Plant Circular RNA Database

Detail information of AT2G35660_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT2G35660_circ_g.1
					
						ID in PlantcircBase
						ath_circ_016674
					
						Alias
						2:14988778-14989075
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 14988778-14989075  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G35660						
					
						Parent gene annotation
						
							FAD/NAD(P)-binding oxidoreductase family protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						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
						AT2G35660.1:2
AT2G35660.2:2
AT2G35660.3:1

General Information
CircRNA Name	AT2G35660_circ_g.1
ID in PlantcircBase	ath_circ_016674
Alias	2:14988778-14989075
Organism	Arabidpsis thaliana
Position	chr2: 14988778-14989075 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G35660
Parent gene annotation	FAD/NAD(P)-binding oxidoreductase family protein
Parent gene strand	+
Alternative splicing	NA
Support reads	2
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	AT2G35660.1:2 AT2G35660.2:2 AT2G35660.3:1

			
						 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  
						
							TTAGCTGAGTGTGTTGGTATGATCAGCTGAGCAGGATGGTAGTGAAGAAGGAAGATGGAAGAGA
GCTTCGTTCTTTCAAATTCAAAGACGATGATCAAAGgcttggaatccggtcggtggtgttggag
caggcagagtcgcttcgtactggtggaacatcactgacgctattcaagaatgggtggcgcgttc
ttgacgcc

									
								

					

						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: 177
Transcript exons: 14988778-14988903,14989025-14989075
GCTTGGAATCCGGTCGGTGGTGTTGGAGCAGGCAGAGTCGCTTCGTACTGGTGGAACATCACTG
ACGCTATTCAAGAATGGGTGGCGCGTTCTTGACGCCATTTCCGTCGGGCCTCAACTCCGAACGG
AAGATGGAAGAGAGCTTCGTTCTTTCAAATTCAAAGACGATGATCAAAG
Transcript length: 213
Transcript exons: 14988778-14988924,14989010-14989075
GCTTGGAATCCGGTCGGTGGTGTTGGAGCAGGCAGAGTCGCTTCGTACTGGTGGAACATCACTG
ACGCTATTCAAGAATGGGTGGCGCGTTCTTGACGCCATTTCCGTCGGGCCTCAACTCCGAACGC
AGTTTCTTGAAATCGAAGGGATGGTAGTGAAGAAGGAAGATGGAAGAGAGCTTCGTTCTTTCAA
ATTCAAAGACGATGATCAAAG
Transcript length: 221
Transcript exons: 14988778-14988924,14989002-14989075
GCTTGGAATCCGGTCGGTGGTGTTGGAGCAGGCAGAGTCGCTTCGTACTGGTGGAACATCACTG
ACGCTATTCAAGAATGGGTGGCGCGTTCTTGACGCCATTTCCGTCGGGCCTCAACTCCGAACGC
AGTTTCTTGAAATCGAAGGCTGAGCAGGATGGTAGTGAAGAAGGAAGATGGAAGAGAGCTTCGT
TCTTTCAAATTCAAAGACGATGATCAAAG
Transcript length: 298
Transcript exons: 14988778-14989075
GCTTGGAATCCGGTCGGTGGTGTTGGAGCAGGCAGAGTCGCTTCGTACTGGTGGAACATCACTG
ACGCTATTCAAGAATGGGTGGCGCGTTCTTGACGCCATTTCCGTCGGGCCTCAACTCCGAACGC
AGTTTCTTGAAATCGAAGGGTAGAGTTTCTTTCTGCCCATATCAAAAAGTGAGAAAATTGGTTC
TTGGTTTTAGCTGAGTGTGTTGGTATGATCAGCTGAGCAGGATGGTAGTGAAGAAGGAAGATGG
AAGAGAGCTTCGTTCTTTCAAATTCAAAGACGATGATCAAAG
						
					

						Genomic sequence
						
							GCTTGGAATCCGGTCGGTGGTGTTGGAGCAGGCAGAGTCGCTTCGTACTGGTGGAACATCACTG
ACGCTATTCAAGAATGGGTGGCGCGTTCTTGACGCCATTTCCGTCGGGCCTCAACTCCGAACGC
AGTTTCTTGAAATCGAAGGGTAGAGTTTCTTTCTGCCCATATCAAAAAGTGAGAAAATTGGTTC
TTGGTTTTAGCTGAGTGTGTTGGTATGATCAGCTGAGCAGGATGGTAGTGAAGAAGGAAGATGG
AAGAGAGCTTCGTTCTTTCAAATTCAAAGACGATGATCAAAG
						
					

			
		

Sequences
Splice junction sequence	TTAGCTGAGTGTGTTGGTATGATCAGCTGAGCAGGATGGTAGTGAAGAAGGAAGATGGAAGAGA GCTTCGTTCTTTCAAATTCAAAGACGATGATCAAAGgcttggaatccggtcggtggtgttggag caggcagagtcgcttcgtactggtggaacatcactgacgctattcaagaatgggtggcgcgttc ttgacgcc
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: 177 Transcript exons: 14988778-14988903,14989025-14989075 GCTTGGAATCCGGTCGGTGGTGTTGGAGCAGGCAGAGTCGCTTCGTACTGGTGGAACATCACTG ACGCTATTCAAGAATGGGTGGCGCGTTCTTGACGCCATTTCCGTCGGGCCTCAACTCCGAACGG AAGATGGAAGAGAGCTTCGTTCTTTCAAATTCAAAGACGATGATCAAAG Transcript length: 213 Transcript exons: 14988778-14988924,14989010-14989075 GCTTGGAATCCGGTCGGTGGTGTTGGAGCAGGCAGAGTCGCTTCGTACTGGTGGAACATCACTG ACGCTATTCAAGAATGGGTGGCGCGTTCTTGACGCCATTTCCGTCGGGCCTCAACTCCGAACGC AGTTTCTTGAAATCGAAGGGATGGTAGTGAAGAAGGAAGATGGAAGAGAGCTTCGTTCTTTCAA ATTCAAAGACGATGATCAAAG Transcript length: 221 Transcript exons: 14988778-14988924,14989002-14989075 GCTTGGAATCCGGTCGGTGGTGTTGGAGCAGGCAGAGTCGCTTCGTACTGGTGGAACATCACTG ACGCTATTCAAGAATGGGTGGCGCGTTCTTGACGCCATTTCCGTCGGGCCTCAACTCCGAACGC AGTTTCTTGAAATCGAAGGCTGAGCAGGATGGTAGTGAAGAAGGAAGATGGAAGAGAGCTTCGT TCTTTCAAATTCAAAGACGATGATCAAAG Transcript length: 298 Transcript exons: 14988778-14989075 GCTTGGAATCCGGTCGGTGGTGTTGGAGCAGGCAGAGTCGCTTCGTACTGGTGGAACATCACTG ACGCTATTCAAGAATGGGTGGCGCGTTCTTGACGCCATTTCCGTCGGGCCTCAACTCCGAACGC AGTTTCTTGAAATCGAAGGGTAGAGTTTCTTTCTGCCCATATCAAAAAGTGAGAAAATTGGTTC TTGGTTTTAGCTGAGTGTGTTGGTATGATCAGCTGAGCAGGATGGTAGTGAAGAAGGAAGATGG AAGAGAGCTTCGTTCTTTCAAATTCAAAGACGATGATCAAAG
Genomic sequence	GCTTGGAATCCGGTCGGTGGTGTTGGAGCAGGCAGAGTCGCTTCGTACTGGTGGAACATCACTG ACGCTATTCAAGAATGGGTGGCGCGTTCTTGACGCCATTTCCGTCGGGCCTCAACTCCGAACGC AGTTTCTTGAAATCGAAGGGTAGAGTTTCTTTCTGCCCATATCAAAAAGTGAGAAAATTGGTTC TTGGTTTTAGCTGAGTGTGTTGGTATGATCAGCTGAGCAGGATGGTAGTGAAGAAGGAAGATGG AAGAGAGCTTCGTTCTTTCAAATTCAAAGACGATGATCAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.304813212

Conservation Information
Conserved circRNAs	NA
PMCS	0.304813212

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

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT2G35660_circ_g.1

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