Plant Circular RNA Database

Detail information of AT5G57580_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT5G57580_circ_g.4
					
						ID in PlantcircBase
						ath_circ_044572
					
						Alias
						5:23316115-23317288
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 23316115-23317288  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G57580						
					
						Parent gene annotation
						
							Calmodulin-binding protein 60 B
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G57580_circ_g.2 AT5G57580_circ_g.3 AT5G57580_circ_g.5 AT5G57580_circ_g.6 						
					
						Support reads
						2
					
						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  
						
							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
						AT5G57580.1:4

General Information
CircRNA Name	AT5G57580_circ_g.4
ID in PlantcircBase	ath_circ_044572
Alias	5:23316115-23317288
Organism	Arabidpsis thaliana
Position	chr5: 23316115-23317288 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G57580
Parent gene annotation	Calmodulin-binding protein 60 B
Parent gene strand	-
Alternative splicing	AT5G57580_circ_g.2 AT5G57580_circ_g.3 AT5G57580_circ_g.5 AT5G57580_circ_g.6
Support reads	2
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	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	AT5G57580.1:4

			
						 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  
						
							CACGAGCCATTAAGATATATAATGAGAAATTTGTATTCTACCTTCCAGTAAGCCTAGCAGGGCC
TAGTTTTGCTAAAGCACGTTCCAGTTCCTCGCTGACcttttggctatcagtaagtgaatcagca
gagaagtattgatctccagaaataaggccgcttagctcatagatattattgaacacaacaccga
cattcctt

									
								

					

						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: 924
Transcript exons: 23316115-23316318,23316398-23316558,23316647-23317146,23
317230-23317288
CTTTTGGCTATCAGTAAGTGAATCAGCAGAGAAGTATTGATCTCCAGAAATAAGGCCGCTTAGC
TCATAGATATTATTGAACACAACACCGACATTCCTTGAATCCTCAGCATAGTAGATATAAAGCT
TGCTGCTCTGGACACACGTCTTTGCGTGCTCTACTAGTGCATCCCACATTTTGTTTGACATGCC
GCTTCCAAGAATAGTACGTAATTTTGGAGAATCCTTGACCATTACTCTCAGAAAATCTTCTACA
GTGTTTATTCCTTCAGCAGTAAGCTTTTTATGGAATGCCCCATCCTTGCCGATCTTGTCCAATC
TCCACACATCATCATTCAGAGCAGGTGGATAATGCTTCTTGTACAATTCGCCCCTGTGATCCTT
AACAACAAAAGCTTCCGTCTTGGCCTCACGGATACGCATGCCATCACAACACCCAGAAACCACC
CGTAAACCAAGTCGGAACTTCCGACTTCGAATCCAACTCGAATTATCCGTGAAAACTAGCTCGC
CCAAAGTTCCAACCCCTTCCTTGAGTGTAACATACACTTCTCCAGTCAGCAACGGTCTCTTTCC
TGAACGCTCTTTTACAACATGGCTTTCAAATTCTTCTTGTGTCCAGTCTTCATCATCTTCAGTG
TTAAAGTCACCCTCAAGCACAACAATGTGAAGCTTTGCCGAAGCCTCTGGACCATATACCACAG
CACGGCCAGTGTTTGCATCAATCAAGACAACATGAATCACAGCACCTTGCTCTCCTTCTACTTT
CCCCCCAGTGAATAACGGGAGAGATAACCTAGATTTGAAGTGCAACTGTAACTTCCGACCATCC
GGACCTTCAATTCGCTTTGGAGAAGAGCCCGAACTTCCAGTAAGCCTAGCAGGGCCTAGTTTTG
CTAAAGCACGTTCCAGTTCCTCGCTGAC
						
					

						Genomic sequence
						
							CTTTTGGCTATCAGTAAGTGAATCAGCAGAGAAGTATTGATCTCCAGAAATAAGGCCGCTTAGC
TCATAGATATTATTGAACACAACACCGACATTCCTTGAATCCTCAGCATAGTAGATATAAAGCT
TGCTGCTCTGGACACACGTCTTTGCGTGCTCTACTAGTGCATCCCACATTTTGTTTGACATGCC
GCTTCCAAGAATCTAGATAAAAACGGATAAAGATAAATTAGCCATGAACAATCTCTTTCAAGAG
TAAAAACTTGACATAATAAGCACTTACAGTACGTAATTTTGGAGAATCCTTGACCATTACTCTC
AGAAAATCTTCTACAGTGTTTATTCCTTCAGCAGTAAGCTTTTTATGGAATGCCCCATCCTTGC
CGATCTTGTCCAATCTCCACACATCATCATTCAGAGCAGGTGGATAATGCTTCTTGTACACTGC
ACATAAAAGAAATGTGCATCAAACTAAAAGAAGTAAACACCAGATGGTACAGTGAGAAGAAAAG
GGGAGCTTTTAAGACCATACATTCGCCCCTGTGATCCTTAACAACAAAAGCTTCCGTCTTGGCC
TCACGGATACGCATGCCATCACAACACCCAGAAACCACCCGTAAACCAAGTCGGAACTTCCGAC
TTCGAATCCAACTCGAATTATCCGTGAAAACTAGCTCGCCCAAAGTTCCAACCCCTTCCTTGAG
TGTAACATACACTTCTCCAGTCAGCAACGGTCTCTTTCCTGAACGCTCTTTTACAACATGGCTT
TCAAATTCTTCTTGTGTCCAGTCTTCATCATCTTCAGTGTTAAAGTCACCCTCAAGCACAACAA
TGTGAAGCTTTGCCGAAGCCTCTGGACCATATACCACAGCACGGCCAGTGTTTGCATCAATCAA
GACAACATGAATCACAGCACCTTGCTCTCCTTCTACTTTCCCCCCAGTGAATAACGGGAGAGAT
AACCTAGATTTGAAGTGCAACTGTAACTTCCGACCATCCGGACCTTCAATTCGCTTTGGAGAAG
AGCCCGAACTGCAAAGGAATAATAAACCTCAGGAAACCATTATCTAACGTCACGAGCCATTAAG
ATATATAATGAGAAATTTGTATTCTACCTTCCAGTAAGCCTAGCAGGGCCTAGTTTTGCTAAAG
CACGTTCCAGTTCCTCGCTGAC
						
					

			
		

Sequences
Splice junction sequence	CACGAGCCATTAAGATATATAATGAGAAATTTGTATTCTACCTTCCAGTAAGCCTAGCAGGGCC TAGTTTTGCTAAAGCACGTTCCAGTTCCTCGCTGACcttttggctatcagtaagtgaatcagca gagaagtattgatctccagaaataaggccgcttagctcatagatattattgaacacaacaccga cattcctt
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: 924 Transcript exons: 23316115-23316318,23316398-23316558,23316647-23317146,23 317230-23317288 CTTTTGGCTATCAGTAAGTGAATCAGCAGAGAAGTATTGATCTCCAGAAATAAGGCCGCTTAGC TCATAGATATTATTGAACACAACACCGACATTCCTTGAATCCTCAGCATAGTAGATATAAAGCT TGCTGCTCTGGACACACGTCTTTGCGTGCTCTACTAGTGCATCCCACATTTTGTTTGACATGCC GCTTCCAAGAATAGTACGTAATTTTGGAGAATCCTTGACCATTACTCTCAGAAAATCTTCTACA GTGTTTATTCCTTCAGCAGTAAGCTTTTTATGGAATGCCCCATCCTTGCCGATCTTGTCCAATC TCCACACATCATCATTCAGAGCAGGTGGATAATGCTTCTTGTACAATTCGCCCCTGTGATCCTT AACAACAAAAGCTTCCGTCTTGGCCTCACGGATACGCATGCCATCACAACACCCAGAAACCACC CGTAAACCAAGTCGGAACTTCCGACTTCGAATCCAACTCGAATTATCCGTGAAAACTAGCTCGC CCAAAGTTCCAACCCCTTCCTTGAGTGTAACATACACTTCTCCAGTCAGCAACGGTCTCTTTCC TGAACGCTCTTTTACAACATGGCTTTCAAATTCTTCTTGTGTCCAGTCTTCATCATCTTCAGTG TTAAAGTCACCCTCAAGCACAACAATGTGAAGCTTTGCCGAAGCCTCTGGACCATATACCACAG CACGGCCAGTGTTTGCATCAATCAAGACAACATGAATCACAGCACCTTGCTCTCCTTCTACTTT CCCCCCAGTGAATAACGGGAGAGATAACCTAGATTTGAAGTGCAACTGTAACTTCCGACCATCC GGACCTTCAATTCGCTTTGGAGAAGAGCCCGAACTTCCAGTAAGCCTAGCAGGGCCTAGTTTTG CTAAAGCACGTTCCAGTTCCTCGCTGAC
Genomic sequence	CTTTTGGCTATCAGTAAGTGAATCAGCAGAGAAGTATTGATCTCCAGAAATAAGGCCGCTTAGC TCATAGATATTATTGAACACAACACCGACATTCCTTGAATCCTCAGCATAGTAGATATAAAGCT TGCTGCTCTGGACACACGTCTTTGCGTGCTCTACTAGTGCATCCCACATTTTGTTTGACATGCC GCTTCCAAGAATCTAGATAAAAACGGATAAAGATAAATTAGCCATGAACAATCTCTTTCAAGAG TAAAAACTTGACATAATAAGCACTTACAGTACGTAATTTTGGAGAATCCTTGACCATTACTCTC AGAAAATCTTCTACAGTGTTTATTCCTTCAGCAGTAAGCTTTTTATGGAATGCCCCATCCTTGC CGATCTTGTCCAATCTCCACACATCATCATTCAGAGCAGGTGGATAATGCTTCTTGTACACTGC ACATAAAAGAAATGTGCATCAAACTAAAAGAAGTAAACACCAGATGGTACAGTGAGAAGAAAAG GGGAGCTTTTAAGACCATACATTCGCCCCTGTGATCCTTAACAACAAAAGCTTCCGTCTTGGCC TCACGGATACGCATGCCATCACAACACCCAGAAACCACCCGTAAACCAAGTCGGAACTTCCGAC TTCGAATCCAACTCGAATTATCCGTGAAAACTAGCTCGCCCAAAGTTCCAACCCCTTCCTTGAG TGTAACATACACTTCTCCAGTCAGCAACGGTCTCTTTCCTGAACGCTCTTTTACAACATGGCTT TCAAATTCTTCTTGTGTCCAGTCTTCATCATCTTCAGTGTTAAAGTCACCCTCAAGCACAACAA TGTGAAGCTTTGCCGAAGCCTCTGGACCATATACCACAGCACGGCCAGTGTTTGCATCAATCAA GACAACATGAATCACAGCACCTTGCTCTCCTTCTACTTTCCCCCCAGTGAATAACGGGAGAGAT AACCTAGATTTGAAGTGCAACTGTAACTTCCGACCATCCGGACCTTCAATTCGCTTTGGAGAAG AGCCCGAACTGCAAAGGAATAATAAACCTCAGGAAACCATTATCTAACGTCACGAGCCATTAAG ATATATAATGAGAAATTTGTATTCTACCTTCCAGTAAGCCTAGCAGGGCCTAGTTTTGCTAAAG CACGTTCCAGTTCCTCGCTGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.398798847

Conservation Information
Conserved circRNAs	NA
PMCS	0.398798847

			
						 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 AT5G57580_circ_g.4

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