Plant Circular RNA Database

Detail information of 3_circ_ag.5

			
						 General Information
					
						CircRNA Name
						3_circ_ag.5
					
						ID in PlantcircBase
						ath_circ_021759
					
						Alias
						3:4876254-4881913
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 4876254-4881913  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							3_circ_ag.6 						
					
						Support reads
						1/9
					
						Tissues
						root;flower
					
						Exon boundary  
						
							NA-NA							"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
						NA

General Information
CircRNA Name	3_circ_ag.5
ID in PlantcircBase	ath_circ_021759
Alias	3:4876254-4881913
Organism	Arabidpsis thaliana
Position	chr3: 4876254-4881913 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	find_circ; CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	3_circ_ag.6
Support reads	1/9
Tissues	root;flower
Exon boundary	NA-NA "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	NA

			
						 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  
						
							ACATTTTACGCAACTCACGGGATGCTTCTTCCTTGGTGACTCCATATTGTTTCATGTAACAGTT
GAGCCCATTAGCCACCTCTCCTCTGTTTATCTCGGTctcgtaggttcctacgtcatttgctaaa
cggaacattacatttagcgcttggatgattaggggattggaactgagccactcaaaagcttcct
tttcactg

									
								

					

						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: 433
Transcript exons: 4876254-4876403,4877809-4877897,4877988-4878181
CTCGTAGGTTCCTACGTCATTTGCTAAACGGAACATTACATTTAGCGCTTGGATGATTAGGGGA
TTGGAACTGAGCCACTCAAAAGCTTCCTTTTCACTGACATCTTCCATTCCTATAAAGCAATATC
CTGCATAACCATCCATCCCAGCTTCTCCTTGTCGCTGCTTTGAGAAGACATGAGCATGTCTTTC
ACCAGTGGCTTCATAGTTTCAATCTCTCTTTCTAGTTCATCAAATTCCACCGCGGTCGAGGGAA
ACAGAGAGAAAGTGATCTCCCCAAAGAGAGGGAGAAAAGTACGTTGAAGGACGACTACCCTCAA
GATCATCACTACTCTTTGTAGACCTTACACATACCAAGTGGTGTTTTTTTGCCGGTTTCAGGGG
AAGAGTGTGCTTTTGAAGCAAACGCTGAGGAAAGAGAGAGAGGTTGGAC
Transcript length: 601
Transcript exons: 4876254-4876474,4877744-4877897,4877988-4878213
CTCGTAGGTTCCTACGTCATTTGCTAAACGGAACATTACATTTAGCGCTTGGATGATTAGGGGA
TTGGAACTGAGCCACTCAAAAGCTTCCTTTTCACTGACATCTTCCATTCCTATAAAGCAATATC
CTGCATAACCATCCATCCCAGCTGTCACCAACCCAACTTTCATGTACTCATCAAAGGATGGTAC
GTCGCCCGTTCGTGCCCACTCTGTTAACTCTTGAATCTCCTTATCAAAATGATAAGAGCTCCCG
AGGCTAACGAGCAAATGGATTAGACGAATCTTCTCCTTGTCGCTGCTTTGAGAAGACATGAGCA
TGTCTTTCACCAGTGGCTTCATAGTTTCAATCTCTCTTTCTAGTTCATCAAATTCCACCGCGGT
CGAGGGAAACAGAGAGAAAGTGATCTCCCCAAAGAGAGGGAGAAAAGTACGTTGAAGGACGACT
ACCCTCAAGATCATCACTACTCTTTGTAGACCTTACACATACCAAGTGGTGTTTTTTTGCCGGT
TTCAGGGGAAGAGTGTGCTTTTGAAGCAAACGCTGAGGAAAGAGAGAGAGGTTGGACGTGAGAC
AGAGAGGAACGTTGTGAACGTTAGG
Transcript length: 663
Transcript exons: 4876254-4876459,4877742-4877897,4877988-4878186,4881812-
4881913
CTCGTAGGTTCCTACGTCATTTGCTAAACGGAACATTACATTTAGCGCTTGGATGATTAGGGGA
TTGGAACTGAGCCACTCAAAAGCTTCCTTTTCACTGACATCTTCCATTCCTATAAAGCAATATC
CTGCATAACCATCCATCCCAGCTGTCACCAACCCAACTTTCATGTACTCATCAAAGGATGGTAC
GTCGCCCGTTCGTGATCTTGAATCTCCTTATCAAAATGATAAGAGCTCCCGAGGCTAACGAGCA
AATGGATTAGACGAATCTTCTCCTTGTCGCTGCTTTGAGAAGACATGAGCATGTCTTTCACCAG
TGGCTTCATAGTTTCAATCTCTCTTTCTAGTTCATCAAATTCCACCGCGGTCGAGGGAAACAGA
GAGAAAGTGATCTCCCCAAAGAGAGGGAGAAAAGTACGTTGAAGGACGACTACCCTCAAGATCA
TCACTACTCTTTGTAGACCTTACACATACCAAGTGGTGTTTTTTTGCCGGTTTCAGGGGAAGAG
TGTGCTTTTGAAGCAAACGCTGAGGAAAGAGAGAGAGGTTGGACGTGAGGTACATTTTACGCAA
CTCACGGGATGCTTCTTCCTTGGTGACTCCATATTGTTTCATGTAACAGTTGAGCCCATTAGCC
ACCTCTCCTCTGTTTATCTCGGT
Transcript length: 704
Transcript exons: 4876254-4876445,4877699-4877897,4877988-4878198,4881812-
4881913
CTCGTAGGTTCCTACGTCATTTGCTAAACGGAACATTACATTTAGCGCTTGGATGATTAGGGGA
TTGGAACTGAGCCACTCAAAAGCTTCCTTTTCACTGACATCTTCCATTCCTATAAAGCAATATC
CTGCATAACCATCCATCCCAGCTGTCACCAACCCAACTTTCATGTACTCATCAAAGGATGGTAC
CAACTATTATGTCATCCAACTTTGTGAAACTGTGTTTAAGGATATCTTGAATCTCCTTATCAAA
ATGATAAGAGCTCCCGAGGCTAACGAGCAAATGGATTAGACGAATCTTCTCCTTGTCGCTGCTT
TGAGAAGACATGAGCATGTCTTTCACCAGTGGCTTCATAGTTTCAATCTCTCTTTCTAGTTCAT
CAAATTCCACCGCGGTCGAGGGAAACAGAGAGAAAGTGATCTCCCCAAAGAGAGGGAGAAAAGT
ACGTTGAAGGACGACTACCCTCAAGATCATCACTACTCTTTGTAGACCTTACACATACCAAGTG
GTGTTTTTTTGCCGGTTTCAGGGGAAGAGTGTGCTTTTGAAGCAAACGCTGAGGAAAGAGAGAG
AGGTTGGACGTGAGACAGAGAGGAACGTACATTTTACGCAACTCACGGGATGCTTCTTCCTTGG
TGACTCCATATTGTTTCATGTAACAGTTGAGCCCATTAGCCACCTCTCCTCTGTTTATCTCGGT
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	ACATTTTACGCAACTCACGGGATGCTTCTTCCTTGGTGACTCCATATTGTTTCATGTAACAGTT GAGCCCATTAGCCACCTCTCCTCTGTTTATCTCGGTctcgtaggttcctacgtcatttgctaaa cggaacattacatttagcgcttggatgattaggggattggaactgagccactcaaaagcttcct tttcactg
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: 433 Transcript exons: 4876254-4876403,4877809-4877897,4877988-4878181 CTCGTAGGTTCCTACGTCATTTGCTAAACGGAACATTACATTTAGCGCTTGGATGATTAGGGGA TTGGAACTGAGCCACTCAAAAGCTTCCTTTTCACTGACATCTTCCATTCCTATAAAGCAATATC CTGCATAACCATCCATCCCAGCTTCTCCTTGTCGCTGCTTTGAGAAGACATGAGCATGTCTTTC ACCAGTGGCTTCATAGTTTCAATCTCTCTTTCTAGTTCATCAAATTCCACCGCGGTCGAGGGAA ACAGAGAGAAAGTGATCTCCCCAAAGAGAGGGAGAAAAGTACGTTGAAGGACGACTACCCTCAA GATCATCACTACTCTTTGTAGACCTTACACATACCAAGTGGTGTTTTTTTGCCGGTTTCAGGGG AAGAGTGTGCTTTTGAAGCAAACGCTGAGGAAAGAGAGAGAGGTTGGAC Transcript length: 601 Transcript exons: 4876254-4876474,4877744-4877897,4877988-4878213 CTCGTAGGTTCCTACGTCATTTGCTAAACGGAACATTACATTTAGCGCTTGGATGATTAGGGGA TTGGAACTGAGCCACTCAAAAGCTTCCTTTTCACTGACATCTTCCATTCCTATAAAGCAATATC CTGCATAACCATCCATCCCAGCTGTCACCAACCCAACTTTCATGTACTCATCAAAGGATGGTAC GTCGCCCGTTCGTGCCCACTCTGTTAACTCTTGAATCTCCTTATCAAAATGATAAGAGCTCCCG AGGCTAACGAGCAAATGGATTAGACGAATCTTCTCCTTGTCGCTGCTTTGAGAAGACATGAGCA TGTCTTTCACCAGTGGCTTCATAGTTTCAATCTCTCTTTCTAGTTCATCAAATTCCACCGCGGT CGAGGGAAACAGAGAGAAAGTGATCTCCCCAAAGAGAGGGAGAAAAGTACGTTGAAGGACGACT ACCCTCAAGATCATCACTACTCTTTGTAGACCTTACACATACCAAGTGGTGTTTTTTTGCCGGT TTCAGGGGAAGAGTGTGCTTTTGAAGCAAACGCTGAGGAAAGAGAGAGAGGTTGGACGTGAGAC AGAGAGGAACGTTGTGAACGTTAGG Transcript length: 663 Transcript exons: 4876254-4876459,4877742-4877897,4877988-4878186,4881812- 4881913 CTCGTAGGTTCCTACGTCATTTGCTAAACGGAACATTACATTTAGCGCTTGGATGATTAGGGGA TTGGAACTGAGCCACTCAAAAGCTTCCTTTTCACTGACATCTTCCATTCCTATAAAGCAATATC CTGCATAACCATCCATCCCAGCTGTCACCAACCCAACTTTCATGTACTCATCAAAGGATGGTAC GTCGCCCGTTCGTGATCTTGAATCTCCTTATCAAAATGATAAGAGCTCCCGAGGCTAACGAGCA AATGGATTAGACGAATCTTCTCCTTGTCGCTGCTTTGAGAAGACATGAGCATGTCTTTCACCAG TGGCTTCATAGTTTCAATCTCTCTTTCTAGTTCATCAAATTCCACCGCGGTCGAGGGAAACAGA GAGAAAGTGATCTCCCCAAAGAGAGGGAGAAAAGTACGTTGAAGGACGACTACCCTCAAGATCA TCACTACTCTTTGTAGACCTTACACATACCAAGTGGTGTTTTTTTGCCGGTTTCAGGGGAAGAG TGTGCTTTTGAAGCAAACGCTGAGGAAAGAGAGAGAGGTTGGACGTGAGGTACATTTTACGCAA CTCACGGGATGCTTCTTCCTTGGTGACTCCATATTGTTTCATGTAACAGTTGAGCCCATTAGCC ACCTCTCCTCTGTTTATCTCGGT Transcript length: 704 Transcript exons: 4876254-4876445,4877699-4877897,4877988-4878198,4881812- 4881913 CTCGTAGGTTCCTACGTCATTTGCTAAACGGAACATTACATTTAGCGCTTGGATGATTAGGGGA TTGGAACTGAGCCACTCAAAAGCTTCCTTTTCACTGACATCTTCCATTCCTATAAAGCAATATC CTGCATAACCATCCATCCCAGCTGTCACCAACCCAACTTTCATGTACTCATCAAAGGATGGTAC CAACTATTATGTCATCCAACTTTGTGAAACTGTGTTTAAGGATATCTTGAATCTCCTTATCAAA ATGATAAGAGCTCCCGAGGCTAACGAGCAAATGGATTAGACGAATCTTCTCCTTGTCGCTGCTT TGAGAAGACATGAGCATGTCTTTCACCAGTGGCTTCATAGTTTCAATCTCTCTTTCTAGTTCAT CAAATTCCACCGCGGTCGAGGGAAACAGAGAGAAAGTGATCTCCCCAAAGAGAGGGAGAAAAGT ACGTTGAAGGACGACTACCCTCAAGATCATCACTACTCTTTGTAGACCTTACACATACCAAGTG GTGTTTTTTTGCCGGTTTCAGGGGAAGAGTGTGCTTTTGAAGCAAACGCTGAGGAAAGAGAGAG AGGTTGGACGTGAGACAGAGAGGAACGTACATTTTACGCAACTCACGGGATGCTTCTTCCTTGG TGACTCCATATTGTTTCATGTAACAGTTGAGCCCATTAGCCACCTCTCCTCTGTTTATCTCGGT
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.439074084

Conservation Information
Conserved circRNAs	NA
PMCS	0.439074084

			
						 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 3_circ_ag.5

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