Plant Circular RNA Database

Detail information of AT5G49630_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G49630_circ_g.2
					
						ID in PlantcircBase
						ath_circ_043266
					
						Alias
						5:20143750-20144864
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 20143750-20144864  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G49630						
					
						Parent gene annotation
						
							AAP6
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G49630_circ_g.1 						
					
						Support reads
						3/2/1/1/1/2/1/2
					
						Tissues
						seedling;root;leaf;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  
						
							CT-GC							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
						AT5G49630.1:3

General Information
CircRNA Name	AT5G49630_circ_g.2
ID in PlantcircBase	ath_circ_043266
Alias	5:20143750-20144864
Organism	Arabidpsis thaliana
Position	chr5: 20143750-20144864 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G49630
Parent gene annotation	AAP6
Parent gene strand	-
Alternative splicing	AT5G49630_circ_g.1
Support reads	3/2/1/1/1/2/1/2
Tissues	seedling;root;leaf;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	CT-GC 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	AT5G49630.1:3

			
						 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  
						
							ACTTACACCATGCTAATTGAAGCTGTGATTGTGTAGCCGATTGTTATTCCAATCAGATTCCCGT
ATTGAGCCAATCCACATAATTGCACTTTTCTTCCTCctgtatttcaatgagaacagttgagtat
gcgtaggcaaatgcaatgtccccaatcgcttggaacgttctccatattttctcggcacccgata
catcaatc

									
								

					

						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: 455
Transcript exons: 20143750-20143895,20143983-20144197,20144771-20144864
CTGTATTTCAATGAGAACAGTTGAGTATGCGTAGGCAAATGCAATGTCCCCAATCGCTTGGAAC
GTTCTCCATATTTTCTCGGCACCCGATACATCAATCCCGACCGTAACTCCTGTCAGTGTTGTTC
TTACGTGCTCACCGCCACCCGCCGCTTTGGCGATGGAGAGACCAACACCGATGGAGGCATAACA
AAAGGACATTACGGCCGCAAGAATGGAGAGCCAAGAGAGGTTATGGAAATTTGGGATTTGGCTA
AGAATAATTTGGATGATTGCAAATATGATCATGAAGGGAGTGTTTGAAGTGGCACATTTAACAT
TATGCCCATTTTTGTGGAAACAATTCGACCTCTTCACTGCCACCATGCTAATTGAAGCTGTGAT
TGTGTAGCCGATTGTTATTCCAATCAGATTCCCGTATTGAGCCAATCCACATAATTGCACTTTT
CTTCCTC
						
					

						Genomic sequence
						
							CTGTATTTCAATGAGAACAGTTGAGTATGCGTAGGCAAATGCAATGTCCCCAATCGCTTGGAAC
GTTCTCCATATTTTCTCGGCACCCGATACATCAATCCCGACCGTAACTCCTGTCAGTGTTGTTC
TTACGTGCTCACCGCCACCTTTATTTGTACGTTCTTCAAAACCATTAGGTCACACTCTTTAAGA
AGATGTATAATTGTAAGAATAGGAATGTATATTTTATTTACCCGCCGCTTTGGCGATGGAGAGA
CCAACACCGATGGAGGCATAACAAAAGGACATTACGGCCGCAAGAATGGAGAGCCAAGAGAGGT
TATGGAAATTTGGGATTTGGCTAAGAATAATTTGGATGATTGCAAATATGATCATGAAGGGAGT
GTTTGAAGTGGCACATTTAACATTATGCCCATTTTTGTGGAAACAATTCGACCTCTTCACTGCC
CTGTTTCAATGAATCCTTACATCGTCAGTCTAATGCTTTTTTTCCTATATTGAAACAATTCATT
CATATAATAGTTATAATTTTTTTTTGTGTGTGCAAAAGAATAGTTATAAAATTTAACATTCATA
TTTTATCAATATAATTTTAACATAATTAACCAAAATAAAAATTTATTTTTCAGAATTCGACAAT
CATCATAGATCAAACTCGATTATTGATTGTTTTATTTTTTTCTGAAATTGTTTCATTCGACATT
CCATTAGATCCAATATAAGTTAGCCCATTAAATCGAATAACTAACACATGCCAAAGAAAAAAAG
ATTTATGGAATTTTATATAGCATATTGCTGCCTATCATCATAGACATAGCACTTTGTCTTCAAA
TGTAGTAGTGTAAATTAATAAAATCAGGCATTTGTTGTCCAGCCTTAAGACTTAATAAACATGC
TTGATAATAAGTTAAGGAAAAGGAGAGTTTGCTATTATTGACTTTGACTATTTAACAAATGATA
ATAAAATATTTATCATAAAAGAGAAGTAAATAAAAAAAAAGAAAATAAAAAGAAAACTTACACC
ATGCTAATTGAAGCTGTGATTGTGTAGCCGATTGTTATTCCAATCAGATTCCCGTATTGAGCCA
ATCCACATAATTGCACTTTTCTTCCTC
						
					

			
		

Sequences
Splice junction sequence	ACTTACACCATGCTAATTGAAGCTGTGATTGTGTAGCCGATTGTTATTCCAATCAGATTCCCGT ATTGAGCCAATCCACATAATTGCACTTTTCTTCCTCctgtatttcaatgagaacagttgagtat gcgtaggcaaatgcaatgtccccaatcgcttggaacgttctccatattttctcggcacccgata catcaatc
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: 455 Transcript exons: 20143750-20143895,20143983-20144197,20144771-20144864 CTGTATTTCAATGAGAACAGTTGAGTATGCGTAGGCAAATGCAATGTCCCCAATCGCTTGGAAC GTTCTCCATATTTTCTCGGCACCCGATACATCAATCCCGACCGTAACTCCTGTCAGTGTTGTTC TTACGTGCTCACCGCCACCCGCCGCTTTGGCGATGGAGAGACCAACACCGATGGAGGCATAACA AAAGGACATTACGGCCGCAAGAATGGAGAGCCAAGAGAGGTTATGGAAATTTGGGATTTGGCTA AGAATAATTTGGATGATTGCAAATATGATCATGAAGGGAGTGTTTGAAGTGGCACATTTAACAT TATGCCCATTTTTGTGGAAACAATTCGACCTCTTCACTGCCACCATGCTAATTGAAGCTGTGAT TGTGTAGCCGATTGTTATTCCAATCAGATTCCCGTATTGAGCCAATCCACATAATTGCACTTTT CTTCCTC
Genomic sequence	CTGTATTTCAATGAGAACAGTTGAGTATGCGTAGGCAAATGCAATGTCCCCAATCGCTTGGAAC GTTCTCCATATTTTCTCGGCACCCGATACATCAATCCCGACCGTAACTCCTGTCAGTGTTGTTC TTACGTGCTCACCGCCACCTTTATTTGTACGTTCTTCAAAACCATTAGGTCACACTCTTTAAGA AGATGTATAATTGTAAGAATAGGAATGTATATTTTATTTACCCGCCGCTTTGGCGATGGAGAGA CCAACACCGATGGAGGCATAACAAAAGGACATTACGGCCGCAAGAATGGAGAGCCAAGAGAGGT TATGGAAATTTGGGATTTGGCTAAGAATAATTTGGATGATTGCAAATATGATCATGAAGGGAGT GTTTGAAGTGGCACATTTAACATTATGCCCATTTTTGTGGAAACAATTCGACCTCTTCACTGCC CTGTTTCAATGAATCCTTACATCGTCAGTCTAATGCTTTTTTTCCTATATTGAAACAATTCATT CATATAATAGTTATAATTTTTTTTTGTGTGTGCAAAAGAATAGTTATAAAATTTAACATTCATA TTTTATCAATATAATTTTAACATAATTAACCAAAATAAAAATTTATTTTTCAGAATTCGACAAT CATCATAGATCAAACTCGATTATTGATTGTTTTATTTTTTTCTGAAATTGTTTCATTCGACATT CCATTAGATCCAATATAAGTTAGCCCATTAAATCGAATAACTAACACATGCCAAAGAAAAAAAG ATTTATGGAATTTTATATAGCATATTGCTGCCTATCATCATAGACATAGCACTTTGTCTTCAAA TGTAGTAGTGTAAATTAATAAAATCAGGCATTTGTTGTCCAGCCTTAAGACTTAATAAACATGC TTGATAATAAGTTAAGGAAAAGGAGAGTTTGCTATTATTGACTTTGACTATTTAACAAATGATA ATAAAATATTTATCATAAAAGAGAAGTAAATAAAAAAAAAGAAAATAAAAAGAAAACTTACACC ATGCTAATTGAAGCTGTGATTGTGTAGCCGATTGTTATTCCAATCAGATTCCCGTATTGAGCCA ATCCACATAATTGCACTTTTCTTCCTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.453279649

Conservation Information
Conserved circRNAs	NA
PMCS	0.453279649

			
						 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 AT5G49630_circ_g.2

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