Plant Circular RNA Database

Detail information of AT5G60930_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT5G60930_circ_g.4
					
						ID in PlantcircBase
						ath_circ_045088
					
						Alias
						5:24517822-24520582
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 24517822-24520582  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G60930						
					
						Parent gene annotation
						
							P-loop containing nucleoside triphosphate hydrolases superfamily
 protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G60930_circ_g.5 AT5G60930_circ_g.6 AT5G60930_circ_g.7 						
					
						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
						AT5G60930.1:14
AT5G60930.3:14
AT5G60930.2:14

General Information
CircRNA Name	AT5G60930_circ_g.4
ID in PlantcircBase	ath_circ_045088
Alias	5:24517822-24520582
Organism	Arabidpsis thaliana
Position	chr5: 24517822-24520582 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G60930
Parent gene annotation	P-loop containing nucleoside triphosphate hydrolases superfamily protein
Parent gene strand	-
Alternative splicing	AT5G60930_circ_g.5 AT5G60930_circ_g.6 AT5G60930_circ_g.7
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	AT5G60930.1:14 AT5G60930.3:14 AT5G60930.2:14

			
						 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  
						
							AGATGGGTGAAAACAGTTCTGTCTAATACTTGGATCATAAATGAAATGTTTGAGAAACCATACC
AATCATCACAGTTTTGCTATTGCCACCAAGAGAATCctgagttccagggccattagcaccacct
gcatatataataggatacacagttagtagacatataaacaaaggtggtcatactaaataatgtt
atacgaaa

									
								

					

						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
						
							CTGAGTTCCAGGGCCATTAGCACCACCTGCATATATAATAGGATACACAGTTAGTAGACATATA
AACAAAGGTGGTCATACTAAATAATGTTATACGAAATATCCTCACTCAATGTCTCGCGTGAAGA
AGCCTTTCGATTATCTAAAAGCTCTTTGAGTCTTTTTGTCACCTGAGATGCCTCTTCTGTCTTT
CTTTGCAAAACCTAATAAAACAAACTTTGAGAAGCCATGATAATAGAAATGATCGTTACCAATG
GGCTGAAAGTTTATAAAAATGTGCTCACCAGCTTCTGTTTTTGATTCAGAGCCATGAGTTTGTG
CATCTCATACTCATTTCTCCTTCCCTCTTTTTTGAGCTGGTCAAATTTAAAATACGATGTAATG
AATGGTTCAATACGAGATAGATTTCTGAAAACTAAATCCAAATGTCTTAAGAATTAGTTTGAAG
TTTGAGACCTTCAAGTCAAATGTATATACAAATACTGGTTATATACTACAGGTGACTAATGACA
GAAAATGACACTTGTCTAAGTAGTTCAGAAGTGGAGCAAGAGATAGCATAATAATCAATCAATA
AATTCAAGTAAGCTTAAGAAGAATCTTAATTGGCTACAAACTGAAAAGTCAAATATACCTGCAT
AACTTCCTTCTCTCTTGAAGCCTTCCAAGCCCTAAACTGCTCTGACTCCTGCTTAATCTTTTGC
TGTAATTGCACCTGAAAAGTAGATAAAATCAGATTAGCATAGGTAAGACATATATGTAGAGAGT
CTCTAATAGAGATTACTGCAAAAAAAATAAAACACCTTCTGAGACTTAATTCTGTGTATTTCAT
CCTGCAATTTTATTGCGGCATCGTCACTTTTCTGCTTTTGTCTCATAAGCTGAGCCTGTGCATC
TTGTTTCTTCTTCAGAACAGAAACCTAAAAAGAAACAAAATACAATAAATTAGGAAAATGATAT
GTGAAAGACGAGTATAACTAAGAAATAAAACGGGAGTTACCTGTGTTTCAAGCGTGTTCAGTTT
CTGAACATATTCTTCCTTCAGTTTCTGGGCACCATCTCCTGGTCCAGATGGTATGCTAGCAAGA
TTATGTCTCAAACCTTCGATTTCTCTCTGCATGCAATTTGATTTAGTCAAATATAGGCCCATAG
TTCCACTCAAATACAGTATAAACAACAGAATACTGACCTGTAGTGCTCTTTTTTCCTGTTCTAG
GTCATAAACTTTTTTCTCATAGTGTTGTTTGAGAACAGATGTACCACCACTTGAAAAGCGCTTC
ATTTCAGCCTTCATGAAAAATTGAAGTTATAGACATACTATCTTAAGGAAATAGATGAAAGACT
ATAAAGAAGAGCACTCTAAACTTGAGAATAGTACCTCCTTTTCTTCAAGTCTCTTATCCAATTC
CTTTAGCTCCATATCCAACTTTTCTTGAAGTGAGCAATGTTCAATCTCTTTTTCTTGAAATTCA
AGTTCATCTGCATACAAGGTTAAGCTACTCAAACAGAGTTCTTATTGAGAAAATTCTCTCATAT
ATTAAATCAGGGAAAAAAAATTCAGCCTAACAATCTGCAAGTAGTAGACAAACAAGTTGTGTTT
TGTTAGCATCTAAATATTTAAGTGTTCCAGCTTCTTTCTGCAAGGCAAGCAAAAACAAATGCTA
AAACAACAGTTAAGGTACCAACCAGTGACATCCATCACTTTGTCTTCACAATCTGACGACTCAT
TGGATGAGGGAAACAAGACATTGTTCGAACGAGGCCCAACGTCATAGGAATCATCCGAATATTG
GTGGTTACTGGTTTTCTTCAAGTTTTTGATATGCAACAGTTCTCCTTCTAGCTCTTGAATTTTC
GAGACATACTTGTTCACCAAACCAACATCCTGGAAAATTAGACATTTCAGCGAAAAAATACACT
CGCTCATAAACTTCAACTAAGGAATCATAAAGGAAATCTCACCTCATTTTGGCAGGATTCAATC
TCATCCAAGGATTTACCATTACGAACAGATTCAATTATCATTATAAGTTTGTCCTTTTCAACCT
AAAATAGATGGAAAATAAGTGTAAAGTGCTAGATGCCATAAAAGTTTGATCCATCAAAAAAGAA
TGAGTAGAAGAAAAACCTGAGCATCATAAGCACGCTTTGAGAAATGCTCAGACGCGACTCTCCG
TTCTTGAAGTTCATTGTGTAGCTCACGATTGCTTGCCTCAAGTAGTGATATCTTATGCTTGAGA
ATCTAACAGGTTTTATAGTAGTTTAAGTATAAGAAAATGTTACTAGAAAAACTGTCACTATTTG
TCTCAGATCAGATTGAATACCTGGAGCTCATCAAAAGCACCACTATCACCCCTATAGAACAAGA
GTTCTGTTTGCAGTTGCTCAATTTGGCTCCGCATTCTTTGCATTTGTGCGGTTGCTGGGTCTCG
ATTGATCTAAGTATTAGAAGAAATGACAAGAATGTTAGGCCACAAATGATATCTATAGTTGAGA
ATTCATAATTAAAAGCAAGAACTAACATATAAGTACCACTGCTTTGTTTTGAATATTGCGAGCA
CGATTTGCGTATTTGAGCGTATTTAAAGTTTCCTCAGCATTTGTATCAGCGGGACTTACACAAG
CTGCAACATTCAGAGATCATAAATTATGTGATCCAATAGATGGGTGAAAACAGTTCTGTCTAAT
ACTTGGATCATAAATGAAATGTTTGAGAAACCATACCAATCATCACAGTTTTGCTATTGCCACC
AAGAGAATC
						
					

			
		

Sequences
Splice junction sequence	AGATGGGTGAAAACAGTTCTGTCTAATACTTGGATCATAAATGAAATGTTTGAGAAACCATACC AATCATCACAGTTTTGCTATTGCCACCAAGAGAATCctgagttccagggccattagcaccacct gcatatataataggatacacagttagtagacatataaacaaaggtggtcatactaaataatgtt atacgaaa
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	CTGAGTTCCAGGGCCATTAGCACCACCTGCATATATAATAGGATACACAGTTAGTAGACATATA AACAAAGGTGGTCATACTAAATAATGTTATACGAAATATCCTCACTCAATGTCTCGCGTGAAGA AGCCTTTCGATTATCTAAAAGCTCTTTGAGTCTTTTTGTCACCTGAGATGCCTCTTCTGTCTTT CTTTGCAAAACCTAATAAAACAAACTTTGAGAAGCCATGATAATAGAAATGATCGTTACCAATG GGCTGAAAGTTTATAAAAATGTGCTCACCAGCTTCTGTTTTTGATTCAGAGCCATGAGTTTGTG CATCTCATACTCATTTCTCCTTCCCTCTTTTTTGAGCTGGTCAAATTTAAAATACGATGTAATG AATGGTTCAATACGAGATAGATTTCTGAAAACTAAATCCAAATGTCTTAAGAATTAGTTTGAAG TTTGAGACCTTCAAGTCAAATGTATATACAAATACTGGTTATATACTACAGGTGACTAATGACA GAAAATGACACTTGTCTAAGTAGTTCAGAAGTGGAGCAAGAGATAGCATAATAATCAATCAATA AATTCAAGTAAGCTTAAGAAGAATCTTAATTGGCTACAAACTGAAAAGTCAAATATACCTGCAT AACTTCCTTCTCTCTTGAAGCCTTCCAAGCCCTAAACTGCTCTGACTCCTGCTTAATCTTTTGC TGTAATTGCACCTGAAAAGTAGATAAAATCAGATTAGCATAGGTAAGACATATATGTAGAGAGT CTCTAATAGAGATTACTGCAAAAAAAATAAAACACCTTCTGAGACTTAATTCTGTGTATTTCAT CCTGCAATTTTATTGCGGCATCGTCACTTTTCTGCTTTTGTCTCATAAGCTGAGCCTGTGCATC TTGTTTCTTCTTCAGAACAGAAACCTAAAAAGAAACAAAATACAATAAATTAGGAAAATGATAT GTGAAAGACGAGTATAACTAAGAAATAAAACGGGAGTTACCTGTGTTTCAAGCGTGTTCAGTTT CTGAACATATTCTTCCTTCAGTTTCTGGGCACCATCTCCTGGTCCAGATGGTATGCTAGCAAGA TTATGTCTCAAACCTTCGATTTCTCTCTGCATGCAATTTGATTTAGTCAAATATAGGCCCATAG TTCCACTCAAATACAGTATAAACAACAGAATACTGACCTGTAGTGCTCTTTTTTCCTGTTCTAG GTCATAAACTTTTTTCTCATAGTGTTGTTTGAGAACAGATGTACCACCACTTGAAAAGCGCTTC ATTTCAGCCTTCATGAAAAATTGAAGTTATAGACATACTATCTTAAGGAAATAGATGAAAGACT ATAAAGAAGAGCACTCTAAACTTGAGAATAGTACCTCCTTTTCTTCAAGTCTCTTATCCAATTC CTTTAGCTCCATATCCAACTTTTCTTGAAGTGAGCAATGTTCAATCTCTTTTTCTTGAAATTCA AGTTCATCTGCATACAAGGTTAAGCTACTCAAACAGAGTTCTTATTGAGAAAATTCTCTCATAT ATTAAATCAGGGAAAAAAAATTCAGCCTAACAATCTGCAAGTAGTAGACAAACAAGTTGTGTTT TGTTAGCATCTAAATATTTAAGTGTTCCAGCTTCTTTCTGCAAGGCAAGCAAAAACAAATGCTA AAACAACAGTTAAGGTACCAACCAGTGACATCCATCACTTTGTCTTCACAATCTGACGACTCAT TGGATGAGGGAAACAAGACATTGTTCGAACGAGGCCCAACGTCATAGGAATCATCCGAATATTG GTGGTTACTGGTTTTCTTCAAGTTTTTGATATGCAACAGTTCTCCTTCTAGCTCTTGAATTTTC GAGACATACTTGTTCACCAAACCAACATCCTGGAAAATTAGACATTTCAGCGAAAAAATACACT CGCTCATAAACTTCAACTAAGGAATCATAAAGGAAATCTCACCTCATTTTGGCAGGATTCAATC TCATCCAAGGATTTACCATTACGAACAGATTCAATTATCATTATAAGTTTGTCCTTTTCAACCT AAAATAGATGGAAAATAAGTGTAAAGTGCTAGATGCCATAAAAGTTTGATCCATCAAAAAAGAA TGAGTAGAAGAAAAACCTGAGCATCATAAGCACGCTTTGAGAAATGCTCAGACGCGACTCTCCG TTCTTGAAGTTCATTGTGTAGCTCACGATTGCTTGCCTCAAGTAGTGATATCTTATGCTTGAGA ATCTAACAGGTTTTATAGTAGTTTAAGTATAAGAAAATGTTACTAGAAAAACTGTCACTATTTG TCTCAGATCAGATTGAATACCTGGAGCTCATCAAAAGCACCACTATCACCCCTATAGAACAAGA GTTCTGTTTGCAGTTGCTCAATTTGGCTCCGCATTCTTTGCATTTGTGCGGTTGCTGGGTCTCG ATTGATCTAAGTATTAGAAGAAATGACAAGAATGTTAGGCCACAAATGATATCTATAGTTGAGA ATTCATAATTAAAAGCAAGAACTAACATATAAGTACCACTGCTTTGTTTTGAATATTGCGAGCA CGATTTGCGTATTTGAGCGTATTTAAAGTTTCCTCAGCATTTGTATCAGCGGGACTTACACAAG CTGCAACATTCAGAGATCATAAATTATGTGATCCAATAGATGGGTGAAAACAGTTCTGTCTAAT ACTTGGATCATAAATGAAATGTTTGAGAAACCATACCAATCATCACAGTTTTGCTATTGCCACC AAGAGAATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.130203876

Conservation Information
Conserved circRNAs	NA
PMCS	0.130203876

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR5021 						
					
						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-miR5021
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT5G60930_circ_g.4

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