Plant Circular RNA Database

Detail information of AT1G80750_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT1G80750_circ_g.3
					
						ID in PlantcircBase
						ath_circ_011351
					
						Alias
						At_ciR257, AT1G80750_C2
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 30349032-30349237  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, CIRI-full, KNIFE, PcircRNA_finder, circRNA_finder, circseq_cup, find_circ, CIRI2
					
						Parent gene
						
							AT1G80750						
					
						Parent gene annotation
						
							60S ribosomal protein L7-1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G80750_circ_g.1 AT1G80750_circ_g.2 AT1G80750_circ_g.4 AT1G80750_circ_g.5 AT1G80750_circ_g.6 AT1G80750_circ_g.7 AT1G80750_circ_g.8 AT1G80750_circ_g.9 AT1G80750_circ_g.10 AT1G80750_circ_g.11 						
					
						Support reads
						22/28
					
						Tissues
						leaf/root, leaf, aerial, seed, whole_plant
					
						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
						AT1G80750.1:1

General Information
CircRNA Name	AT1G80750_circ_g.3
ID in PlantcircBase	ath_circ_011351
Alias	At_ciR257, AT1G80750_C2
Organism	Arabidpsis thaliana
Position	chr1: 30349032-30349237 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, CIRI, CIRI-full, KNIFE, PcircRNA_finder, circRNA_finder, circseq_cup, find_circ, CIRI2
Parent gene	AT1G80750
Parent gene annotation	60S ribosomal protein L7-1
Parent gene strand	+
Alternative splicing	AT1G80750_circ_g.1 AT1G80750_circ_g.2 AT1G80750_circ_g.4 AT1G80750_circ_g.5 AT1G80750_circ_g.6 AT1G80750_circ_g.7 AT1G80750_circ_g.8 AT1G80750_circ_g.9 AT1G80750_circ_g.10 AT1G80750_circ_g.11
Support reads	22/28
Tissues	leaf/root, leaf, aerial, seed, whole_plant
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	AT1G80750.1:1

			
						 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  
						
							CAGGAAGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAA
CGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAGaagcaaagagtagagagataatggctga
ggaagaagctaagggtttggattacataccggagatagtactgaagaagaggaagaacagagat
gagcttgc

									
								

					

						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: 152
Transcript exons: 30349032-30349091,30349146-30349237
AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGCA
ACTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGAT
TTTGTTCATGAGTTCAGGGCTAAG
Transcript length: 159
Transcript exons: 30349032-30349063,30349111-30349237
AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGAACAGAGATGAGCTTGCCTTTATCAGGA
AGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCC
TGAAGATTTTGTTCATGAGTTCAGGGCTAAG
Transcript length: 166
Transcript exons: 30349032-30349110,30349151-30349237
AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAT
AGTACTGAAGAAGAGCTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCA
AACGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAG
Transcript length: 178
Transcript exons: 30349032-30349060,30349089-30349237
AAGCAAAGAGTAGAGAGATAATGGCTGAGCGGAGATAGTACTGAAGAAGAGGAAGAACAGAGAT
GAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGAAAG
TCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAG
Transcript length: 178
Transcript exons: 30349032-30349111,30349140-30349237
AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAT
AGTACTGAAGAAGAGGGGAAGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGAAAG
TCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAG
Transcript length: 181
Transcript exons: 30349032-30349072,30349098-30349237
AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGTACTGAAGAAGAGGAAGAACAGA
GATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGA
AAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAG
Transcript length: 185
Transcript exons: 30349032-30349094,30349116-30349237
AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAA
CAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAGAAG
AAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAG
Transcript length: 188
Transcript exons: 30349032-30349091,30349110-30349237
AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGGGAA
GAACAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAG
AAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAG
Transcript length: 196
Transcript exons: 30349032-30349107,30349118-30349237
AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAT
AGTACTGAAGAAAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAATTCCG
GCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGC
TAAG
Transcript length: 196
Transcript exons: 30349032-30349110,30349121-30349237
AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAT
AGTACTGAAGAAGAGGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAATTCCG
GCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGC
TAAG
Transcript length: 201
Transcript exons: 30349032-30349074,30349080-30349237
AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGATTACATACCGGAGATAGTAC
TGAAGAAGAGGAAGAACAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAA
TTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTC
AGGGCTAAG
Transcript length: 206
Transcript exons: 30349032-30349237
AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAT
AGTACTGAAGAAGAGGAAGAACAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTG
GGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATG
AGTTCAGGGCTAAG
Transcript length: 206
Transcript exons: 30349032-30349237
AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGCGAT
AGTACTGAAGAAGAGGAAGAACAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTG
GGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATG
GGTTCAGGGCTAAG
						
					

						Genomic sequence
						
							AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAT
AGTACTGAAGAAGAGGAAGAACAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTG
GGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATG
AGTTCAGGGCTAAG
						
					

			
		

Sequences
Splice junction sequence	CAGGAAGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAA CGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAGaagcaaagagtagagagataatggctga ggaagaagctaagggtttggattacataccggagatagtactgaagaagaggaagaacagagat gagcttgc
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: 152 Transcript exons: 30349032-30349091,30349146-30349237 AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGCA ACTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGAT TTTGTTCATGAGTTCAGGGCTAAG Transcript length: 159 Transcript exons: 30349032-30349063,30349111-30349237 AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGAACAGAGATGAGCTTGCCTTTATCAGGA AGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCC TGAAGATTTTGTTCATGAGTTCAGGGCTAAG Transcript length: 166 Transcript exons: 30349032-30349110,30349151-30349237 AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAT AGTACTGAAGAAGAGCTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCA AACGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAG Transcript length: 178 Transcript exons: 30349032-30349060,30349089-30349237 AAGCAAAGAGTAGAGAGATAATGGCTGAGCGGAGATAGTACTGAAGAAGAGGAAGAACAGAGAT GAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGAAAG TCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAG Transcript length: 178 Transcript exons: 30349032-30349111,30349140-30349237 AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAT AGTACTGAAGAAGAGGGGAAGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGAAAG TCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAG Transcript length: 181 Transcript exons: 30349032-30349072,30349098-30349237 AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGTACTGAAGAAGAGGAAGAACAGA GATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAGAAGAAGA AAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAG Transcript length: 185 Transcript exons: 30349032-30349094,30349116-30349237 AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAA CAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAGAAG AAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAG Transcript length: 188 Transcript exons: 30349032-30349091,30349110-30349237 AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGGGAA GAACAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAATTCCGGCAAGAAG AAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGCTAAG Transcript length: 196 Transcript exons: 30349032-30349107,30349118-30349237 AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAT AGTACTGAAGAAAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAATTCCG GCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGC TAAG Transcript length: 196 Transcript exons: 30349032-30349110,30349121-30349237 AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAT AGTACTGAAGAAGAGGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAATTCCG GCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTCAGGGC TAAG Transcript length: 201 Transcript exons: 30349032-30349074,30349080-30349237 AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGATTACATACCGGAGATAGTAC TGAAGAAGAGGAAGAACAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTGGGTAA TTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATGAGTTC AGGGCTAAG Transcript length: 206 Transcript exons: 30349032-30349237 AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAT AGTACTGAAGAAGAGGAAGAACAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTG GGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATG AGTTCAGGGCTAAG Transcript length: 206 Transcript exons: 30349032-30349237 AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGCGAT AGTACTGAAGAAGAGGAAGAACAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTG GGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATG GGTTCAGGGCTAAG
Genomic sequence	AAGCAAAGAGTAGAGAGATAATGGCTGAGGAAGAAGCTAAGGGTTTGGATTACATACCGGAGAT AGTACTGAAGAAGAGGAAGAACAGAGATGAGCTTGCCTTTATCAGGAAGAAGCAACTTGAGTTG GGTAATTCCGGCAAGAAGAAGAAGAAAGTCTCTGATATCAAACGTCCTGAAGATTTTGTTCATG AGTTCAGGGCTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.739095715

Conservation Information
Conserved circRNAs	NA
PMCS	0.739095715

			
						 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
						response to drought stress

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	response to drought stress

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

circRNA

Detail information of AT1G80750_circ_g.3

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