Plant Circular RNA Database

Detail information of AT5G10080_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G10080_circ_g.2
					
						ID in PlantcircBase
						ath_circ_037378
					
						Alias
						5:3150823-3153270
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 3150823-3153270  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G10080						
					
						Parent gene annotation
						
							Aspartic proteinase-like protein 1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G10080_circ_g.1 AT5G10080_circ_g.3 						
					
						Support reads
						1/1/2
					
						Tissues
						seedling;root
					
						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
						AT5G10080.1:9

General Information
CircRNA Name	AT5G10080_circ_g.2
ID in PlantcircBase	ath_circ_037378
Alias	5:3150823-3153270
Organism	Arabidpsis thaliana
Position	chr5: 3150823-3153270 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G10080
Parent gene annotation	Aspartic proteinase-like protein 1
Parent gene strand	+
Alternative splicing	AT5G10080_circ_g.1 AT5G10080_circ_g.3
Support reads	1/1/2
Tissues	seedling;root
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	AT5G10080.1:9

			
						 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  
						
							CCGCCTCAAGCTTCACCGGGAAGCACTTCATCGCCAAATCCATTACCAACAGACGAGCAACAAA
GCAGAGGAGGCCATGCAGTTTCACCAGCAATTGCAGcaaaaccctagctcgaaaaaatggtgtc
acgatctgcttttttactcttctgtgtgctatttctagctacagaggagactctagcttcctta
ttctcatc

									
								

					

						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
						
							CAAAACCCTAGCTCGAAAAAATGGTGTCACGATCTGCTTTTTTACTCTTCTGTGTGCTATTTCT
AGCTACAGAGGAGACTCTAGCTTCCTTATTCTCATCAAGGCTGATTCATCGCTTCTCCGACGAA
GGAAGAGCGTCGATTAAGACTCCGAGTTCGTCGGATTCGTTGCCGAATAAACAGAGCTTAGAGT
ATTATCGGTTACTGGCTGAAAGTGATTTCCGAAGACAGAGAATGAATCTTGGTGCTAAGGTTCA
GTCTCTTGTTCCATCTGAAGGAAGCAAAACTATATCTTCTGGAAATGACTTTGGATGGTACATT
GTTTCTTTCATTTTCACTCTAAAATTAGAAAGAAAAAAAATTCCTCTTTTTTTCTTCAAGTTTC
TAAATTTTGTACCTTTAGATTCGATTCCGAAGAAAAGTCGTGTTTTGACTAACTCAATCTGCTA
CATAGTCTTTTCCTTTGGGTTTACTTCTTTTTTGGATAATTATGCTAAGTTCTTGAATTTTGTA
GATTAGTAGTGATTTGTTGCCTTATATGAGTTTTGTGTTTGATGTTTTACTCAGGCTACACTAT
ACATGGATCGACATAGGGACTCCAAGTGTATCGTTTCTTGTGGCTTTAGATACTGGAAGTAATC
TACTTTGGATTCCTTGTAACTGTGTGCAATGTGCTCCTTTAACATCCACTTATTATAGCAGCCT
GGTATGTGAAATATAATGATAAGCATATGTTACTTAAATATAGAGTTAAGATAGTGAAATGATG
ACCGGTTAGCGCTTATTTCCAGTTGATTGATTGGCAGATGCTTCCTCGTGTTTGGGGGCACATG
TTCTGCAGGCTACTAAAGATCTGAACGAGTATAATCCATCAAGTTCAAGCACCAGCAAAGTCTT
TCTGTGCAGCCATAAGCTGTGTGATTCTGCTTCAGATTGTGAGAGCCCAAAGGAGCAATGCCCT
TATACTGTTAACTACCTTAGTGGAAACACCTCGAGCTCAGGATTACTTGTTGAAGACATCTTGC
ATCTTACATATAATACTAACAATAGACTGATGAATGGTTCCTCCTCTGTTAAGGCTCGAGTTGT
TATAGGGTGCGTTTTGCGTTTACTATTGTATGCGAGATGTTTGTTTGTGTTTTGAGCCGAGTAT
TGATAAGTGTGTCTTTACATTGCAGATGTGGTAAGAAGCAAAGTGGGGACTACTTGGATGGGGT
TGCCCCTGATGGTTTGATGGGTTTAGGACCTGCAGAAATCTCGGTTCCAAGTTTTCTCTCTAAA
GCGGGACTCATGAGAAACTCGTTCTCGTTGTGCTTTGATGAGGAAGATTCAGGGAGAATTTACT
TCGGTGACATGGGACCGTCAATACAACAATCAACCCCATTCCTCCAGCTTGACAACAACAAATA
GTAATGAACGATCTCTATACTTATGGTTTTTATTTTTTAACCATTTTATGACAGCTTTATCAAT
TAGTAACTTATGTTGATTTTTGTTTACAGTTCAGGCTACATTGTGGGTGTGGAGGCTTGTTGTA
TTGGCAACTCGTGTCTGAAGCAGACGAGCTTCACAACTTTTATTGACAGTGGACAATCATTTAC
TTATCTACCGGAAGAAATATACAGAAAAGTTGCACTTGAGATTGACAGACATATAAACGCTACG
AGTAAGAACTTCGAAGGTGTTTCATGGGAGTATTGCTATGAATCTAGGTACACTAATTCTATAA
AACAGATATATAGATAAAGAAGCTCCTTACTTGGTTTATTATACAGATAATTTTCTCTTAATGT
TTTTTGGATTCTCCTTTTTGTTTTGATGGAGACAGTGCTGAGCCAAAGGTGCCAGCGATCAAAC
TCAAGTTTTCACACAATAACACATTCGTGATTCACAAACCTTTGTTTGTATTCCAACAAAGTCA
GGTTAGACCATATAAACACATTTTATGATTCCTGCTAGAAAGAATTAAAACAAGATTTAGATTT
TGATGTATTACATCGTCATAAACCACTTTTCAGGGGCTTGTTCAATTTTGCTTGCCTATCAGTC
CTAGTGGACAAGAAGGAATAGGAAGCATAGGACGTATGTATTAGTCTTATACATATTCTCTCTT
ACATCCTCAGACCAATATCCTCCATTAAGTACACTTTATATTTTTCTTTTGCAGAGAACTACAT
GAGAGGGTATCGAATGGTTTTCGATAGAGAGAACATGAAGCTAGGCTGGTCACCCTCTAAATGT
AAGATTTTGATTTTAACAGAACATTAGTACTAAGATCTCTTGTAGGATCCAAAGCTAAATCGAA
TGATACCGGGGTTGTTTTATGCAGGTCAAGAAGATAAGATAGAGCCGCCTCAAGCTTCACCGGG
AAGCACTTCATCGCCAAATCCATTACCAACAGACGAGCAACAAAGCAGAGGAGGCCATGCAGTT
TCACCAGCAATTGCAG
						
					

			
		

Sequences
Splice junction sequence	CCGCCTCAAGCTTCACCGGGAAGCACTTCATCGCCAAATCCATTACCAACAGACGAGCAACAAA GCAGAGGAGGCCATGCAGTTTCACCAGCAATTGCAGcaaaaccctagctcgaaaaaatggtgtc acgatctgcttttttactcttctgtgtgctatttctagctacagaggagactctagcttcctta ttctcatc
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	CAAAACCCTAGCTCGAAAAAATGGTGTCACGATCTGCTTTTTTACTCTTCTGTGTGCTATTTCT AGCTACAGAGGAGACTCTAGCTTCCTTATTCTCATCAAGGCTGATTCATCGCTTCTCCGACGAA GGAAGAGCGTCGATTAAGACTCCGAGTTCGTCGGATTCGTTGCCGAATAAACAGAGCTTAGAGT ATTATCGGTTACTGGCTGAAAGTGATTTCCGAAGACAGAGAATGAATCTTGGTGCTAAGGTTCA GTCTCTTGTTCCATCTGAAGGAAGCAAAACTATATCTTCTGGAAATGACTTTGGATGGTACATT GTTTCTTTCATTTTCACTCTAAAATTAGAAAGAAAAAAAATTCCTCTTTTTTTCTTCAAGTTTC TAAATTTTGTACCTTTAGATTCGATTCCGAAGAAAAGTCGTGTTTTGACTAACTCAATCTGCTA CATAGTCTTTTCCTTTGGGTTTACTTCTTTTTTGGATAATTATGCTAAGTTCTTGAATTTTGTA GATTAGTAGTGATTTGTTGCCTTATATGAGTTTTGTGTTTGATGTTTTACTCAGGCTACACTAT ACATGGATCGACATAGGGACTCCAAGTGTATCGTTTCTTGTGGCTTTAGATACTGGAAGTAATC TACTTTGGATTCCTTGTAACTGTGTGCAATGTGCTCCTTTAACATCCACTTATTATAGCAGCCT GGTATGTGAAATATAATGATAAGCATATGTTACTTAAATATAGAGTTAAGATAGTGAAATGATG ACCGGTTAGCGCTTATTTCCAGTTGATTGATTGGCAGATGCTTCCTCGTGTTTGGGGGCACATG TTCTGCAGGCTACTAAAGATCTGAACGAGTATAATCCATCAAGTTCAAGCACCAGCAAAGTCTT TCTGTGCAGCCATAAGCTGTGTGATTCTGCTTCAGATTGTGAGAGCCCAAAGGAGCAATGCCCT TATACTGTTAACTACCTTAGTGGAAACACCTCGAGCTCAGGATTACTTGTTGAAGACATCTTGC ATCTTACATATAATACTAACAATAGACTGATGAATGGTTCCTCCTCTGTTAAGGCTCGAGTTGT TATAGGGTGCGTTTTGCGTTTACTATTGTATGCGAGATGTTTGTTTGTGTTTTGAGCCGAGTAT TGATAAGTGTGTCTTTACATTGCAGATGTGGTAAGAAGCAAAGTGGGGACTACTTGGATGGGGT TGCCCCTGATGGTTTGATGGGTTTAGGACCTGCAGAAATCTCGGTTCCAAGTTTTCTCTCTAAA GCGGGACTCATGAGAAACTCGTTCTCGTTGTGCTTTGATGAGGAAGATTCAGGGAGAATTTACT TCGGTGACATGGGACCGTCAATACAACAATCAACCCCATTCCTCCAGCTTGACAACAACAAATA GTAATGAACGATCTCTATACTTATGGTTTTTATTTTTTAACCATTTTATGACAGCTTTATCAAT TAGTAACTTATGTTGATTTTTGTTTACAGTTCAGGCTACATTGTGGGTGTGGAGGCTTGTTGTA TTGGCAACTCGTGTCTGAAGCAGACGAGCTTCACAACTTTTATTGACAGTGGACAATCATTTAC TTATCTACCGGAAGAAATATACAGAAAAGTTGCACTTGAGATTGACAGACATATAAACGCTACG AGTAAGAACTTCGAAGGTGTTTCATGGGAGTATTGCTATGAATCTAGGTACACTAATTCTATAA AACAGATATATAGATAAAGAAGCTCCTTACTTGGTTTATTATACAGATAATTTTCTCTTAATGT TTTTTGGATTCTCCTTTTTGTTTTGATGGAGACAGTGCTGAGCCAAAGGTGCCAGCGATCAAAC TCAAGTTTTCACACAATAACACATTCGTGATTCACAAACCTTTGTTTGTATTCCAACAAAGTCA GGTTAGACCATATAAACACATTTTATGATTCCTGCTAGAAAGAATTAAAACAAGATTTAGATTT TGATGTATTACATCGTCATAAACCACTTTTCAGGGGCTTGTTCAATTTTGCTTGCCTATCAGTC CTAGTGGACAAGAAGGAATAGGAAGCATAGGACGTATGTATTAGTCTTATACATATTCTCTCTT ACATCCTCAGACCAATATCCTCCATTAAGTACACTTTATATTTTTCTTTTGCAGAGAACTACAT GAGAGGGTATCGAATGGTTTTCGATAGAGAGAACATGAAGCTAGGCTGGTCACCCTCTAAATGT AAGATTTTGATTTTAACAGAACATTAGTACTAAGATCTCTTGTAGGATCCAAAGCTAAATCGAA TGATACCGGGGTTGTTTTATGCAGGTCAAGAAGATAAGATAGAGCCGCCTCAAGCTTCACCGGG AAGCACTTCATCGCCAAATCCATTACCAACAGACGAGCAACAAAGCAGAGGAGGCCATGCAGTT TCACCAGCAATTGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.410970155

Conservation Information
Conserved circRNAs	NA
PMCS	0.410970155

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR3933 						
					
						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-miR3933
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT5G10080_circ_g.2

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