Plant Circular RNA Database

Detail information of AT5G01750_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT5G01750_circ_g.4
					
						ID in PlantcircBase
						ath_circ_035932
					
						Alias
						At_ciR355, Ath_circ_FC3100, AT5G01750_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 290443-290670  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI-full, circseq_cup, find_circ, CIRI2
					
						Parent gene
						
							AT5G01750						
					
						Parent gene annotation
						
							Protein LURP-one-related 15
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G01750_circ_g.1 AT5G01750_circ_g.2 AT5G01750_circ_g.3 						
					
						Support reads
						11
					
						Tissues
						leaf
					
						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
						AT5G01750.1:1
AT5G01750.2:1

General Information
CircRNA Name	AT5G01750_circ_g.4
ID in PlantcircBase	ath_circ_035932
Alias	At_ciR355, Ath_circ_FC3100, AT5G01750_C1
Organism	Arabidpsis thaliana
Position	chr5: 290443-290670 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRI-full, circseq_cup, find_circ, CIRI2
Parent gene	AT5G01750
Parent gene annotation	Protein LURP-one-related 15
Parent gene strand	+
Alternative splicing	AT5G01750_circ_g.1 AT5G01750_circ_g.2 AT5G01750_circ_g.3
Support reads	11
Tissues	leaf
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	AT5G01750.1:1 AT5G01750.2:1

			
						 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  
						
							CAACAAAGATGAGAAGAGATGTGATTTCAGAGTCAAAGGGAGTTGGCTCGAGCGTTCTTGTGTT
GTTTACGCCGGCGAATCTGACGCCATTGTTGCCCAAatggtgagcatgcatgacaggtggcaag
tgtttagaggagggagtacggatcagcgtgatctgctgtacacggtgaaaagatcgtcgatgct
tcagctaa

									
								

					

						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: 192
Transcript exons: 290443-290489,290526-290670
ATGGTGAGCATGCATGACAGGTGGCAAGTGTTTAGAGGAGGGAGTACGTCGATGCTTCAGCTAA
AGACCAAACTCGATGTGTTTTTGGGACACAACAAAGATGAGAAGAGATGTGATTTCAGAGTCAA
AGGGAGTTGGCTCGAGCGTTCTTGTGTTGTTTACGCCGGCGAATCTGACGCCATTGTTGCCCAA
Transcript length: 220
Transcript exons: 290443-290513,290522-290670
ATGGTGAGCATGCATGACAGGTGGCAAGTGTTTAGAGGAGGGAGTACGGATCAGCGTGATCTGC
TGTACACGATCGTCGATGCTTCAGCTAAAGACCAAACTCGATGTGTTTTTGGGACACAACAAAG
ATGAGAAGAGATGTGATTTCAGAGTCAAAGGGAGTTGGCTCGAGCGTTCTTGTGTTGTTTACGC
CGGCGAATCTGACGCCATTGTTGCCCAA
Transcript length: 228
Transcript exons: 290443-290670
ATGGTGAGCATGCATGACAGGTGGCAAGTGTTTAGAGGAGGGAGTACGGATCAGCGTGATCTGC
TGTACACGGTGAAAAGATCGTCGATGCTTCAGCTAAAGACCAAACTCGATGTGTTTTTGGGACA
CAACAAAGATGAGAAGAGATGTGATTTCAGAGTCAAAGGGAGTTGGCTCGAGCGTTCTTGTGTT
GTTTACGCCGGCGAATCTGACGCCATTGTTGCCCAA
Transcript length: 228
Transcript exons: 290443-290670
ATGGTGAGCATGCATGACAGGTGGCAAGTGTTTAGAGGAGGGAGTACGGATCAGCGTGATCTGC
TGTACACGGTGAAAAGATCGTCGATGCTTCAGCTAAAGACCAAACTTGATGTGTTTTTGGGACA
CAACAAAGATGAGAAGAGATGTGATTTCAGAGTCAAAGGGAGTTGGCTCGAGCGTTCTTGTGTT
GTTTACGCCGGCGAATCTGACGCCATTGTTGCCCAA
						
					

						Genomic sequence
						
							ATGGTGAGCATGCATGACAGGTGGCAAGTGTTTAGAGGAGGGAGTACGGATCAGCGTGATCTGC
TGTACACGGTGAAAAGATCGTCGATGCTTCAGCTAAAGACCAAACTCGATGTGTTTTTGGGACA
CAACAAAGATGAGAAGAGATGTGATTTCAGAGTCAAAGGGAGTTGGCTCGAGCGTTCTTGTGTT
GTTTACGCCGGCGAATCTGACGCCATTGTTGCCCAA
						
					

			
		

Sequences
Splice junction sequence	CAACAAAGATGAGAAGAGATGTGATTTCAGAGTCAAAGGGAGTTGGCTCGAGCGTTCTTGTGTT GTTTACGCCGGCGAATCTGACGCCATTGTTGCCCAAatggtgagcatgcatgacaggtggcaag tgtttagaggagggagtacggatcagcgtgatctgctgtacacggtgaaaagatcgtcgatgct tcagctaa
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: 192 Transcript exons: 290443-290489,290526-290670 ATGGTGAGCATGCATGACAGGTGGCAAGTGTTTAGAGGAGGGAGTACGTCGATGCTTCAGCTAA AGACCAAACTCGATGTGTTTTTGGGACACAACAAAGATGAGAAGAGATGTGATTTCAGAGTCAA AGGGAGTTGGCTCGAGCGTTCTTGTGTTGTTTACGCCGGCGAATCTGACGCCATTGTTGCCCAA Transcript length: 220 Transcript exons: 290443-290513,290522-290670 ATGGTGAGCATGCATGACAGGTGGCAAGTGTTTAGAGGAGGGAGTACGGATCAGCGTGATCTGC TGTACACGATCGTCGATGCTTCAGCTAAAGACCAAACTCGATGTGTTTTTGGGACACAACAAAG ATGAGAAGAGATGTGATTTCAGAGTCAAAGGGAGTTGGCTCGAGCGTTCTTGTGTTGTTTACGC CGGCGAATCTGACGCCATTGTTGCCCAA Transcript length: 228 Transcript exons: 290443-290670 ATGGTGAGCATGCATGACAGGTGGCAAGTGTTTAGAGGAGGGAGTACGGATCAGCGTGATCTGC TGTACACGGTGAAAAGATCGTCGATGCTTCAGCTAAAGACCAAACTCGATGTGTTTTTGGGACA CAACAAAGATGAGAAGAGATGTGATTTCAGAGTCAAAGGGAGTTGGCTCGAGCGTTCTTGTGTT GTTTACGCCGGCGAATCTGACGCCATTGTTGCCCAA Transcript length: 228 Transcript exons: 290443-290670 ATGGTGAGCATGCATGACAGGTGGCAAGTGTTTAGAGGAGGGAGTACGGATCAGCGTGATCTGC TGTACACGGTGAAAAGATCGTCGATGCTTCAGCTAAAGACCAAACTTGATGTGTTTTTGGGACA CAACAAAGATGAGAAGAGATGTGATTTCAGAGTCAAAGGGAGTTGGCTCGAGCGTTCTTGTGTT GTTTACGCCGGCGAATCTGACGCCATTGTTGCCCAA
Genomic sequence	ATGGTGAGCATGCATGACAGGTGGCAAGTGTTTAGAGGAGGGAGTACGGATCAGCGTGATCTGC TGTACACGGTGAAAAGATCGTCGATGCTTCAGCTAAAGACCAAACTCGATGTGTTTTTGGGACA CAACAAAGATGAGAAGAGATGTGATTTCAGAGTCAAAGGGAGTTGGCTCGAGCGTTCTTGTGTT GTTTACGCCGGCGAATCTGACGCCATTGTTGCCCAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.555431238

Conservation Information
Conserved circRNAs	NA
PMCS	0.555431238

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							290443-290667(+)
						
						Potential amino acid sequence
						
							MVSMHDRWQVFRGGSTDQRDLLYTVKRSSMLQLKTKLDVFLGHNKDEKRCDFRVKGSWLERSCV
VYAGESDAIVAQMVSMHDRWQVFRGGSTDQRDLLYTVKRSSMLQLKTKLDVFLGHNKDEKRCDF
RVKGSWLERSCVVYAGESDAIVAQMVSMHDRWQVFRGGSTDQRDLLYTVKRSSMLQLKTKLDVF
LGHNKDEKRCDFRVKGSWLERSCVVYAGESDAIVAQMVSMHDRWQVFRGGSTDQRDLLYTVKRS
SMLQLKTKLDVFLGHNKDEKRCDFRVKGSWLERSCVVYAGESDAIVAQ(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	Y
Potential coding position	290443-290667(+)
Potential amino acid sequence	MVSMHDRWQVFRGGSTDQRDLLYTVKRSSMLQLKTKLDVFLGHNKDEKRCDFRVKGSWLERSCV VYAGESDAIVAQMVSMHDRWQVFRGGSTDQRDLLYTVKRSSMLQLKTKLDVFLGHNKDEKRCDF RVKGSWLERSCVVYAGESDAIVAQMVSMHDRWQVFRGGSTDQRDLLYTVKRSSMLQLKTKLDVF LGHNKDEKRCDFRVKGSWLERSCVVYAGESDAIVAQMVSMHDRWQVFRGGSTDQRDLLYTVKRS SMLQLKTKLDVFLGHNKDEKRCDFRVKGSWLERSCVVYAGESDAIVAQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress

			
						 Other Information
					
						References
						Ye et al., 2015;Chen et al., 2017a;Zhang et al., 2019

circRNA

Detail information of AT5G01750_circ_g.4

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