Plant Circular RNA Database

Detail information of AT1G08680_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G08680_circ_g.1
					
						ID in PlantcircBase
						ath_circ_001439
					
						Alias
						1:2762803-2765699
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 2762803-2765699  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G08680						
					
						Parent gene annotation
						
							ARF GAP-like zinc finger-containing protein ZIGA4
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G08680_circ_g.2 AT1G08680_circ_g.3 AT1G08680_circ_g.4 						
					
						Support reads
						3/3
					
						Tissues
						root
					
						Exon boundary  
						
							No-No							"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
						AT1G08680.5:7
AT1G08680.4:7
AT1G08680.1:7
AT1G08680.3:8
AT1G08680.2:7

General Information
CircRNA Name	AT1G08680_circ_g.1
ID in PlantcircBase	ath_circ_001439
Alias	1:2762803-2765699
Organism	Arabidpsis thaliana
Position	chr1: 2762803-2765699 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G08680
Parent gene annotation	ARF GAP-like zinc finger-containing protein ZIGA4
Parent gene strand	+
Alternative splicing	AT1G08680_circ_g.2 AT1G08680_circ_g.3 AT1G08680_circ_g.4
Support reads	3/3
Tissues	root
Exon boundary	No-No "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	AT1G08680.5:7 AT1G08680.4:7 AT1G08680.1:7 AT1G08680.3:8 AT1G08680.2:7

			
						 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  
						
							AGATCAGTTGACAGTAATTTCATGTCTATCAAGTCATATACTTCGGGTGGTTTAGGGGAAGCCG
TATCTGAAAGTCGTCAAAATACAGGAAGCCAGCAAGcatctattctaagcgaaatgatgggaag
taaaagagaagaagagaggaacgagaagattattcgtgggcttatgaagcttccaccgaatcgt
cgttgtat

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CATCTATTCTAAGCGAAATGATGGGAAGTAAAAGAGAAGAAGAGAGGAACGAGAAGATTATTCG
TGGGCTTATGAAGCTTCCACCGAATCGTCGTTGTATCAACTGCAATAGCCTTGTAATTTTATCT
AACTCTCTCTCCCTTTTACCAATTTTTGTCTTCCTTCAAAGGCTTAATTTGTTCTCTAAATTGT
TCCTGTGAGTGTATCAACTGAGTTTTGAACTGATGGGTTTCAGCTTCTGTGATTATGATTTCTA
TAATCTTGTGAAAGATATGTTTTTTTTGGGGGGCTTGTGTTTGTCTAGAAAATGTTTTGATTTA
TGTCCTTCGATGGGTTCTATCAGTGAAGTTAATCTGCAAAGCCAAGTAATTTGTTTATTTCCAG
ATATAGAAATGGAAAGAGAAGCTCGCAAAGCTACAATTTTTCGTTCATTTGTGTGAATTTGGAT
TTAATTCCATTCTGGCTATATTATAGTAAGACTTGCAAATGATGCAGGGCCCTCAATATGTTTG
CACAACTTTCTGGACCTTCGTATGCATGGCTTGTAGCGGGATACAGTGAGTACCTTCCCCTTCC
TATATACTTTCTTTGCAACTATTCCTGACCTCTCTTGTGTTCCTTCCTTGTCAGTATCGTACGC
TGGTTTGTGTTACCTTTTCTCTTTCCATGATTTACTTTATCATCTTACATCTTACATTTACAGT
TAAGTTATATGTAATTTGTAAAGTAGGAATAAGTAACCTTTTTGTTAACGGTTTCCTATGTTCA
TCCCACGATTAAGTTTTCTGCTATATTGTAAGCTATCGAGTCTAAATTAGTTTAAATATTTGTA
GACAGGACTCATTGTGATCCCCCAGAAGCATGGCTAATGCATTGTCTTACAAAATATACATTTA
TATCTAGTGTTTGATTGTTTTTGTGGGCTTTAGTTTTTGTTTCATGCACCTGATTTCGTCGACA
GATTGTGTGAGCTGATTTTTTTGGCATCATTGTATTTGGTGGCTGACTTATACCTTTTATTTTA
TTACTCTTGTACTGATATAACAGAATTCTCAATCTATTCAGTGGATCCCTTTTTATTTATGTCT
CTTGTCTTGATTTGGTAAATTTTGGTGCAACTGTTATACGAGACTTGTTATCATTGAAAAGGAA
ATATAGGCTTATGTGAAATGAGCAGCTGTAATCTTTCTTCGCGTTATTTTTAGGTATATTCGGA
AGTATTTCTTTCTCCAGCTGTGCATCGTTTCATATGCGGTTATAGGGTTCTTTTGATGCATATT
TAAGTATAGGGAGGTGCAGTGTGCATTTTATTTATTACGATTTCCTGTTTCCTAGCTAAGTTAC
ACTGCCTTGATGTAGTGAATATGTTCCTACCTTTTCTTTTTCTCTTAGTTTCAGTTTTTCATGG
TTTATTTTATTTTGATGACCTGCAGCCGCGAATTCACTCATCGTGTGAAATCTGTGTCAATGTC
AAAGTTTACTTCTAAAGAAGTTGAAGTACTTCAAAATGGTGGTAATCAGGTAGTATTGATGCTA
AAGTTTCAATTTTCTAAATTTTCCTTAGATAGATGTTTCCGTCTGTAGCTTATGAGAGTTTTCT
ATTTCAGCGCGCCCGAGAAATATATTTGAAAAACTGGGACCACCAACGACAGAGGCTTCCAGAA
AACAGGTTTAAATAATTAGTTTTCCTTGGTGTTCATGTTTGAGCAGCCAGAAACATTGCTTTTT
TGAAAAAAGAAAAAATATGATCTGTTTAAAATCCATGATATGTTGTTGTTGTTCTTTGGCAGTA
ATGCTGAGAGAGTTCGCGAATTTATCAAAAATGTGTATGTGCAAAAGAAATATGCAGGCGCAAA
TGATGCGGACAAGCCTTCGAAAGATAGTCAGGCAAGATTATCTTGTTTCTTTTATGCCATCTTT
CTAAATTTGACTCATATTTTGCTGCAATATTTAGGATAAAATCTTATATCCAAAGCAGCAATGT
ATTTGAGTGAAATTTTCCGTCTAAGTGTGTTCTATTGGTAGTACTTTTCTTTTTCTTTAGGATT
TATTTTATACTTGAACTTTCTAATCTAACAATACAATATTATGGGTTTTAAGATGATCAATGTT
GCTCTGAAGCTCAAGGTAGTCATATAGGTCTTCTAGTGTCTGATACTTATTATTTCTTTTGACT
TGCTCTAAATTCAACCATGTGCATGCATGCATGGAACACTTATTTATTTTTCATTTTCCCTGTA
ATGCAATGGACAGGACCATGTAAGTTCTGAAGATATGACACGACGGGCCAACTCCTATCATTCT
TACTCCCAAAGCCCTCCTTACGATTATCAGTATGAAGAGCGCCGTTATGGGAAAATACCCTTGG
GATTTACCGGCAAGTCTGCTTCAGTGAAAGGTCTTCATGCAAAAGCCTCTAGTTTTGTATACAG
CCCCGGACGTTTTAGTGATCATATGTTTGAAGACCAATTCTCAAATGAGGACTCAGCTCCAAGG
GCTTCAGATTATTCTGTTTCGAGTGCAGGAGATCCGTTCAGGTCTGATATACAGTCACCAAATT
TTCAGCAGGAAGCTGAATTTCGTAGTCCCCAGTTTCAGCATTCAAATGCCCCTCCAAGTGAAAA
CTTATTTCCAGGCAGGCAACATCAGGTAATAATACCCACATCCTCTAGGAATCTTGTTTGTATC
TGGGCTAAGAGTTTTTTTGTTACAATTGTAAATCACCTCCTGGTGGAAAAAGTGAGTTTACCGA
TGTTCCAATTTCTTCGTTCAGAGAACTACATCTTCTGGGAGTGTCAGATCAGTTGACAGTAATT
TCATGTCTATCAAGTCATATACTTCGGGTGGTTTAGGGGAAGCCGTATCTGAAAGTCGTCAAAA
TACAGGAAGCCAGCAAG
						
					

			
		

Sequences
Splice junction sequence	AGATCAGTTGACAGTAATTTCATGTCTATCAAGTCATATACTTCGGGTGGTTTAGGGGAAGCCG TATCTGAAAGTCGTCAAAATACAGGAAGCCAGCAAGcatctattctaagcgaaatgatgggaag taaaagagaagaagagaggaacgagaagattattcgtgggcttatgaagcttccaccgaatcgt cgttgtat
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CATCTATTCTAAGCGAAATGATGGGAAGTAAAAGAGAAGAAGAGAGGAACGAGAAGATTATTCG TGGGCTTATGAAGCTTCCACCGAATCGTCGTTGTATCAACTGCAATAGCCTTGTAATTTTATCT AACTCTCTCTCCCTTTTACCAATTTTTGTCTTCCTTCAAAGGCTTAATTTGTTCTCTAAATTGT TCCTGTGAGTGTATCAACTGAGTTTTGAACTGATGGGTTTCAGCTTCTGTGATTATGATTTCTA TAATCTTGTGAAAGATATGTTTTTTTTGGGGGGCTTGTGTTTGTCTAGAAAATGTTTTGATTTA TGTCCTTCGATGGGTTCTATCAGTGAAGTTAATCTGCAAAGCCAAGTAATTTGTTTATTTCCAG ATATAGAAATGGAAAGAGAAGCTCGCAAAGCTACAATTTTTCGTTCATTTGTGTGAATTTGGAT TTAATTCCATTCTGGCTATATTATAGTAAGACTTGCAAATGATGCAGGGCCCTCAATATGTTTG CACAACTTTCTGGACCTTCGTATGCATGGCTTGTAGCGGGATACAGTGAGTACCTTCCCCTTCC TATATACTTTCTTTGCAACTATTCCTGACCTCTCTTGTGTTCCTTCCTTGTCAGTATCGTACGC TGGTTTGTGTTACCTTTTCTCTTTCCATGATTTACTTTATCATCTTACATCTTACATTTACAGT TAAGTTATATGTAATTTGTAAAGTAGGAATAAGTAACCTTTTTGTTAACGGTTTCCTATGTTCA TCCCACGATTAAGTTTTCTGCTATATTGTAAGCTATCGAGTCTAAATTAGTTTAAATATTTGTA GACAGGACTCATTGTGATCCCCCAGAAGCATGGCTAATGCATTGTCTTACAAAATATACATTTA TATCTAGTGTTTGATTGTTTTTGTGGGCTTTAGTTTTTGTTTCATGCACCTGATTTCGTCGACA GATTGTGTGAGCTGATTTTTTTGGCATCATTGTATTTGGTGGCTGACTTATACCTTTTATTTTA TTACTCTTGTACTGATATAACAGAATTCTCAATCTATTCAGTGGATCCCTTTTTATTTATGTCT CTTGTCTTGATTTGGTAAATTTTGGTGCAACTGTTATACGAGACTTGTTATCATTGAAAAGGAA ATATAGGCTTATGTGAAATGAGCAGCTGTAATCTTTCTTCGCGTTATTTTTAGGTATATTCGGA AGTATTTCTTTCTCCAGCTGTGCATCGTTTCATATGCGGTTATAGGGTTCTTTTGATGCATATT TAAGTATAGGGAGGTGCAGTGTGCATTTTATTTATTACGATTTCCTGTTTCCTAGCTAAGTTAC ACTGCCTTGATGTAGTGAATATGTTCCTACCTTTTCTTTTTCTCTTAGTTTCAGTTTTTCATGG TTTATTTTATTTTGATGACCTGCAGCCGCGAATTCACTCATCGTGTGAAATCTGTGTCAATGTC AAAGTTTACTTCTAAAGAAGTTGAAGTACTTCAAAATGGTGGTAATCAGGTAGTATTGATGCTA AAGTTTCAATTTTCTAAATTTTCCTTAGATAGATGTTTCCGTCTGTAGCTTATGAGAGTTTTCT ATTTCAGCGCGCCCGAGAAATATATTTGAAAAACTGGGACCACCAACGACAGAGGCTTCCAGAA AACAGGTTTAAATAATTAGTTTTCCTTGGTGTTCATGTTTGAGCAGCCAGAAACATTGCTTTTT TGAAAAAAGAAAAAATATGATCTGTTTAAAATCCATGATATGTTGTTGTTGTTCTTTGGCAGTA ATGCTGAGAGAGTTCGCGAATTTATCAAAAATGTGTATGTGCAAAAGAAATATGCAGGCGCAAA TGATGCGGACAAGCCTTCGAAAGATAGTCAGGCAAGATTATCTTGTTTCTTTTATGCCATCTTT CTAAATTTGACTCATATTTTGCTGCAATATTTAGGATAAAATCTTATATCCAAAGCAGCAATGT ATTTGAGTGAAATTTTCCGTCTAAGTGTGTTCTATTGGTAGTACTTTTCTTTTTCTTTAGGATT TATTTTATACTTGAACTTTCTAATCTAACAATACAATATTATGGGTTTTAAGATGATCAATGTT GCTCTGAAGCTCAAGGTAGTCATATAGGTCTTCTAGTGTCTGATACTTATTATTTCTTTTGACT TGCTCTAAATTCAACCATGTGCATGCATGCATGGAACACTTATTTATTTTTCATTTTCCCTGTA ATGCAATGGACAGGACCATGTAAGTTCTGAAGATATGACACGACGGGCCAACTCCTATCATTCT TACTCCCAAAGCCCTCCTTACGATTATCAGTATGAAGAGCGCCGTTATGGGAAAATACCCTTGG GATTTACCGGCAAGTCTGCTTCAGTGAAAGGTCTTCATGCAAAAGCCTCTAGTTTTGTATACAG CCCCGGACGTTTTAGTGATCATATGTTTGAAGACCAATTCTCAAATGAGGACTCAGCTCCAAGG GCTTCAGATTATTCTGTTTCGAGTGCAGGAGATCCGTTCAGGTCTGATATACAGTCACCAAATT TTCAGCAGGAAGCTGAATTTCGTAGTCCCCAGTTTCAGCATTCAAATGCCCCTCCAAGTGAAAA CTTATTTCCAGGCAGGCAACATCAGGTAATAATACCCACATCCTCTAGGAATCTTGTTTGTATC TGGGCTAAGAGTTTTTTTGTTACAATTGTAAATCACCTCCTGGTGGAAAAAGTGAGTTTACCGA TGTTCCAATTTCTTCGTTCAGAGAACTACATCTTCTGGGAGTGTCAGATCAGTTGACAGTAATT TCATGTCTATCAAGTCATATACTTCGGGTGGTTTAGGGGAAGCCGTATCTGAAAGTCGTCAAAA TACAGGAAGCCAGCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.114007689

Conservation Information
Conserved circRNAs	NA
PMCS	0.114007689

			
						 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 AT1G08680_circ_g.1

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