Plant Circular RNA Database

Detail information of AT5G18580_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G18580_circ_g.2
					
						ID in PlantcircBase
						ath_circ_039017
					
						Alias
						5:6175548-6177693
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 6175548-6177693  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G18580						
					
						Parent gene annotation
						
							Probable serine/threonine-protein phosphatase 2A regulatory subu
nit B'' subunit TON2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G18580_circ_g.1 AT5G18580_circ_g.3 AT5G18580_circ_g.4 AT5G18580_circ_g.5 AT5G18580_circ_g.6 						
					
						Support reads
						1/1
					
						Tissues
						seedling
					
						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
						AT5G18580.1:10

General Information
CircRNA Name	AT5G18580_circ_g.2
ID in PlantcircBase	ath_circ_039017
Alias	5:6175548-6177693
Organism	Arabidpsis thaliana
Position	chr5: 6175548-6177693 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G18580
Parent gene annotation	Probable serine/threonine-protein phosphatase 2A regulatory subu nit B'' subunit TON2
Parent gene strand	+
Alternative splicing	AT5G18580_circ_g.1 AT5G18580_circ_g.3 AT5G18580_circ_g.4 AT5G18580_circ_g.5 AT5G18580_circ_g.6
Support reads	1/1
Tissues	seedling
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	AT5G18580.1:10

			
						 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  
						
							AGAACAAAGATACTCCAGAGGGTTTGACGTATTTATTCCGTTGCCTTGATCTCCAAGGGAGAGG
CTTTCTCACTACTGCTGATATTCACTCTCTTTTCAGagcttgagacgaagagaatcttgctcga
gatttttaaagagaagcaacagaaaagccaagaagcaggcacaataccgagtttctacaagaag
gcatgtcc

									
								

					

						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: 1054
Transcript exons: 6175548-6175639,6175795-6175857,6175935-6176033,6176119-
6176277,6176510-6176581,6176725-6176857,6176952-6177016,
6177128-6177203,6177314-6177415,6177501-6177693
AGCTTGAGACGAAGAGAATCTTGCTCGAGATTTTTAAAGAGAAGCAACAGAAAAGCCAAGAAGC
AGGCACAATACCGAGTTTCTACAAGAAGAAACCAGAAGAAGGATCTATTAGTCAAAGGGTCCAG
AAGCTTGCAAAGTACCGTTTCTTGAAGAAACAATCGGATCTTTTGTTAAACGCTGATGATTTGG
CTGCTATGTGGGTTTGTTTGAGAGAAAATTGTGTGATTGATGATGCCACTGGTGCTGAAAAGAT
GAACTATGAAGACTTCTGTCACATTGCCTCTGTATGCACTGAACAAATCGGTCCCAAATGTCGC
CGGTTTTTTAGCCCATCCAATTTCATGAAATTTGAGAAGGATGAGGCTGGGAGGATTGCCATTT
TACCGTTTTATCTTTATGTGATGCGCACGGTGTCGCTTACACAAGCTAGGATTGATATGAGTGA
GCTTGACGAAGACTCTGATGGTTTCCTTCATTCTGATGAAATGGAGTCCTATATTGGTGGTCTA
ATCCCTAATCTGGCACAACTGAGAGACATGCCTCCGGCCTTTAATCAAATGTATTGCCGCATAG
CTTCACAAAAGTTTTTCTTCTTCTGTGATCCCCATAGGCGAGGAAGAGCCTGCATTAAAAAGAT
ACTGCTCAGTAACTGTCTGCAGGAACTAATGGAATTGCATCAGGAAAGCGAGGAGGAAGTCACA
GACACTGAACAGGCAGAAAATTGGTTCTCTTTGACTTCAGCCCAACGCATATGTGATATGTTCC
TCGCACTTGATAAAGATATGAGTGGATCGCTGTGCAAACAAGAACTTAAAGAATATGCTGATGG
GACCCTAACTGAGATTTTCATTGAAAGAGTGTTCGATGAGCATGTCCGCCGTGGTAAAATCGTG
GCAGGCAATTCCCGGGAAATGGACTTTGACAGTTTCCTCGATTTTGTTCTTGCTTTGGAGAACA
AAGATACTCCAGAGGGTTTGACGTATTTATTCCGTTGCCTTGATCTCCAAGGGAGAGGCTTTCT
CACTACTGCTGATATTCACTCTCTTTTCAG
						
					

						Genomic sequence
						
							AGCTTGAGACGAAGAGAATCTTGCTCGAGATTTTTAAAGAGAAGCAACAGAAAAGCCAAGAAGC
AGGCACAATACCGAGTTTCTACAAGAAGGCATGTCCCTTACTCTGTATAAAATGATTGCCTTTG
CATTTCAAGGCACTACTCGGTTAAAATATTGCATTGTGTTATACACTTCATAGAAGTTGTTTTT
CCTTTTAAGTATTCGTGTTAGGCAATAAAATTTTGTTCCTTTACTCTTGGTTCAGAAACCAGAA
GAAGGATCTATTAGTCAAAGGGTCCAGAAGCTTGCAAAGTACCGTTTCTTGAAGGTATTTCGCC
TGCTCTTAATTATTCAGAAGAAGTTTAATGTTTTTGCTCACTTCGATATGTTGATTAATTCCCA
CAGAAACAATCGGATCTTTTGTTAAACGCTGATGATTTGGCTGCTATGTGGGTTTGTTTGAGAG
AAAATTGTGTGATTGATGATGCCACTGGTGCTGAAAAGGTACGTGCATCTTTTATAGGATTTTT
CTCTGGAGCTGAAACTATGTTAACAATGATGCTGATATTGCGCTGTCTTTTTCATGTAGATGAA
CTATGAAGACTTCTGTCACATTGCCTCTGTATGCACTGAACAAATCGGTCCCAAATGTCGCCGG
TTTTTTAGCCCATCCAATTTCATGAAATTTGAGAAGGATGAGGCTGGGAGGATTGCCATTTTAC
CGTTTTATCTTTATGTGATGCGCACGGTGAGTATCCTTATGTTTTTATAATGTCATGTCTTTGG
GTATCATTTTTGTTCATTGGCTGAATATCATCTGTCGCCATAAGCTAAATATTCTTTGGTACTG
TGTTTGAGTGACACCAGCTTTGCTAGTTTTGGATGTTTGTTTTTCAAGTTTTTTTAATTTGGCG
TGTCTTTTACTTAAACAACTATAGTTAATACTTGTTTTGATTAATCATATGTTCAACACTATTC
AGGTGTCGCTTACACAAGCTAGGATTGATATGAGTGAGCTTGACGAAGACTCTGATGGTTTCCT
TCATTCTGATGTAAGTACTCAAGTGGCTCTAAAGCTTTAACTTTAGAATTGGCTCAAGATTCTT
TAGGTAGTCGTCCTACCTGCAAATGTCAAATGGTGTTGACTTTTATGTCAAGTTCCTTACAGTT
AGTCTACTTGCTGTTGTTATTATAGGAAATGGAGTCCTATATTGGTGGTCTAATCCCTAATCTG
GCACAACTGAGAGACATGCCTCCGGCCTTTAATCAAATGTATTGCCGCATAGCTTCACAAAAGT
TTTTCTTCTTCTGTGATCCCCATAGGCGAGGTAAGTGAAAGAAAATATTATTATTATTAGGCAA
TTAGAAATTTCTTTGACCCAGTATTCAATCGCTCGTAAATGTGATATTTTTTGCGTACAGGAAG
AGCCTGCATTAAAAAGATACTGCTCAGTAACTGTCTGCAGGAACTAATGGAATTGCATCAGGTA
AGTTTAGTTGAAGGATGTATGACATACAGCTTCGTCACCGTATAACTTTCCACTTTCATAAGCT
ACTTGCTTGTGTTTTCTGATTGTTCCTTGGTTACTCAACGTTAGGAAAGCGAGGAGGAAGTCAC
AGACACTGAACAGGCAGAAAATTGGTTCTCTTTGACTTCAGCCCAACGCATATGTGGTGGGTGT
GCTATTTTGTCTTAATAGCTGCAGAGAACTGGAAACAACTCTCGTTATGTCATATTAAGAACTA
AAATGGAGATTGATCTAGAGTTTCTCTTTCTTCTGTAGATATGTTCCTCGCACTTGATAAAGAT
ATGAGTGGATCGCTGTGCAAACAAGAACTTAAAGAATATGCTGATGGGACCCTAACTGAGATTT
TCATTGAAAGAGGTAAATTTAAGCCCTTTTGGTGATTGTAGGCTCGTGGTACTGATCGAGACAC
GCTTAGTATACTAATTCCCCTTTGTTTTTTTAGTGTTCGATGAGCATGTCCGCCGTGGTAAAAT
CGTGGCAGGCAATTCCCGGGAAATGGACTTTGACAGTTTCCTCGATTTTGTTCTTGCTTTGGAG
AACAAAGATACTCCAGAGGGTTTGACGTATTTATTCCGTTGCCTTGATCTCCAAGGGAGAGGCT
TTCTCACTACTGCTGATATTCACTCTCTTTTCAG
						
					

			
		

Sequences
Splice junction sequence	AGAACAAAGATACTCCAGAGGGTTTGACGTATTTATTCCGTTGCCTTGATCTCCAAGGGAGAGG CTTTCTCACTACTGCTGATATTCACTCTCTTTTCAGagcttgagacgaagagaatcttgctcga gatttttaaagagaagcaacagaaaagccaagaagcaggcacaataccgagtttctacaagaag gcatgtcc
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: 1054 Transcript exons: 6175548-6175639,6175795-6175857,6175935-6176033,6176119- 6176277,6176510-6176581,6176725-6176857,6176952-6177016, 6177128-6177203,6177314-6177415,6177501-6177693 AGCTTGAGACGAAGAGAATCTTGCTCGAGATTTTTAAAGAGAAGCAACAGAAAAGCCAAGAAGC AGGCACAATACCGAGTTTCTACAAGAAGAAACCAGAAGAAGGATCTATTAGTCAAAGGGTCCAG AAGCTTGCAAAGTACCGTTTCTTGAAGAAACAATCGGATCTTTTGTTAAACGCTGATGATTTGG CTGCTATGTGGGTTTGTTTGAGAGAAAATTGTGTGATTGATGATGCCACTGGTGCTGAAAAGAT GAACTATGAAGACTTCTGTCACATTGCCTCTGTATGCACTGAACAAATCGGTCCCAAATGTCGC CGGTTTTTTAGCCCATCCAATTTCATGAAATTTGAGAAGGATGAGGCTGGGAGGATTGCCATTT TACCGTTTTATCTTTATGTGATGCGCACGGTGTCGCTTACACAAGCTAGGATTGATATGAGTGA GCTTGACGAAGACTCTGATGGTTTCCTTCATTCTGATGAAATGGAGTCCTATATTGGTGGTCTA ATCCCTAATCTGGCACAACTGAGAGACATGCCTCCGGCCTTTAATCAAATGTATTGCCGCATAG CTTCACAAAAGTTTTTCTTCTTCTGTGATCCCCATAGGCGAGGAAGAGCCTGCATTAAAAAGAT ACTGCTCAGTAACTGTCTGCAGGAACTAATGGAATTGCATCAGGAAAGCGAGGAGGAAGTCACA GACACTGAACAGGCAGAAAATTGGTTCTCTTTGACTTCAGCCCAACGCATATGTGATATGTTCC TCGCACTTGATAAAGATATGAGTGGATCGCTGTGCAAACAAGAACTTAAAGAATATGCTGATGG GACCCTAACTGAGATTTTCATTGAAAGAGTGTTCGATGAGCATGTCCGCCGTGGTAAAATCGTG GCAGGCAATTCCCGGGAAATGGACTTTGACAGTTTCCTCGATTTTGTTCTTGCTTTGGAGAACA AAGATACTCCAGAGGGTTTGACGTATTTATTCCGTTGCCTTGATCTCCAAGGGAGAGGCTTTCT CACTACTGCTGATATTCACTCTCTTTTCAG
Genomic sequence	AGCTTGAGACGAAGAGAATCTTGCTCGAGATTTTTAAAGAGAAGCAACAGAAAAGCCAAGAAGC AGGCACAATACCGAGTTTCTACAAGAAGGCATGTCCCTTACTCTGTATAAAATGATTGCCTTTG CATTTCAAGGCACTACTCGGTTAAAATATTGCATTGTGTTATACACTTCATAGAAGTTGTTTTT CCTTTTAAGTATTCGTGTTAGGCAATAAAATTTTGTTCCTTTACTCTTGGTTCAGAAACCAGAA GAAGGATCTATTAGTCAAAGGGTCCAGAAGCTTGCAAAGTACCGTTTCTTGAAGGTATTTCGCC TGCTCTTAATTATTCAGAAGAAGTTTAATGTTTTTGCTCACTTCGATATGTTGATTAATTCCCA CAGAAACAATCGGATCTTTTGTTAAACGCTGATGATTTGGCTGCTATGTGGGTTTGTTTGAGAG AAAATTGTGTGATTGATGATGCCACTGGTGCTGAAAAGGTACGTGCATCTTTTATAGGATTTTT CTCTGGAGCTGAAACTATGTTAACAATGATGCTGATATTGCGCTGTCTTTTTCATGTAGATGAA CTATGAAGACTTCTGTCACATTGCCTCTGTATGCACTGAACAAATCGGTCCCAAATGTCGCCGG TTTTTTAGCCCATCCAATTTCATGAAATTTGAGAAGGATGAGGCTGGGAGGATTGCCATTTTAC CGTTTTATCTTTATGTGATGCGCACGGTGAGTATCCTTATGTTTTTATAATGTCATGTCTTTGG GTATCATTTTTGTTCATTGGCTGAATATCATCTGTCGCCATAAGCTAAATATTCTTTGGTACTG TGTTTGAGTGACACCAGCTTTGCTAGTTTTGGATGTTTGTTTTTCAAGTTTTTTTAATTTGGCG TGTCTTTTACTTAAACAACTATAGTTAATACTTGTTTTGATTAATCATATGTTCAACACTATTC AGGTGTCGCTTACACAAGCTAGGATTGATATGAGTGAGCTTGACGAAGACTCTGATGGTTTCCT TCATTCTGATGTAAGTACTCAAGTGGCTCTAAAGCTTTAACTTTAGAATTGGCTCAAGATTCTT TAGGTAGTCGTCCTACCTGCAAATGTCAAATGGTGTTGACTTTTATGTCAAGTTCCTTACAGTT AGTCTACTTGCTGTTGTTATTATAGGAAATGGAGTCCTATATTGGTGGTCTAATCCCTAATCTG GCACAACTGAGAGACATGCCTCCGGCCTTTAATCAAATGTATTGCCGCATAGCTTCACAAAAGT TTTTCTTCTTCTGTGATCCCCATAGGCGAGGTAAGTGAAAGAAAATATTATTATTATTAGGCAA TTAGAAATTTCTTTGACCCAGTATTCAATCGCTCGTAAATGTGATATTTTTTGCGTACAGGAAG AGCCTGCATTAAAAAGATACTGCTCAGTAACTGTCTGCAGGAACTAATGGAATTGCATCAGGTA AGTTTAGTTGAAGGATGTATGACATACAGCTTCGTCACCGTATAACTTTCCACTTTCATAAGCT ACTTGCTTGTGTTTTCTGATTGTTCCTTGGTTACTCAACGTTAGGAAAGCGAGGAGGAAGTCAC AGACACTGAACAGGCAGAAAATTGGTTCTCTTTGACTTCAGCCCAACGCATATGTGGTGGGTGT GCTATTTTGTCTTAATAGCTGCAGAGAACTGGAAACAACTCTCGTTATGTCATATTAAGAACTA AAATGGAGATTGATCTAGAGTTTCTCTTTCTTCTGTAGATATGTTCCTCGCACTTGATAAAGAT ATGAGTGGATCGCTGTGCAAACAAGAACTTAAAGAATATGCTGATGGGACCCTAACTGAGATTT TCATTGAAAGAGGTAAATTTAAGCCCTTTTGGTGATTGTAGGCTCGTGGTACTGATCGAGACAC GCTTAGTATACTAATTCCCCTTTGTTTTTTTAGTGTTCGATGAGCATGTCCGCCGTGGTAAAAT CGTGGCAGGCAATTCCCGGGAAATGGACTTTGACAGTTTCCTCGATTTTGTTCTTGCTTTGGAG AACAAAGATACTCCAGAGGGTTTGACGTATTTATTCCGTTGCCTTGATCTCCAAGGGAGAGGCT TTCTCACTACTGCTGATATTCACTCTCTTTTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.245773568

Conservation Information
Conserved circRNAs	NA
PMCS	0.245773568

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

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT5G18580_circ_g.2

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