Plant Circular RNA Database

Detail information of AT5G41260_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G41260_circ_g.1
					
						ID in PlantcircBase
						ath_circ_041846
					
						Alias
						5:16504043-16507142
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 16504043-16507142  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G41260						
					
						Parent gene annotation
						
							Probable serine/threonine-protein kinase At5g41260
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G41260_circ_g.2 AT5G41260_circ_g.3 AT5G41260_circ_g.4 AT5G41260_circ_g.5 AT5G41260_circ_g.6 AT5G41260_circ_g.7 AT5G41260_circ_g.8 AT5G41260_circ_g.9 AT5G41260_circ_g.10 AT5G41260_circ_g.11 						
					
						Support reads
						1/1/1
					
						Tissues
						root;flower
					
						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
						AT5G41260.1:10

General Information
CircRNA Name	AT5G41260_circ_g.1
ID in PlantcircBase	ath_circ_041846
Alias	5:16504043-16507142
Organism	Arabidpsis thaliana
Position	chr5: 16504043-16507142 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G41260
Parent gene annotation	Probable serine/threonine-protein kinase At5g41260
Parent gene strand	+
Alternative splicing	AT5G41260_circ_g.2 AT5G41260_circ_g.3 AT5G41260_circ_g.4 AT5G41260_circ_g.5 AT5G41260_circ_g.6 AT5G41260_circ_g.7 AT5G41260_circ_g.8 AT5G41260_circ_g.9 AT5G41260_circ_g.10 AT5G41260_circ_g.11
Support reads	1/1/1
Tissues	root;flower
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	AT5G41260.1:10

			
						 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  
						
							CCGAAGAACCACTGTCGCAACATTGTATTTAAGATCAAAGCATAACAAGTCTACAGCGATTGTT
CCTTTCCGAAGCCTTGATCATCACATCACATTACTGagtctggaagatcgaatcctgatgttac
aggcttaggtaagttatagccgttgatgagtttatcttgttagggtttttgatgattgagatct
ttatgtta

									
								

					

						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
						
							AGTCTGGAAGATCGAATCCTGATGTTACAGGCTTAGGTAAGTTATAGCCGTTGATGAGTTTATC
TTGTTAGGGTTTTTGATGATTGAGATCTTTATGTTAATTTCTGGGTTTATTCAGATGAGGAAGG
GAGAGGTGAATCGAATGATTTGCCTCAATTTCGTGAGTTCTCTATAGAGACTATAAGGAACGCA
ACTTCAGGATTTGCAGCAGAGAATATAGTTTCAGAGCATGGTGAGAGAGCTCCTAATGTTGTCT
ATAAAGGCAAGCTTGAGAATCAAAGACGTATTGCTGTCAAAAGGTTTAACCGGAAATCTTGGCC
TGATTCTCGTCAATTCTTGGTAACCCATTTATTTCTCTTTTGGTTCCATTGTTGGAGCTTCTGT
TCTGCAAACAACTTTAGAGTCAGATTTGGCTTCTTGGTCTAGTGTGTTAATTAAGTGGTTATGC
TCATTGCGACTGACTTTTTTAGCTAGTACTAATGAGGAACATTGTAGTTTGTAGATTCTGTTCA
AGTGTGTAGTGAAAAAGGTTAACTAGGATGCTGCTCCTATATATTCCTTGTTCATAGGTTGTTA
TCTACTAGATGCAAGCAGATTAGATTCTGGATTACTTATTTTCTTTCATACCTATTTGTGTTTG
CCCAAAGCTAAAGAGTTGCTTTGATTCTGTGAGATTAGGAAGAAGCCAAAGCTGTTGGTCAATT
ACGGAATCATAGGATGGCAAATCTACTTGGGTGTTGTTATGAAGATGAAGAGAGACTACTTATT
GCAGAGTTTATGCCTAATGAAACTTTGGCAAAACATCTTTTCCACTGTAAGTTCCTAACATACT
CGGTCAGTATTTTCTCCTATTTGGTTATGCTGCTAACAAGTACTACTTGATAGTTTGAATGGGT
GCTTAACAAAAAATGATTATTTATGTGTTTAGGGGAGTCACAGCCAATGAAGTGGGCGATGCGA
CTGAGAGTAGCTTTGCATATTGCTCAGGCGCTAGAGTATTGTACCAGCAAAGGACGTGCACTTT
ACCATGACCTAAATGCTTATAGAGTTCTCTTTGATGATGTAAGTTTGATACAGATTTTTTTACC
TTTGGTTTCTGTCAAGTGTATATGAGAATAATTTTATGTTTTTGTTTCTTAGGATGCAAATCCA
AGACTTTCATGCTTTGGTTTGATGAAAAACAGTAGAGATGGAAAGAGTTATAGCACTAACCTGG
CATTCACTCCTCCCGAGTATCTGAGGACAGGTATATTTTGACAAAAGATTGTGCAAATACCTCA
TCGAGTCTTTCACTACCTAAATTGTTTCCTGGGATTATCAAAATTTTCTTGCAATTTATAATTT
TCCAGCTGACAGCTAAGGTTTCATGAAAACATGAATGCTTTATTTGGATTGTGGCTGCTTTTCT
GTTTTTTATTGGGTTATGTGTTTATTTCTACAGGTCGCGTGACACCTGAAAGTGTAATATACAG
CTTTGGAACTCTATTACTTGACCTTCTGAGTGGAAAGCATATACCTCCAAGCCATGTAAGGTTT
CCAAATATCCTTTTGAATTGGTAATATTTCTTAGTGTCTGTTACTGGATTCTGACTAGGAAGCA
TTCTCCCTGAGCTTGAGAGAAGCATGTTATAACTTAATATCCTTGAATAGTATAGTATTTTGCT
AATCCATTACCTTGTATGGTGTATTCTAGGCGTTGGACCTCATACGGGACAGGAACATTCAGAT
GCTGATGGATTCAGGTTTGGAAGGTCAATTTTCGAGTGACGATGGAACTGAATTAATAAGGTTA
GCTTCAAGATGCTTGCAATATGAACCCCGAGAGCGGCCTAACCCAAAATCTTTAGTCTCTGCAA
TGATTCCTCTTCAGAAAGATCTTGAGGTGCTTTTCACTATCATTAACCAGTTCCGTTTTGCTTA
TAATTAGCAAGCTTTTATTATTAATGATGAATATTGAATCGCAGAAGCTTATATCTTTCTGTTA
CCATTTTTACTGCTACCATACGGCAAACAATTGCAGAACTAGAAAGATAAGCTTGATGCTTCTT
TCATTTGAAAAGATTATTCCCGCTGTAACACGAACATGTTAATCATGTAGATTGCTTCTCATCA
ATTGTTGGGCGTACCTAACAGTGCCACAACGACAGCTCTTTCACCTCTTGGCGAAGCATGCCTA
AGATCAGATCTAACTGCCATACATGAGATCATTGAGAAGCTTGGATATAAGGATGACGAGGGTG
CAACCACAGAGGTTCGTTGCGTATTTTCAACCTTGCGTTATACTATTTCGGTCTTCTAATGTTT
GATTCTAATGTCGATATTTGTAATTCCTTGGAAATAATGCATCTGTGGTATCTTTGACTGTGGC
TATCATGTTCCTTATATTCAAATCTAAAACATTTTCACTTGTTTCTGCAACAGCTTTCTTTCCA
GATGTGGACCGACCAGATGCAGGACACATTGGTCTTCAAGAAAAAGGGGGATTCTGCATTCCGA
CATAAAGACTTTGCAAAGGCCATCGAATGCTATTCTCAGGTTAAACTTTTTATGCTGTAGTAAG
TTTTAGTTCCTGACAACAATCTATAGTTCAGTGCTGGTGGTTTTCACGGAAAGGGTAGTGATCA
AGATTTTTCATTAGCCTCTCATATTCACTTTTATGCTTCTGACCGAAGTATTTGTTTGCAGTTC
ATCGAGGTAGGTACAATGGGTTCCCCAACTGTTCATGCAAGACAGAGTCTGTGTTACCTAATGA
ATGATATGCCTAGAGAAGCACTAAACAATGCAATGCAAGCACAAGTCATATCTCCTGCTTGGCA
TATCGCATCGTATCTCCAAGCTGTAGCTTTGTCAGCTCTAGGACAAGAGAACGAAGCACACACT
GCTCTAAAAGACGGTGCAATGCTTGAAAGCAAAAGAAACCCTTTGTGATTATAAGCAACACAAA
GAGGAGAAACTGGAGTACAAGAGAAATATAACCATCCTTTACGCTAACCCATACACCCGAAGAA
CCACTGTCGCAACATTGTATTTAAGATCAAAGCATAACAAGTCTACAGCGATTGTTCCTTTCCG
AAGCCTTGATCATCACATCACATTACTG
						
					

			
		

Sequences
Splice junction sequence	CCGAAGAACCACTGTCGCAACATTGTATTTAAGATCAAAGCATAACAAGTCTACAGCGATTGTT CCTTTCCGAAGCCTTGATCATCACATCACATTACTGagtctggaagatcgaatcctgatgttac aggcttaggtaagttatagccgttgatgagtttatcttgttagggtttttgatgattgagatct ttatgtta
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	AGTCTGGAAGATCGAATCCTGATGTTACAGGCTTAGGTAAGTTATAGCCGTTGATGAGTTTATC TTGTTAGGGTTTTTGATGATTGAGATCTTTATGTTAATTTCTGGGTTTATTCAGATGAGGAAGG GAGAGGTGAATCGAATGATTTGCCTCAATTTCGTGAGTTCTCTATAGAGACTATAAGGAACGCA ACTTCAGGATTTGCAGCAGAGAATATAGTTTCAGAGCATGGTGAGAGAGCTCCTAATGTTGTCT ATAAAGGCAAGCTTGAGAATCAAAGACGTATTGCTGTCAAAAGGTTTAACCGGAAATCTTGGCC TGATTCTCGTCAATTCTTGGTAACCCATTTATTTCTCTTTTGGTTCCATTGTTGGAGCTTCTGT TCTGCAAACAACTTTAGAGTCAGATTTGGCTTCTTGGTCTAGTGTGTTAATTAAGTGGTTATGC TCATTGCGACTGACTTTTTTAGCTAGTACTAATGAGGAACATTGTAGTTTGTAGATTCTGTTCA AGTGTGTAGTGAAAAAGGTTAACTAGGATGCTGCTCCTATATATTCCTTGTTCATAGGTTGTTA TCTACTAGATGCAAGCAGATTAGATTCTGGATTACTTATTTTCTTTCATACCTATTTGTGTTTG CCCAAAGCTAAAGAGTTGCTTTGATTCTGTGAGATTAGGAAGAAGCCAAAGCTGTTGGTCAATT ACGGAATCATAGGATGGCAAATCTACTTGGGTGTTGTTATGAAGATGAAGAGAGACTACTTATT GCAGAGTTTATGCCTAATGAAACTTTGGCAAAACATCTTTTCCACTGTAAGTTCCTAACATACT CGGTCAGTATTTTCTCCTATTTGGTTATGCTGCTAACAAGTACTACTTGATAGTTTGAATGGGT GCTTAACAAAAAATGATTATTTATGTGTTTAGGGGAGTCACAGCCAATGAAGTGGGCGATGCGA CTGAGAGTAGCTTTGCATATTGCTCAGGCGCTAGAGTATTGTACCAGCAAAGGACGTGCACTTT ACCATGACCTAAATGCTTATAGAGTTCTCTTTGATGATGTAAGTTTGATACAGATTTTTTTACC TTTGGTTTCTGTCAAGTGTATATGAGAATAATTTTATGTTTTTGTTTCTTAGGATGCAAATCCA AGACTTTCATGCTTTGGTTTGATGAAAAACAGTAGAGATGGAAAGAGTTATAGCACTAACCTGG CATTCACTCCTCCCGAGTATCTGAGGACAGGTATATTTTGACAAAAGATTGTGCAAATACCTCA TCGAGTCTTTCACTACCTAAATTGTTTCCTGGGATTATCAAAATTTTCTTGCAATTTATAATTT TCCAGCTGACAGCTAAGGTTTCATGAAAACATGAATGCTTTATTTGGATTGTGGCTGCTTTTCT GTTTTTTATTGGGTTATGTGTTTATTTCTACAGGTCGCGTGACACCTGAAAGTGTAATATACAG CTTTGGAACTCTATTACTTGACCTTCTGAGTGGAAAGCATATACCTCCAAGCCATGTAAGGTTT CCAAATATCCTTTTGAATTGGTAATATTTCTTAGTGTCTGTTACTGGATTCTGACTAGGAAGCA TTCTCCCTGAGCTTGAGAGAAGCATGTTATAACTTAATATCCTTGAATAGTATAGTATTTTGCT AATCCATTACCTTGTATGGTGTATTCTAGGCGTTGGACCTCATACGGGACAGGAACATTCAGAT GCTGATGGATTCAGGTTTGGAAGGTCAATTTTCGAGTGACGATGGAACTGAATTAATAAGGTTA GCTTCAAGATGCTTGCAATATGAACCCCGAGAGCGGCCTAACCCAAAATCTTTAGTCTCTGCAA TGATTCCTCTTCAGAAAGATCTTGAGGTGCTTTTCACTATCATTAACCAGTTCCGTTTTGCTTA TAATTAGCAAGCTTTTATTATTAATGATGAATATTGAATCGCAGAAGCTTATATCTTTCTGTTA CCATTTTTACTGCTACCATACGGCAAACAATTGCAGAACTAGAAAGATAAGCTTGATGCTTCTT TCATTTGAAAAGATTATTCCCGCTGTAACACGAACATGTTAATCATGTAGATTGCTTCTCATCA ATTGTTGGGCGTACCTAACAGTGCCACAACGACAGCTCTTTCACCTCTTGGCGAAGCATGCCTA AGATCAGATCTAACTGCCATACATGAGATCATTGAGAAGCTTGGATATAAGGATGACGAGGGTG CAACCACAGAGGTTCGTTGCGTATTTTCAACCTTGCGTTATACTATTTCGGTCTTCTAATGTTT GATTCTAATGTCGATATTTGTAATTCCTTGGAAATAATGCATCTGTGGTATCTTTGACTGTGGC TATCATGTTCCTTATATTCAAATCTAAAACATTTTCACTTGTTTCTGCAACAGCTTTCTTTCCA GATGTGGACCGACCAGATGCAGGACACATTGGTCTTCAAGAAAAAGGGGGATTCTGCATTCCGA CATAAAGACTTTGCAAAGGCCATCGAATGCTATTCTCAGGTTAAACTTTTTATGCTGTAGTAAG TTTTAGTTCCTGACAACAATCTATAGTTCAGTGCTGGTGGTTTTCACGGAAAGGGTAGTGATCA AGATTTTTCATTAGCCTCTCATATTCACTTTTATGCTTCTGACCGAAGTATTTGTTTGCAGTTC ATCGAGGTAGGTACAATGGGTTCCCCAACTGTTCATGCAAGACAGAGTCTGTGTTACCTAATGA ATGATATGCCTAGAGAAGCACTAAACAATGCAATGCAAGCACAAGTCATATCTCCTGCTTGGCA TATCGCATCGTATCTCCAAGCTGTAGCTTTGTCAGCTCTAGGACAAGAGAACGAAGCACACACT GCTCTAAAAGACGGTGCAATGCTTGAAAGCAAAAGAAACCCTTTGTGATTATAAGCAACACAAA GAGGAGAAACTGGAGTACAAGAGAAATATAACCATCCTTTACGCTAACCCATACACCCGAAGAA CCACTGTCGCAACATTGTATTTAAGATCAAAGCATAACAAGTCTACAGCGATTGTTCCTTTCCG AAGCCTTGATCATCACATCACATTACTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.180604458

Conservation Information
Conserved circRNAs	NA
PMCS	0.180604458

			
						 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 AT5G41260_circ_g.1

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