Plant Circular RNA Database

Detail information of AT5G61190_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G61190_circ_g.2
					
						ID in PlantcircBase
						ath_circ_045145
					
						Alias
						5:24616024-24617317
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 24616024-24617317  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G61190						
					
						Parent gene annotation
						
							putative endonuclease or glycosyl hydrolase with C2H2-type zinc 
finger domain
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G61190_circ_g.1 AT5G61190_circ_g.3 AT5G61190_circ_g.4 AT5G61190_circ_g.5 AT5G61190_circ_g.6 AT5G61190_circ_g.7 						
					
						Support reads
						1/1/1/1/1/1/1
					
						Tissues
						seedling;root;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  
						
							GC-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
						AT5G61190.6:3
AT5G61190.8:3
AT5G61190.9:3
AT5G61190.1:3
AT5G61190.5:3
AT5G61190.2:3
AT5G61190.10:3
AT5G61190.3:3
AT5G61190.4:3
AT5G61190.11:3
AT5G61190.7:3

General Information
CircRNA Name	AT5G61190_circ_g.2
ID in PlantcircBase	ath_circ_045145
Alias	5:24616024-24617317
Organism	Arabidpsis thaliana
Position	chr5: 24616024-24617317 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G61190
Parent gene annotation	putative endonuclease or glycosyl hydrolase with C2H2-type zinc finger domain
Parent gene strand	+
Alternative splicing	AT5G61190_circ_g.1 AT5G61190_circ_g.3 AT5G61190_circ_g.4 AT5G61190_circ_g.5 AT5G61190_circ_g.6 AT5G61190_circ_g.7
Support reads	1/1/1/1/1/1/1
Tissues	seedling;root;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	GC-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	AT5G61190.6:3 AT5G61190.8:3 AT5G61190.9:3 AT5G61190.1:3 AT5G61190.5:3 AT5G61190.2:3 AT5G61190.10:3 AT5G61190.3:3 AT5G61190.4:3 AT5G61190.11:3 AT5G61190.7:3

			
						 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  
						
							AGTCGGAGAAAAAGAACAACCAAGTGAAACAGTTGCAGAGCTTCAGTTGCAGTCTCAAAAGGCT
CAAGAGAAGCAGGTTCCCATGGTGAATCAATTAGAGgagtgaaagatgcgagcgataagaagat
tctggtggatatgttgttgtgggcaatagacaaccctgcgccagcgaatttattgctaatctct
ggtgacag

									
								

					

						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: 1091
Transcript exons: 24616024-24616589,24616690-24617079,24617183-24617317
GAGTGAAAGATGCGAGCGATAAGAAGATTCTGGTGGATATGTTGTTGTGGGCAATAGACAACCC
TGCGCCAGCGAATTTATTGCTAATCTCTGGTGACAGAGACTTCTCTAACGCTCTCCATCAGCTA
AGAATGAGGAGGTATAACATTCTTTTGGCTCAACCTCCACGAGCCTCTGTGCCGCTTGTTGCTG
CTGCCAGAGATGTTTGGCTCTGGACAGTCCTAGCCTCGGGAGGTCCTCCTCTTACAAGTGTTGA
ATCCTCTCTACTCTTTAACAATGGGGGTTTTCGTGTCTCTAATAAAGGTGTGTCGAAACTTCCA
GTTTCTGAACAAGCTCAGCCTAGCCAACCAACTGGTTCAACTTCTAACGCTGGAGATACTAAGG
ATCATAAAACCAGAGAAAAGCATGTTCCAAGAGGATCACTTCAAGAAAATAGAAAAAATATGCT
TCAGCATAGCAGTGGAGCCACAGGGGAATCTGCTACTACCTGCAGAATATGCAATGTTGTATGT
GATAGCTTTGAAAAGTTCACCGCTCACCTTTCAGATATAAGGCATATATCTCAGGCTGCCATTG
TAGAAAGTCGCAGAGCTCAGGCCAGCGTTTCAGCCAAACCCATACATCAAGCAGTTCTTGTCGA
ACCTTTGTTGTGCAAAGTTTGCCAGATCAGCTTTACCAACAATGATACATATAAAAATCACACC
TATGGAAAAAAACACCGAAACAATTTGGAACTGCAATCAGGTAAGTCCAAAAACATTTTGGTGG
GACCAGCTGAGCCTTCCAAAGAGGTTCTAGAGAAACATAATATGAATAAGAAGGTGATGATTGA
GAGTAGAGCTCAGGCAAACGCTGAATTCGTTTGTCTTATGTGCAATGTGGTGTGCCAGAGTCAG
ATTGTCTTTAATTCTCATCTGCGCGGTAAGAAGCATGCCAACATGCTGAGTCAATCAGAGGCAC
TCATTGTTTCTACAAAGCTTCAAGAGAAAGGAGTCGGAGAAAAAGAACAACCAAGTGAAACAGT
TGCAGAGCTTCAGTTGCAGTCTCAAAAGGCTCAAGAGAAGCAGGTTCCCATGGTGAATCAATTA
GAG
						
					

						Genomic sequence
						
							GAGTGAAAGATGCGAGCGATAAGAAGATTCTGGTGGATATGTTGTTGTGGGCAATAGACAACCC
TGCGCCAGCGAATTTATTGCTAATCTCTGGTGACAGAGACTTCTCTAACGCTCTCCATCAGCTA
AGAATGAGGAGGTATAACATTCTTTTGGCTCAACCTCCACGAGCCTCTGTGCCGCTTGTTGCTG
CTGCCAGAGATGTTTGGCTCTGGACAGTCCTAGCCTCGGGAGGTCCTCCTCTTACAAGTGTTGA
ATCCTCTCTACTCTTTAACAATGGGGGTTTTCGTGTCTCTAATAAAGGTGTGTCGAAACTTCCA
GTTTCTGAACAAGCTCAGCCTAGCCAACCAACTGGTTCAACTTCTAACGCTGGAGATACTAAGG
ATCATAAAACCAGAGAAAAGCATGTTCCAAGAGGATCACTTCAAGAAAATAGAAAAAATATGCT
TCAGCATAGCAGTGGAGCCACAGGGGAATCTGCTACTACCTGCAGAATATGCAATGTTGTATGT
GATAGCTTTGAAAAGTTCACCGCTCACCTTTCAGATATAAGGCATATATCTCAGGTAAATTAAT
ATCTTGCTTGTTGGTCTATCTCTTCTTGAAGATGAAATTGTATGGTAGCTAGAAGGAATAGAAA
AAAAATTGTTTGAATTCTTTGTGCAGGCTGCCATTGTAGAAAGTCGCAGAGCTCAGGCCAGCGT
TTCAGCCAAACCCATACATCAAGCAGTTCTTGTCGAACCTTTGTTGTGCAAAGTTTGCCAGATC
AGCTTTACCAACAATGATACATATAAAAATCACACCTATGGAAAAAAACACCGAAACAATTTGG
AACTGCAATCAGGTAAGTCCAAAAACATTTTGGTGGGACCAGCTGAGCCTTCCAAAGAGGTTCT
AGAGAAACATAATATGAATAAGAAGGTGATGATTGAGAGTAGAGCTCAGGCAAACGCTGAATTC
GTTTGTCTTATGTGCAATGTGGTGTGCCAGAGTCAGATTGTCTTTAATTCTCATCTGCGCGGTA
AGAAGCATGCCAACATGCTGAGTCAATCAGAGGCAAGTTTCTAACTTTTGGTTATTCGAGAACT
TGTTAATTTATAGCAATAGAAAATTTGACAGCTTGGTAAAACATATGCCTGACCTAAAAGCATT
GGATCAGGCACTCATTGTTTCTACAAAGCTTCAAGAGAAAGGAGTCGGAGAAAAAGAACAACCA
AGTGAAACAGTTGCAGAGCTTCAGTTGCAGTCTCAAAAGGCTCAAGAGAAGCAGGTTCCCATGG
TGAATCAATTAGAG
						
					

			
		

Sequences
Splice junction sequence	AGTCGGAGAAAAAGAACAACCAAGTGAAACAGTTGCAGAGCTTCAGTTGCAGTCTCAAAAGGCT CAAGAGAAGCAGGTTCCCATGGTGAATCAATTAGAGgagtgaaagatgcgagcgataagaagat tctggtggatatgttgttgtgggcaatagacaaccctgcgccagcgaatttattgctaatctct ggtgacag
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: 1091 Transcript exons: 24616024-24616589,24616690-24617079,24617183-24617317 GAGTGAAAGATGCGAGCGATAAGAAGATTCTGGTGGATATGTTGTTGTGGGCAATAGACAACCC TGCGCCAGCGAATTTATTGCTAATCTCTGGTGACAGAGACTTCTCTAACGCTCTCCATCAGCTA AGAATGAGGAGGTATAACATTCTTTTGGCTCAACCTCCACGAGCCTCTGTGCCGCTTGTTGCTG CTGCCAGAGATGTTTGGCTCTGGACAGTCCTAGCCTCGGGAGGTCCTCCTCTTACAAGTGTTGA ATCCTCTCTACTCTTTAACAATGGGGGTTTTCGTGTCTCTAATAAAGGTGTGTCGAAACTTCCA GTTTCTGAACAAGCTCAGCCTAGCCAACCAACTGGTTCAACTTCTAACGCTGGAGATACTAAGG ATCATAAAACCAGAGAAAAGCATGTTCCAAGAGGATCACTTCAAGAAAATAGAAAAAATATGCT TCAGCATAGCAGTGGAGCCACAGGGGAATCTGCTACTACCTGCAGAATATGCAATGTTGTATGT GATAGCTTTGAAAAGTTCACCGCTCACCTTTCAGATATAAGGCATATATCTCAGGCTGCCATTG TAGAAAGTCGCAGAGCTCAGGCCAGCGTTTCAGCCAAACCCATACATCAAGCAGTTCTTGTCGA ACCTTTGTTGTGCAAAGTTTGCCAGATCAGCTTTACCAACAATGATACATATAAAAATCACACC TATGGAAAAAAACACCGAAACAATTTGGAACTGCAATCAGGTAAGTCCAAAAACATTTTGGTGG GACCAGCTGAGCCTTCCAAAGAGGTTCTAGAGAAACATAATATGAATAAGAAGGTGATGATTGA GAGTAGAGCTCAGGCAAACGCTGAATTCGTTTGTCTTATGTGCAATGTGGTGTGCCAGAGTCAG ATTGTCTTTAATTCTCATCTGCGCGGTAAGAAGCATGCCAACATGCTGAGTCAATCAGAGGCAC TCATTGTTTCTACAAAGCTTCAAGAGAAAGGAGTCGGAGAAAAAGAACAACCAAGTGAAACAGT TGCAGAGCTTCAGTTGCAGTCTCAAAAGGCTCAAGAGAAGCAGGTTCCCATGGTGAATCAATTA GAG
Genomic sequence	GAGTGAAAGATGCGAGCGATAAGAAGATTCTGGTGGATATGTTGTTGTGGGCAATAGACAACCC TGCGCCAGCGAATTTATTGCTAATCTCTGGTGACAGAGACTTCTCTAACGCTCTCCATCAGCTA AGAATGAGGAGGTATAACATTCTTTTGGCTCAACCTCCACGAGCCTCTGTGCCGCTTGTTGCTG CTGCCAGAGATGTTTGGCTCTGGACAGTCCTAGCCTCGGGAGGTCCTCCTCTTACAAGTGTTGA ATCCTCTCTACTCTTTAACAATGGGGGTTTTCGTGTCTCTAATAAAGGTGTGTCGAAACTTCCA GTTTCTGAACAAGCTCAGCCTAGCCAACCAACTGGTTCAACTTCTAACGCTGGAGATACTAAGG ATCATAAAACCAGAGAAAAGCATGTTCCAAGAGGATCACTTCAAGAAAATAGAAAAAATATGCT TCAGCATAGCAGTGGAGCCACAGGGGAATCTGCTACTACCTGCAGAATATGCAATGTTGTATGT GATAGCTTTGAAAAGTTCACCGCTCACCTTTCAGATATAAGGCATATATCTCAGGTAAATTAAT ATCTTGCTTGTTGGTCTATCTCTTCTTGAAGATGAAATTGTATGGTAGCTAGAAGGAATAGAAA AAAAATTGTTTGAATTCTTTGTGCAGGCTGCCATTGTAGAAAGTCGCAGAGCTCAGGCCAGCGT TTCAGCCAAACCCATACATCAAGCAGTTCTTGTCGAACCTTTGTTGTGCAAAGTTTGCCAGATC AGCTTTACCAACAATGATACATATAAAAATCACACCTATGGAAAAAAACACCGAAACAATTTGG AACTGCAATCAGGTAAGTCCAAAAACATTTTGGTGGGACCAGCTGAGCCTTCCAAAGAGGTTCT AGAGAAACATAATATGAATAAGAAGGTGATGATTGAGAGTAGAGCTCAGGCAAACGCTGAATTC GTTTGTCTTATGTGCAATGTGGTGTGCCAGAGTCAGATTGTCTTTAATTCTCATCTGCGCGGTA AGAAGCATGCCAACATGCTGAGTCAATCAGAGGCAAGTTTCTAACTTTTGGTTATTCGAGAACT TGTTAATTTATAGCAATAGAAAATTTGACAGCTTGGTAAAACATATGCCTGACCTAAAAGCATT GGATCAGGCACTCATTGTTTCTACAAAGCTTCAAGAGAAAGGAGTCGGAGAAAAAGAACAACCA AGTGAAACAGTTGCAGAGCTTCAGTTGCAGTCTCAAAAGGCTCAAGAGAAGCAGGTTCCCATGG TGAATCAATTAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.365988958

Conservation Information
Conserved circRNAs	NA
PMCS	0.365988958

			
						 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 AT5G61190_circ_g.2

Address

Any questions?

Supported by