Plant Circular RNA Database

Detail information of AT4G11880_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT4G11880_circ_g.2
					
						ID in PlantcircBase
						ath_circ_030482
					
						Alias
						4:7143493-7146271
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 7143493-7146271  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G11880						
					
						Parent gene annotation
						
							Agamous-like MADS-box protein AGL14
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT4G11880_circ_g.1 AT4G11880_circ_g.3 						
					
						Support reads
						1/1
					
						Tissues
						root
					
						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
						AT4G11880.1:4
AT4G11880.2:4
AT4G11880.4:4
AT4G11880.3:4

General Information
CircRNA Name	AT4G11880_circ_g.2
ID in PlantcircBase	ath_circ_030482
Alias	4:7143493-7146271
Organism	Arabidpsis thaliana
Position	chr4: 7143493-7146271 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G11880
Parent gene annotation	Agamous-like MADS-box protein AGL14
Parent gene strand	+
Alternative splicing	AT4G11880_circ_g.1 AT4G11880_circ_g.3
Support reads	1/1
Tissues	root
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	AT4G11880.1:4 AT4G11880.2:4 AT4G11880.4:4 AT4G11880.3:4

			
						 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  
						
							AAAAATGATGGGAGAAGGACTTGACGCATCTTCTATAGAAGAGTTACAACAATTGGAGAACCAG
TTGGACAGAAGCTTAATGAAAATAAGAGCCAAAAAGggttaattaaattagaagaatggtgagg
ggaaagacagagatgaagaggatagagaacgcaacgagcaggcaagtgactttctcaaaaagaa
gaaatgga

									
								

					

						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
						
							GGTTAATTAAATTAGAAGAATGGTGAGGGGAAAGACAGAGATGAAGAGGATAGAGAACGCAACG
AGCAGGCAAGTGACTTTCTCAAAAAGAAGAAATGGACTTTTGAAGAAAGCTTTTGAATTATCAG
TCCTTTGTGATGCTGAAGTTGCCCTAATCATCTTCTCTCCTAGAGGCAAACTCTATGAGTTCTC
TAGCTCCTCCAGGTATAATCTACATAAGTTTTATGTATTTTTATATATTTACTATATACTGATT
GATCCGTTGTATCATGATCGGGTTTCTCTATAAAATATTTAACGAAATCCATTAAAATTGTGGT
CTAGATTTGATTGATATTGGTTGTTTTATGTGTTTAAACGAAGATCTTTAATTTTTATTATTAT
TTTTGTTAAGAAAGATCCTTAATTTTAGAGAGAAAGAAAAATCAGATAGATCAGAAATAGAAAG
TCAGGATTCGAGATTGAAACGTGGTTCGCACATGGGTCAATGTTTTTCCTTGGAATTGCAAAAT
CAAAAGAGCAAAGGTGTGTAAATACATGATGAGATATAGTTTGGAGTTTGGACAACTAACAGAA
AATTCCAGTAAAAAATAAAACATTTTTGACAAAGAAGAGCTAACCTTGAAATGCTATTCGACAC
ACACATGTAGCACTAAGTTTGAGTACAGTCTTCTTACTCAAATTAGGCAATAAATTCTCATATG
AGATAGATTCCATTTTTACTTGGTTCATATTTAACCAGATTTAGAAAAAACAATATTTCCTTCT
TTAGAGGTGTGTTTCCCTATTATATTTTTTCTTGTGTATTTTAATAATGTAGGAAGAACTTATA
CACACTGACACACACACATATACATATACTGTATATACTATATACAAGCACTTAATTACTACTG
TATTGATGTACTTGAAAAGTTTTGTTTTCTAAAACATTGGGATTAGACTGCTCATTTTCACATA
TATGCATGAATTTGGTTATATATTTTGTAATTTGAAATAATGGTGTCACACTAATAATACTGAT
GAGATTTGAGTGTTTTGATTTCATAGGAAGCTAAGTATTGCATTATATATGCATGTATAATTAT
GATATAGATTTATATGTACATAATTTCTAAACATATTTCATTTTTATATATATGTACGTACGTA
ACTACATTAACAGGTATGTATGATTATGATATAGATTTATTATTGTCGACCACCACGTAATACA
AGATCAAAATGGTGATCAAAGAAAAATTTATGTACCTTTTGAATTTTAATTATTTTTTATATGT
ACATGTACCCGTCAATAAATAGCTGACCAACGTTTCTTTTAATTTATTTCTGTTTTGTAAAATT
ACTTCTCTTTTTTACTCTTGGGCAAAGAGGAATTTTCAAACCAAAAATAGAAAAATACTAACGC
TTTTTCTTTTCAAAATCGTCACTATACCATTTTGAATGTGTGTATATGTGGATGCATGCACCTA
TGTACATTTAGGATTTATGTATGTTTATTCAATATTGAGGTAACAAAGAAGCATTTGACACACT
TTTCACCCAAATAGTACAATTACAAAGGCCTCTTTATCTGAGTGATGAGTGATGAGTGATGAGT
GATGACAGTGAAGGTGTCATTAGCATGTGTCTAGATCAGACTATGTTGATTCTTTTTATGATTT
CTCTATTTGTTATATTTTGTATAGTTATAAATTATTTTGTATGTTTACTATGTGGTTATTTAAT
TACATGTACGTACTTTATTAGACAAAAAAAAAGAATGATATTTTAGTTTTTTTTTTGAAGCAAG
CCAAGAGGGTTAAAAATCAAAACTAACTATAGGTGTTGTTTACACATACTGTATTTACCTGTTA
ATCAGTTTTTAATTACTTAATTAAGCCATATCCACATGACTAGAAGATATCTTTAACTCAGATT
GCAACATTTATATATTATGTTTTAGTTATTGATATTCTTACTTCATTATAAATCCAAAAGATCA
GCAGAAGATTGATACAATTTTTATTAGATCACAATACTATAAGCATTATCATTAAATTGTGAGA
AATCTAGCTTAGACATTTGCTTCTTAATTATTTCCTTTAATTTGACTTGTTTTTGTTTTTGATA
TACTGATTTGATTTTTGAAATTTTAATTTCAGTATACCTAAAACAGTAGAAAGATATCAAAAGC
GAATACAAGATCTCGGGTCTAACCATAAGAGAAATGATAATTCACAGGTAACCAAACTTCATAG
AATTGTTAGTTTATCATGGTTATTTTCATATATATACATTTGCTAAAAATATACTTATCCAGAG
CTCAAGTAAAAAGAAATTCTATATCAATATCTAGTACAATTTTATGGTGTAGATCCTTTGGTGT
ACCACTTTTAAAAAATTAATATACATGCTAAAGTGTATGCTTTATTTATCGAACATGGGTGATA
ATTTTTTATATTAATATTTGTACTTACAATTTTGGTTAAGAAAATATGTTTTGCATTTCTCATG
ATCAAACCTTGTTGACAGCAATCGAAGGACGAAACCTATGGCTTGGCGAGAAAGATCGAACATT
TGGAGATTTCGACACGGTTTTTGAACTCAAAATACTTATACGAATATTTTGTTATGAATGTAAC
GTTTACATTGTAAGCGTCTATTTACCATATGTTTAAAAAATATATACATTTGCAGAAAAATGAT
GGGAGAAGGACTTGACGCATCTTCTATAGAAGAGTTACAACAATTGGAGAACCAGTTGGACAGA
AGCTTAATGAAAATAAGAGCCAAAAAG
						
					

			
		

Sequences
Splice junction sequence	AAAAATGATGGGAGAAGGACTTGACGCATCTTCTATAGAAGAGTTACAACAATTGGAGAACCAG TTGGACAGAAGCTTAATGAAAATAAGAGCCAAAAAGggttaattaaattagaagaatggtgagg ggaaagacagagatgaagaggatagagaacgcaacgagcaggcaagtgactttctcaaaaagaa gaaatgga
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	GGTTAATTAAATTAGAAGAATGGTGAGGGGAAAGACAGAGATGAAGAGGATAGAGAACGCAACG AGCAGGCAAGTGACTTTCTCAAAAAGAAGAAATGGACTTTTGAAGAAAGCTTTTGAATTATCAG TCCTTTGTGATGCTGAAGTTGCCCTAATCATCTTCTCTCCTAGAGGCAAACTCTATGAGTTCTC TAGCTCCTCCAGGTATAATCTACATAAGTTTTATGTATTTTTATATATTTACTATATACTGATT GATCCGTTGTATCATGATCGGGTTTCTCTATAAAATATTTAACGAAATCCATTAAAATTGTGGT CTAGATTTGATTGATATTGGTTGTTTTATGTGTTTAAACGAAGATCTTTAATTTTTATTATTAT TTTTGTTAAGAAAGATCCTTAATTTTAGAGAGAAAGAAAAATCAGATAGATCAGAAATAGAAAG TCAGGATTCGAGATTGAAACGTGGTTCGCACATGGGTCAATGTTTTTCCTTGGAATTGCAAAAT CAAAAGAGCAAAGGTGTGTAAATACATGATGAGATATAGTTTGGAGTTTGGACAACTAACAGAA AATTCCAGTAAAAAATAAAACATTTTTGACAAAGAAGAGCTAACCTTGAAATGCTATTCGACAC ACACATGTAGCACTAAGTTTGAGTACAGTCTTCTTACTCAAATTAGGCAATAAATTCTCATATG AGATAGATTCCATTTTTACTTGGTTCATATTTAACCAGATTTAGAAAAAACAATATTTCCTTCT TTAGAGGTGTGTTTCCCTATTATATTTTTTCTTGTGTATTTTAATAATGTAGGAAGAACTTATA CACACTGACACACACACATATACATATACTGTATATACTATATACAAGCACTTAATTACTACTG TATTGATGTACTTGAAAAGTTTTGTTTTCTAAAACATTGGGATTAGACTGCTCATTTTCACATA TATGCATGAATTTGGTTATATATTTTGTAATTTGAAATAATGGTGTCACACTAATAATACTGAT GAGATTTGAGTGTTTTGATTTCATAGGAAGCTAAGTATTGCATTATATATGCATGTATAATTAT GATATAGATTTATATGTACATAATTTCTAAACATATTTCATTTTTATATATATGTACGTACGTA ACTACATTAACAGGTATGTATGATTATGATATAGATTTATTATTGTCGACCACCACGTAATACA AGATCAAAATGGTGATCAAAGAAAAATTTATGTACCTTTTGAATTTTAATTATTTTTTATATGT ACATGTACCCGTCAATAAATAGCTGACCAACGTTTCTTTTAATTTATTTCTGTTTTGTAAAATT ACTTCTCTTTTTTACTCTTGGGCAAAGAGGAATTTTCAAACCAAAAATAGAAAAATACTAACGC TTTTTCTTTTCAAAATCGTCACTATACCATTTTGAATGTGTGTATATGTGGATGCATGCACCTA TGTACATTTAGGATTTATGTATGTTTATTCAATATTGAGGTAACAAAGAAGCATTTGACACACT TTTCACCCAAATAGTACAATTACAAAGGCCTCTTTATCTGAGTGATGAGTGATGAGTGATGAGT GATGACAGTGAAGGTGTCATTAGCATGTGTCTAGATCAGACTATGTTGATTCTTTTTATGATTT CTCTATTTGTTATATTTTGTATAGTTATAAATTATTTTGTATGTTTACTATGTGGTTATTTAAT TACATGTACGTACTTTATTAGACAAAAAAAAAGAATGATATTTTAGTTTTTTTTTTGAAGCAAG CCAAGAGGGTTAAAAATCAAAACTAACTATAGGTGTTGTTTACACATACTGTATTTACCTGTTA ATCAGTTTTTAATTACTTAATTAAGCCATATCCACATGACTAGAAGATATCTTTAACTCAGATT GCAACATTTATATATTATGTTTTAGTTATTGATATTCTTACTTCATTATAAATCCAAAAGATCA GCAGAAGATTGATACAATTTTTATTAGATCACAATACTATAAGCATTATCATTAAATTGTGAGA AATCTAGCTTAGACATTTGCTTCTTAATTATTTCCTTTAATTTGACTTGTTTTTGTTTTTGATA TACTGATTTGATTTTTGAAATTTTAATTTCAGTATACCTAAAACAGTAGAAAGATATCAAAAGC GAATACAAGATCTCGGGTCTAACCATAAGAGAAATGATAATTCACAGGTAACCAAACTTCATAG AATTGTTAGTTTATCATGGTTATTTTCATATATATACATTTGCTAAAAATATACTTATCCAGAG CTCAAGTAAAAAGAAATTCTATATCAATATCTAGTACAATTTTATGGTGTAGATCCTTTGGTGT ACCACTTTTAAAAAATTAATATACATGCTAAAGTGTATGCTTTATTTATCGAACATGGGTGATA ATTTTTTATATTAATATTTGTACTTACAATTTTGGTTAAGAAAATATGTTTTGCATTTCTCATG ATCAAACCTTGTTGACAGCAATCGAAGGACGAAACCTATGGCTTGGCGAGAAAGATCGAACATT TGGAGATTTCGACACGGTTTTTGAACTCAAAATACTTATACGAATATTTTGTTATGAATGTAAC GTTTACATTGTAAGCGTCTATTTACCATATGTTTAAAAAATATATACATTTGCAGAAAAATGAT GGGAGAAGGACTTGACGCATCTTCTATAGAAGAGTTACAACAATTGGAGAACCAGTTGGACAGA AGCTTAATGAAAATAAGAGCCAAAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.117299113

Conservation Information
Conserved circRNAs	NA
PMCS	0.117299113

			
						 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 AT4G11880_circ_g.2

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