Plant Circular RNA Database

Detail information of AT5G13030_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G13030_circ_g.2
					
						ID in PlantcircBase
						ath_circ_037897
					
						Alias
						5:4133879-4135684
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 4133879-4135684  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G13030						
					
						Parent gene annotation
						
							Putative uncharacterized protein At5g13030
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G13030_circ_g.1 AT5G13030_circ_g.3 AT5G13030_circ_g.4 AT5G13030_circ_g.5 AT5G13030_circ_g.6 						
					
						Support reads
						2
					
						Tissues
						flower
					
						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
						AT5G13030.1:5

General Information
CircRNA Name	AT5G13030_circ_g.2
ID in PlantcircBase	ath_circ_037897
Alias	5:4133879-4135684
Organism	Arabidpsis thaliana
Position	chr5: 4133879-4135684 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G13030
Parent gene annotation	Putative uncharacterized protein At5g13030
Parent gene strand	+
Alternative splicing	AT5G13030_circ_g.1 AT5G13030_circ_g.3 AT5G13030_circ_g.4 AT5G13030_circ_g.5 AT5G13030_circ_g.6
Support reads	2
Tissues	flower
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	AT5G13030.1:5

			
						 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  
						
							ATCAGCCTGACATCGGCTTGTGGAATATTGCTCAATTTTCTAAGACTCTGGCGGTTGCTCAACT
GATAAATCAAAAGGAGGCGAATTACGCCATGGAGAGgtattacatgcttgctattcaaaagttt
ccccatcagtagaagtggatgatcctcagcttgtagcatggtctgtctctgttgcagagctatt
agatttgg

									
								

					

						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: 1022
Transcript exons: 4133879-4133988,4134288-4134344,4134434-4134733,4134984-
4135231,4135378-4135684
GTATTACATGCTTGCTATTCAAAAGTTTCCCCATCAGTAGAAGTGGATGATCCTCAGCTTGTAG
CATGGTCTGTCTCTGTTGCAGAGCTATTAGATTTGGATCCTAAAGAATTTGAAAGGCCAGATTT
CCCTCTCATGTTGTCCGGCGCTAAACCTTTACCAGGAGCAATGTCTTATGCTCAATGCTATGGA
GGACACCAGTTTGGCATGTGGGCTGGACAACTAGGGGATGGACGTGCCATTACTCTGGGAGAAG
TTTTGAACTCCAAAGGTGAAAGATGGGAACTTCAGCTTAAAGGTGCGGGTAGAACTCCATATAG
CCGTTTTGCTGATGGCCTTGCAGTGCTCCGTAGTAGCATCAGGGAGTTCCTTTGCAGTGAAACT
ATGCATTGTCTTGGGATCCCTACCACGCGTGCCCTTTGTCTTCTCACCACAGGTCAAAATGTCA
CTCGCGACATGTTTTATGATGGCAATCCGAAGGAAGAACCCGGCGCAATCGTTTGCAGGGTTTC
TCAGTCATTTCTACGCTTTGGGTCATACCAAATACATGCCTCTAGAGGAAAAGAGGATCTTGAT
ATTGTTCGTAAGTTGGCAGACTATGCCATTAAACATCATTTCCCACATATAGAGAGCATGGATA
GAAGCGATAGCCTATCTTTCAAAACCGGTGATGAAGATGATTCGGTTGTGGATCTAACTTCCAA
CAAGTATGCAGCATGGATCGTTGAAATTGCTGAGCGTACAGCTACCTTAGTTGCAAGATGGCAA
GGTGTAGGTTTCACCCATGGTGTGCTCAACACTGACAATATGAGCATTTTGGGTCAAACCATTG
ACTATGGCCCATTTGGTTTCTTGGATGCTTTTGATCCAAGTTACACCCCAAACACGACAGATCT
CCCAGGAAGAAGATACTGTTTTGCAAATCAGCCTGACATCGGCTTGTGGAATATTGCTCAATTT
TCTAAGACTCTGGCGGTTGCTCAACTGATAAATCAAAAGGAGGCGAATTACGCCATGGAGAG
						
					

						Genomic sequence
						
							GTATTACATGCTTGCTATTCAAAAGTTTCCCCATCAGTAGAAGTGGATGATCCTCAGCTTGTAG
CATGGTCTGTCTCTGTTGCAGAGCTATTAGATTTGGATCCTAAAGAGTGAGTTTGATTCTCTAT
GGTCAGACTAAAGTCTTAAGTGTTTGGTGCAGAAGATAATTGGGTTTTCACGGTCTTAGACAGA
TATAGCAAGTATTCGTTATAATTGATACCGTTGTTTCCAATTCACCTTCATGGTTACATTCTTA
TGTTTCTCAAAAGAAGTTGTTTCATTTCTGTCTTTATAATATTGTGAAACTCAAGTTTTAAGAG
TGTTTTATCTTTATATCTGCTGCCATTTCGAAACTCTTTTTTGTCTTTCTGCTTTTGACTTATG
GCAAAAATTCTTTTTTAACTTTCAGATTTGAAAGGCCAGATTTCCCTCTCATGTTGTCCGGCGC
TAAACCTTTACCAGGAGCGTATGTGTTCCTTACCCAAGTCAAATTTTAGTCTCAACCTTCTTAA
ATCCAAAGTTTCTAATCGCAGTTATTGATACTTTTTTCTACAGAATGTCTTATGCTCAATGCTA
TGGAGGACACCAGTTTGGCATGTGGGCTGGACAACTAGGGGATGGACGTGCCATTACTCTGGGA
GAAGTTTTGAACTCCAAAGGTGAAAGATGGGAACTTCAGCTTAAAGGTGCGGGTAGAACTCCAT
ATAGCCGTTTTGCTGATGGCCTTGCAGTGCTCCGTAGTAGCATCAGGGAGTTCCTTTGCAGTGA
AACTATGCATTGTCTTGGGATCCCTACCACGCGTGCCCTTTGTCTTCTCACCACAGGTCAAAAT
GTCACTCGCGACATGTTTTATGAGTATGTCCAAAACATTCCAAACCTTGTCTAATTTTTTCCTT
TATTATGTTCTTCCTCTGTGTAAAAAGTTCATGTCCCCGCCAAATATAAAGAAAATTAGGTTTC
ATAGGATTAGGAACTGCACATGCGCATGATCTACATGGAAGTTTTTAATCTACTGAACTAAGCC
TCTAGTAGAGAAATTTTTGTCTATAAAATTAGGCTTCTAGGTGGTTGACTACTCCTATTGTTTG
GCATTGTGCGTTTGCAGTGGCAATCCGAAGGAAGAACCCGGCGCAATCGTTTGCAGGGTTTCTC
AGTCATTTCTACGCTTTGGGTCATACCAAATACATGCCTCTAGAGGAAAAGAGGATCTTGATAT
TGTTCGTAAGTTGGCAGACTATGCCATTAAACATCATTTCCCACATATAGAGAGCATGGATAGA
AGCGATAGCCTATCTTTCAAAACCGGTGATGAAGATGATTCGGTTGTGGATCTAACTTCCAACA
AGTATGCAGGTAATTCCCTAATGAAGTATTTGTCAAAATGCTGCATGAAACGCCACTATTTTCA
TTTGTATCACCTATTATACTTTTGTTATTGCCAGTTGTTACATTAATGGCCAATATTCGAACTA
ACTCTTTTGCTTTTTTAATTATATTAGCATGGATCGTTGAAATTGCTGAGCGTACAGCTACCTT
AGTTGCAAGATGGCAAGGTGTAGGTTTCACCCATGGTGTGCTCAACACTGACAATATGAGCATT
TTGGGTCAAACCATTGACTATGGCCCATTTGGTTTCTTGGATGCTTTTGATCCAAGTTACACCC
CAAACACGACAGATCTCCCAGGAAGAAGATACTGTTTTGCAAATCAGCCTGACATCGGCTTGTG
GAATATTGCTCAATTTTCTAAGACTCTGGCGGTTGCTCAACTGATAAATCAAAAGGAGGCGAAT
TACGCCATGGAGAG
						
					

			
		

Sequences
Splice junction sequence	ATCAGCCTGACATCGGCTTGTGGAATATTGCTCAATTTTCTAAGACTCTGGCGGTTGCTCAACT GATAAATCAAAAGGAGGCGAATTACGCCATGGAGAGgtattacatgcttgctattcaaaagttt ccccatcagtagaagtggatgatcctcagcttgtagcatggtctgtctctgttgcagagctatt agatttgg
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: 1022 Transcript exons: 4133879-4133988,4134288-4134344,4134434-4134733,4134984- 4135231,4135378-4135684 GTATTACATGCTTGCTATTCAAAAGTTTCCCCATCAGTAGAAGTGGATGATCCTCAGCTTGTAG CATGGTCTGTCTCTGTTGCAGAGCTATTAGATTTGGATCCTAAAGAATTTGAAAGGCCAGATTT CCCTCTCATGTTGTCCGGCGCTAAACCTTTACCAGGAGCAATGTCTTATGCTCAATGCTATGGA GGACACCAGTTTGGCATGTGGGCTGGACAACTAGGGGATGGACGTGCCATTACTCTGGGAGAAG TTTTGAACTCCAAAGGTGAAAGATGGGAACTTCAGCTTAAAGGTGCGGGTAGAACTCCATATAG CCGTTTTGCTGATGGCCTTGCAGTGCTCCGTAGTAGCATCAGGGAGTTCCTTTGCAGTGAAACT ATGCATTGTCTTGGGATCCCTACCACGCGTGCCCTTTGTCTTCTCACCACAGGTCAAAATGTCA CTCGCGACATGTTTTATGATGGCAATCCGAAGGAAGAACCCGGCGCAATCGTTTGCAGGGTTTC TCAGTCATTTCTACGCTTTGGGTCATACCAAATACATGCCTCTAGAGGAAAAGAGGATCTTGAT ATTGTTCGTAAGTTGGCAGACTATGCCATTAAACATCATTTCCCACATATAGAGAGCATGGATA GAAGCGATAGCCTATCTTTCAAAACCGGTGATGAAGATGATTCGGTTGTGGATCTAACTTCCAA CAAGTATGCAGCATGGATCGTTGAAATTGCTGAGCGTACAGCTACCTTAGTTGCAAGATGGCAA GGTGTAGGTTTCACCCATGGTGTGCTCAACACTGACAATATGAGCATTTTGGGTCAAACCATTG ACTATGGCCCATTTGGTTTCTTGGATGCTTTTGATCCAAGTTACACCCCAAACACGACAGATCT CCCAGGAAGAAGATACTGTTTTGCAAATCAGCCTGACATCGGCTTGTGGAATATTGCTCAATTT TCTAAGACTCTGGCGGTTGCTCAACTGATAAATCAAAAGGAGGCGAATTACGCCATGGAGAG
Genomic sequence	GTATTACATGCTTGCTATTCAAAAGTTTCCCCATCAGTAGAAGTGGATGATCCTCAGCTTGTAG CATGGTCTGTCTCTGTTGCAGAGCTATTAGATTTGGATCCTAAAGAGTGAGTTTGATTCTCTAT GGTCAGACTAAAGTCTTAAGTGTTTGGTGCAGAAGATAATTGGGTTTTCACGGTCTTAGACAGA TATAGCAAGTATTCGTTATAATTGATACCGTTGTTTCCAATTCACCTTCATGGTTACATTCTTA TGTTTCTCAAAAGAAGTTGTTTCATTTCTGTCTTTATAATATTGTGAAACTCAAGTTTTAAGAG TGTTTTATCTTTATATCTGCTGCCATTTCGAAACTCTTTTTTGTCTTTCTGCTTTTGACTTATG GCAAAAATTCTTTTTTAACTTTCAGATTTGAAAGGCCAGATTTCCCTCTCATGTTGTCCGGCGC TAAACCTTTACCAGGAGCGTATGTGTTCCTTACCCAAGTCAAATTTTAGTCTCAACCTTCTTAA ATCCAAAGTTTCTAATCGCAGTTATTGATACTTTTTTCTACAGAATGTCTTATGCTCAATGCTA TGGAGGACACCAGTTTGGCATGTGGGCTGGACAACTAGGGGATGGACGTGCCATTACTCTGGGA GAAGTTTTGAACTCCAAAGGTGAAAGATGGGAACTTCAGCTTAAAGGTGCGGGTAGAACTCCAT ATAGCCGTTTTGCTGATGGCCTTGCAGTGCTCCGTAGTAGCATCAGGGAGTTCCTTTGCAGTGA AACTATGCATTGTCTTGGGATCCCTACCACGCGTGCCCTTTGTCTTCTCACCACAGGTCAAAAT GTCACTCGCGACATGTTTTATGAGTATGTCCAAAACATTCCAAACCTTGTCTAATTTTTTCCTT TATTATGTTCTTCCTCTGTGTAAAAAGTTCATGTCCCCGCCAAATATAAAGAAAATTAGGTTTC ATAGGATTAGGAACTGCACATGCGCATGATCTACATGGAAGTTTTTAATCTACTGAACTAAGCC TCTAGTAGAGAAATTTTTGTCTATAAAATTAGGCTTCTAGGTGGTTGACTACTCCTATTGTTTG GCATTGTGCGTTTGCAGTGGCAATCCGAAGGAAGAACCCGGCGCAATCGTTTGCAGGGTTTCTC AGTCATTTCTACGCTTTGGGTCATACCAAATACATGCCTCTAGAGGAAAAGAGGATCTTGATAT TGTTCGTAAGTTGGCAGACTATGCCATTAAACATCATTTCCCACATATAGAGAGCATGGATAGA AGCGATAGCCTATCTTTCAAAACCGGTGATGAAGATGATTCGGTTGTGGATCTAACTTCCAACA AGTATGCAGGTAATTCCCTAATGAAGTATTTGTCAAAATGCTGCATGAAACGCCACTATTTTCA TTTGTATCACCTATTATACTTTTGTTATTGCCAGTTGTTACATTAATGGCCAATATTCGAACTA ACTCTTTTGCTTTTTTAATTATATTAGCATGGATCGTTGAAATTGCTGAGCGTACAGCTACCTT AGTTGCAAGATGGCAAGGTGTAGGTTTCACCCATGGTGTGCTCAACACTGACAATATGAGCATT TTGGGTCAAACCATTGACTATGGCCCATTTGGTTTCTTGGATGCTTTTGATCCAAGTTACACCC CAAACACGACAGATCTCCCAGGAAGAAGATACTGTTTTGCAAATCAGCCTGACATCGGCTTGTG GAATATTGCTCAATTTTCTAAGACTCTGGCGGTTGCTCAACTGATAAATCAAAAGGAGGCGAAT TACGCCATGGAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.264910527

Conservation Information
Conserved circRNAs	NA
PMCS	0.264910527

			
						 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 AT5G13030_circ_g.2

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