	CTCATCAAGCCTTGGAAGGGGATGCATGATAACAGCATGTTTTGGCAGCACATCTAAGACCTTC TTGTCCACAATGTACTTACCACGAGCTGCTTCATAAAGATCTATCCTCTCACCGAATCTTTCTT TTTGAATGCGTGTTTGATAAATAACATCGCATTTTGATGCCACCTCCAACAAATCTGAACTTTC TTCCCACTCAACACCTTGAGAAGTTAAGTATTCCTTGATGTCATCCTATGGGACAGAAGAAAAA AATCATCATCCAATCTGTTCTATCTGGGCCATAACAGACATCAAAAGAGCGGAATGCAGTTAAC ATTTGATAGGACGAGTAATACCTTCATTTTTACAACATCTGGAGATACAAAGTATATCTTAATG TTTTGGTATTTGGCAATCAAATAGGCTAGAGAACGAACAGTTCTTCCATTAGCAAGGTCTCCAA CCAAACCAAGTTTTATTCCATCTAGTGTGCCAATTTCTCTCTCTATTGAATAGACATCCAATAA AGCCTGAACAAAAGAACAAAATTATCAATTACAAATAAAATAGTACATAAATCATACTGCATCA GGATTCAGGATGTAAGAACAGAAACTAGATTCCAAACTGATTTTAGTTATCAACATGATGGCAG AGATAAAGAGATACAGTGGACAAACCTATAAAGCTGCCACAAGTATTAAGCTGAAAATGTGTTT ATAAAGCTGCAACATTCTTACTTGCCTAAAGGAATACCAGACTAGCTAGAAACACTGATTCACT GACACCCATTCATTTCATCCTATTCACTAGCAATACAACAAAAATGTTGTATATCCCCAAGAGG AGCACTGATAATTTTACAGGTGTTGTTACTATGGAGTATTCAGTGTCATGAATTAACTATAAAT GCTCCAGAGAAAGCTTAATAATAAAATGAAATCTGCATCCACATCACTATACAGTCTATTTTAT CAGCCGGTAATATGTGATTCTGATCAACACCGTACATTGGCAACAAAACTGCAATTTCTATTGA ATGATCCATCCAGAGTCTGGTCAGAACATCATTCGTTAAAATGCATTTTTAGCTCCTTAAGAAA ACAGCAATCACCTGCCTAAAACTGTCCTTTTCCAGGAATCCAAGCATGATGACACTGTTTATTG GTAAAAACAAGAGAGTTCAAAAGGAGTCAGGGGCAGAACAATTACCTGAGTTGGATGTTGCCCT GGCCCATCGCCTGCATTAATAACTGGAATGTCTGCAGTGGCGGCTGCTCTCCTTGCAGCCCCAC TTTCAAAATGTCTCAGAACAATAATATCAGAATAACCCTCAACAGTCCTTATGGTAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_018396 						
					
						PMCS
						0.416954918

Conservation Information
Conserved circRNAs	osi_circ_018396
PMCS	0.416954918

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9073880-9072769(+)
9072727-9073993(-)
9073021-9074003(-)
						
						Potential amino acid sequence
						
							MLPWPIACINNWNVCSGGCSPCSPTFKMSQNNNIRITLNSPYGISSSLGRGCMITACFGSTSKT
FLSTMYLPRAAS*(+)
MCCQNMLLSCIPFQGLMRYHKDC*(-)
MKDDIKEYLTSQGVEWEESSDLLEVASKCDVIYQTRIQKERFGERIDLYEAARGKYIVDKKVLD
VLPKHAVIMHPLPRLDEIP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9073880-9072769(+) 9072727-9073993(-) 9073021-9074003(-)
Potential amino acid sequence	MLPWPIACINNWNVCSGGCSPCSPTFKMSQNNNIRITLNSPYGISSSLGRGCMITACFGSTSKT FLSTMYLPRAAS(+) MCCQNMLLSCIPFQGLMRYHKDC(-) MKDDIKEYLTSQGVEWEESSDLLEVASKCDVIYQTRIQKERFGERIDLYEAARGKYIVDKKVLD VLPKHAVIMHPLPRLDEIP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0248800_circ_g.1

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