Plant Circular RNA Database

Detail information of AT5G52530_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G52530_circ_g.2
					
						ID in PlantcircBase
						ath_circ_043739
					
						Alias
						5:21318161-21320893
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 21318161-21320893  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G52530						
					
						Parent gene annotation
						
							Dentin sialophosphoprotein-like protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G52530_circ_g.1 AT5G52530_circ_g.3 AT5G52530_circ_g.4 AT5G52530_circ_g.5 						
					
						Support reads
						2
					
						Tissues
						root
					
						Exon boundary  
						
							Yes-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
						AT5G52530.1:3
AT5G52530.2:3
AT5G52530.3:3

General Information
CircRNA Name	AT5G52530_circ_g.2
ID in PlantcircBase	ath_circ_043739
Alias	5:21318161-21320893
Organism	Arabidpsis thaliana
Position	chr5: 21318161-21320893 JBrowse»
Reference genome	TAIR10.38
Type	u-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G52530
Parent gene annotation	Dentin sialophosphoprotein-like protein
Parent gene strand	+
Alternative splicing	AT5G52530_circ_g.1 AT5G52530_circ_g.3 AT5G52530_circ_g.4 AT5G52530_circ_g.5
Support reads	2
Tissues	root
Exon boundary	Yes-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	AT5G52530.1:3 AT5G52530.2:3 AT5G52530.3:3

			
						 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  
						
							ATGGAGGTGATGTTATTCGACGGTTCAAGTTTAATGAAGAACAACAGTCAGTGGTGGTAGCCAA
CGACAACAACAACAAAGAGTCATGATAACAGATAACgtgaggtaagcgttcataaaacaaaaat
caagttttgtgggagtgcattgaagcatgacaagcaataaaggtgctatcatccctccagagct
tccttgga

									
								

					

						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
						
							GTGAGGTAAGCGTTCATAAAACAAAAATCAAGTTTTGTGGGAGTGCATTGAAGCATGACAAGCA
ATAAAGGTGCTATCATCCCTCCAGAGCTTCCTTGGAAACCGGTGGCTAAAGGTAGCAGAAGTTC
AACAAGGCGTGGCAAGAAACTAGTTAAACGAGTTGCAGCTTCAGATATTGAGTCAGAAGACAAG
AGTTCAACACACACACTAGTAGCAGGAGAATCAAAGCGTCCAAAGGTTCCTCTTTTACTTTTTG
TGCTTTCTTTCTTGATTTTGTTAGGAAATTTCTGGTCTCTTGATTTTAGTTTTTATTCTTTCTA
TTTATTGCAGCTTGGCGTTTCTGTTCTAGGTCAGCATTTCGTTGAAAGAGTAGAGCATGTTCCG
ATTAAGAAACGGATATTTGTGGTTAGCTCTCCATCACCATCACCATCATCATCAAAGAGGTCAT
CTGCTCAACGTGAAGGCTCAGAACATAAGGCACAGATCAACCATGTTTTACCTGTTTCGAGATT
AAACCCTAATTTGGTCTCAGACGTCCGTGATGAAAAGCCTGATTACAGTGTTCATGACTTTTCT
GGTATCAAGATACTTGCTGATGCTGCTTGCAGTACTGATGTGAGTAATGATTTTGCACCAGCTG
TAGACCGTCTGCCTGCTGAAGAATTTGCTGTTCAGCTACAAGATACCTCAACCATATCAACTCA
TGTTGAAGGTAACGATTCATCAGCTGGAACTGCTGATGTCTCGCATACTGCGGTTGATTCCGGT
GATCAGAGTGGCCAAGGAAAGAGCAATATTGTAGCGCCTCAGAAACATCCTCTAACAAATTTGT
GCAATGAGTTGGCTGATGAGCAGAGTGTAGAGCACAGCAGAGTAACCTCTGGAGGGATTATAGC
ACCTAAAAAAACCTGCATTGCTCTTTCAAATGAATCCTCAACAGAAAGACCAAAGGATAATGTA
GAAGCAAGTGAAAGTGAACCTTTAGCACCTGATAGTGGAGCTGTAACGGTGTCAGAGAAATTAT
CAGCCGATGAGCCAACTGAAAAAAACAATGAAGGCCTTAAAGATGTTAAATTTCTCTGGGATTT
AAATATTCCTTGTGATGTAGAAGATGAAGCGTCTCGAAGAGATGAAGAGGGAGAAATCACAGAG
TCTATTGCCCCTAAAGGGAGCGAACCTTTTGATGGAAGTAAACACAGTATGGATGGGGTAATTG
CATCAGATGAACATACAAAATTTTCATCACCATCTAAGCCTAATGATGAAGCAGCTGCTACAAA
TGACAAGGATTGCCAATCTGGTTATGACTCCCAGTTTGAGGATGGAGAGTTGAGGGAACCATAC
CCTTGGGAAGAAAATGAAGAGGTTGAACAGTTGGATTACGGTTCTGAGCCAGAGGATGAGAGAT
TCTACTCTATGGGTTCTGAGAAGGGAATCTTGACAGATGAGAATTTCAGTCATGTTAAGTGTGA
ATCTGGTGATGCACTGAGAGTTGGGCAGGCTAATGAAGGAAGTGACATAGAGAAGCAAGCTGTT
GTAAACATGAGCGATTCACATCCTAAGAAGGGCTCTTCTTCTCCTTCAAGGAGTTTTGGTTCAA
AACCATACAAGGAGGTGCCTTCACATGATGCAATCCAGAGGAGAAGGCAAGTTTGCTTTCCCTG
AGCCTTTTTTTTTGGTCAAACGCTTATTAATAATTTGTTAGTAACTGAGTCATGGTTCTTTATG
ATTCAGGCCTGATACTTATGAAGAGGTGAGCACGGGTCCAGATAGGTTTGCTCGGAGAGACGAC
AGGTCAGGGATGCGTATGCGTAATCGGAGTCCTCAAAGAGGGTATTTTAGTGGTTGGGATTCCA
AACGACGCTTCTCCCCTCCTAATTACAAAGATGGTTCTTATGGTTCCGGGCGTCCATGGCATAA
AAGAATGGCAGATGATCGAGGTATGATGAACGGCTTTGATGAGTCAGGGTCAGGACAAGGACCA
GGACCAGAACCAGAACCAGAGGGTTATGTTCGTAGGCAATTCTCAAATGGTGGATACAGAGGTC
GGTTTAAGAGATTCCCAGATGGTGGGGATCGTAAATTCAGGGGCCCATACACTGATACAAACCA
ATTTTCTGGTCGGATGCACAACCGGATGAGTGGTAATAGGAGAGAGAGAGGTGGCTCTCCGGTT
GTCAGGAGATTGCACCACCCGCAATCAGAGTCAAGATCCAGAAGCCGTTCTCCAGTCTTGTGGA
ATGGCCGTAACAGATCACCTCCTCCTCCTCCAGGTGGGTTTAGAGCAGACGAGAGGATGACGGA
AAGAGTGAGGCTGCCTTTCCAGAAACGGTTTCCTGCAGATCAGGAGATGGGTTATATGTCACCT
CCGAGAAACAGAATGTCGTCGCCGAGGTTCTTTGAAGGGAGGAATAATGGTGCTGGAGAGAATT
ATAATAGCTTCAGAGAAAGGAAGTTCCGGCCTGGACAGAGATTTTATGTCGGAAATTCCATGAG
AAGACCGAATTCTGACAACAACAACTTAAGACCATTTATTCCGAACAGAAGATTTGACAATCCG
GAAGAGAGCACTGGTGGGAACAGGTTTGAGATGACTCAGCAGCGAAGGACTCGACGGTCTGAGA
CCACAGAAGATGGAGGTGATGTTATTCGACGGTTCAAGTTTAATGAAGAACAACAGTCAGTGGT
GGTAGCCAACGACAACAACAACAAAGAGTCATGATAACAGATAAC
						
					

			
		

Sequences
Splice junction sequence	ATGGAGGTGATGTTATTCGACGGTTCAAGTTTAATGAAGAACAACAGTCAGTGGTGGTAGCCAA CGACAACAACAACAAAGAGTCATGATAACAGATAACgtgaggtaagcgttcataaaacaaaaat caagttttgtgggagtgcattgaagcatgacaagcaataaaggtgctatcatccctccagagct tccttgga
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	GTGAGGTAAGCGTTCATAAAACAAAAATCAAGTTTTGTGGGAGTGCATTGAAGCATGACAAGCA ATAAAGGTGCTATCATCCCTCCAGAGCTTCCTTGGAAACCGGTGGCTAAAGGTAGCAGAAGTTC AACAAGGCGTGGCAAGAAACTAGTTAAACGAGTTGCAGCTTCAGATATTGAGTCAGAAGACAAG AGTTCAACACACACACTAGTAGCAGGAGAATCAAAGCGTCCAAAGGTTCCTCTTTTACTTTTTG TGCTTTCTTTCTTGATTTTGTTAGGAAATTTCTGGTCTCTTGATTTTAGTTTTTATTCTTTCTA TTTATTGCAGCTTGGCGTTTCTGTTCTAGGTCAGCATTTCGTTGAAAGAGTAGAGCATGTTCCG ATTAAGAAACGGATATTTGTGGTTAGCTCTCCATCACCATCACCATCATCATCAAAGAGGTCAT CTGCTCAACGTGAAGGCTCAGAACATAAGGCACAGATCAACCATGTTTTACCTGTTTCGAGATT AAACCCTAATTTGGTCTCAGACGTCCGTGATGAAAAGCCTGATTACAGTGTTCATGACTTTTCT GGTATCAAGATACTTGCTGATGCTGCTTGCAGTACTGATGTGAGTAATGATTTTGCACCAGCTG TAGACCGTCTGCCTGCTGAAGAATTTGCTGTTCAGCTACAAGATACCTCAACCATATCAACTCA TGTTGAAGGTAACGATTCATCAGCTGGAACTGCTGATGTCTCGCATACTGCGGTTGATTCCGGT GATCAGAGTGGCCAAGGAAAGAGCAATATTGTAGCGCCTCAGAAACATCCTCTAACAAATTTGT GCAATGAGTTGGCTGATGAGCAGAGTGTAGAGCACAGCAGAGTAACCTCTGGAGGGATTATAGC ACCTAAAAAAACCTGCATTGCTCTTTCAAATGAATCCTCAACAGAAAGACCAAAGGATAATGTA GAAGCAAGTGAAAGTGAACCTTTAGCACCTGATAGTGGAGCTGTAACGGTGTCAGAGAAATTAT CAGCCGATGAGCCAACTGAAAAAAACAATGAAGGCCTTAAAGATGTTAAATTTCTCTGGGATTT AAATATTCCTTGTGATGTAGAAGATGAAGCGTCTCGAAGAGATGAAGAGGGAGAAATCACAGAG TCTATTGCCCCTAAAGGGAGCGAACCTTTTGATGGAAGTAAACACAGTATGGATGGGGTAATTG CATCAGATGAACATACAAAATTTTCATCACCATCTAAGCCTAATGATGAAGCAGCTGCTACAAA TGACAAGGATTGCCAATCTGGTTATGACTCCCAGTTTGAGGATGGAGAGTTGAGGGAACCATAC CCTTGGGAAGAAAATGAAGAGGTTGAACAGTTGGATTACGGTTCTGAGCCAGAGGATGAGAGAT TCTACTCTATGGGTTCTGAGAAGGGAATCTTGACAGATGAGAATTTCAGTCATGTTAAGTGTGA ATCTGGTGATGCACTGAGAGTTGGGCAGGCTAATGAAGGAAGTGACATAGAGAAGCAAGCTGTT GTAAACATGAGCGATTCACATCCTAAGAAGGGCTCTTCTTCTCCTTCAAGGAGTTTTGGTTCAA AACCATACAAGGAGGTGCCTTCACATGATGCAATCCAGAGGAGAAGGCAAGTTTGCTTTCCCTG AGCCTTTTTTTTTGGTCAAACGCTTATTAATAATTTGTTAGTAACTGAGTCATGGTTCTTTATG ATTCAGGCCTGATACTTATGAAGAGGTGAGCACGGGTCCAGATAGGTTTGCTCGGAGAGACGAC AGGTCAGGGATGCGTATGCGTAATCGGAGTCCTCAAAGAGGGTATTTTAGTGGTTGGGATTCCA AACGACGCTTCTCCCCTCCTAATTACAAAGATGGTTCTTATGGTTCCGGGCGTCCATGGCATAA AAGAATGGCAGATGATCGAGGTATGATGAACGGCTTTGATGAGTCAGGGTCAGGACAAGGACCA GGACCAGAACCAGAACCAGAGGGTTATGTTCGTAGGCAATTCTCAAATGGTGGATACAGAGGTC GGTTTAAGAGATTCCCAGATGGTGGGGATCGTAAATTCAGGGGCCCATACACTGATACAAACCA ATTTTCTGGTCGGATGCACAACCGGATGAGTGGTAATAGGAGAGAGAGAGGTGGCTCTCCGGTT GTCAGGAGATTGCACCACCCGCAATCAGAGTCAAGATCCAGAAGCCGTTCTCCAGTCTTGTGGA ATGGCCGTAACAGATCACCTCCTCCTCCTCCAGGTGGGTTTAGAGCAGACGAGAGGATGACGGA AAGAGTGAGGCTGCCTTTCCAGAAACGGTTTCCTGCAGATCAGGAGATGGGTTATATGTCACCT CCGAGAAACAGAATGTCGTCGCCGAGGTTCTTTGAAGGGAGGAATAATGGTGCTGGAGAGAATT ATAATAGCTTCAGAGAAAGGAAGTTCCGGCCTGGACAGAGATTTTATGTCGGAAATTCCATGAG AAGACCGAATTCTGACAACAACAACTTAAGACCATTTATTCCGAACAGAAGATTTGACAATCCG GAAGAGAGCACTGGTGGGAACAGGTTTGAGATGACTCAGCAGCGAAGGACTCGACGGTCTGAGA CCACAGAAGATGGAGGTGATGTTATTCGACGGTTCAAGTTTAATGAAGAACAACAGTCAGTGGT GGTAGCCAACGACAACAACAACAAAGAGTCATGATAACAGATAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.21282399

Conservation Information
Conserved circRNAs	NA
PMCS	0.21282399

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR5658 ath-miR830-5p 						
					
						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	ath-miR5658 ath-miR830-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT5G52530_circ_g.2

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