Plant Circular RNA Database

Detail information of 5_circ_ag.3

			
						 General Information
					
						CircRNA Name
						5_circ_ag.3
					
						ID in PlantcircBase
						ath_circ_045423
					
						Alias
						At_ciR73
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 25182042-25184894  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI, SMALT, Segemehl, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							AT5G62690_circ_g.1 5_circ_ag.2 AT5G62690_circ_g.4 AT5G62690_circ_g.5 5_circ_ag.6 5_circ_ag.7 5_circ_ag.8 AT5G62700_circ_g.1 						
					
						Support reads
						5/105/350
					
						Tissues
						siliques and seeds/leaf/root, leaf, aerial, inflorescences, seed
					
						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
						NA

General Information
CircRNA Name	5_circ_ag.3
ID in PlantcircBase	ath_circ_045423
Alias	At_ciR73
Organism	Arabidpsis thaliana
Position	chr5: 25182042-25184894 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI, SMALT, Segemehl, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	AT5G62690_circ_g.1 5_circ_ag.2 AT5G62690_circ_g.4 AT5G62690_circ_g.5 5_circ_ag.6 5_circ_ag.7 5_circ_ag.8 AT5G62700_circ_g.1
Support reads	5/105/350
Tissues	siliques and seeds/leaf/root, leaf, aerial, inflorescences, seed
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	NA

			
						 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  
						
							AACAACTGGGCCAAGGGACACTACACTGAAGGAGCTGAACTAATCGATTCCGTTCTCGATGTTG
TTCGTAAGGAAGCTGAGAACTGTGACTGCCTCCAAGggttccaggtttgtcactcgttgggagg
aggaactggatctggtatgggaacattgttgatctctaagatccgtgaagagtacccagatcgc
atgatgct

									
								

					

						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: 718
Transcript exons: 25182042-25182311,25182812-25183033,25184669-25184894
GGTTCCAGGTTTGTCACTCGTTGGGAGGAGGAACTGGATCTGGTATGGGAACATTGTTGATCTC
TAAGATCCGTGAAGAGTACCCAGATCGCATGATGCTTACCTTCTCGGTGTTCCCTTCACCAAAG
GTTTCTGATACTGTGGTTGAGCCTTACAACGCTACTCTGTCTGTCCATCAGCTTGTTGAGAATG
CTGATGAGTGCATGGTTCTTGATAATGAGGCCTTGTACGATATTTGCTTCAGGACTCTCAAACT
CACTACCCCCAGCTGTTGGTGATTTGAACCACTTGATTTCTGCTACTATGTCTGGTGTGACTTG
CTGTCTGAGGTTCCCTGGTCAACTCAACTCTGACCTCCGAAAGCTTGCTGTGAATCTCATCCCA
TTCCCCCGTCTTCACTTCTTCATGGTGGGTTTTGCTCCTCTCACCTCAAGAGGTTCTCAGCAGT
ACCGTTCCCTCACAGTCCCTGAGCTCACCCAGCAAATGTGGGACGGTAGATTCGTTCCTCGTGC
AGTGCTCATGGATTTGGAGCCTGGGACTATGGATAGTCTCAGATCTGGACCGTACGGTCAGACC
TTTCGACCTGATAACTTCGTCTTTGGTCAATCCGGTGCGGGTAACAACTGGGCCAAGGGACACT
ACACTGAAGGAGCTGAACTAATCGATTCCGTTCTCGATGTTGTTCGTAAGGAAGCTGAGAACTG
TGACTGCCTCCAAG
						
					

						Genomic sequence
						
							GGTTCCAGGTTTGTCACTCGTTGGGAGGAGGAACTGGATCTGGTATGGGAACATTGTTGATCTC
TAAGATCCGTGAAGAGTACCCAGATCGCATGATGCTTACCTTCTCGGTGTTCCCTTCACCAAAG
GTTTCTGATACTGTGGTTGAGCCTTACAACGCTACTCTGTCTGTCCATCAGCTTGTTGAGAATG
CTGATGAGTGCATGGTTCTTGATAATGAGGCCTTGTACGATATTTGCTTCAGGACTCTCAAACT
CACTACCCCCAGCTGTAAGATTTCATTTCCCAATTATGCTCTCCACCAATGTTAAGATGAGTTA
AACTATGCTTGAAATGCTTGGTCTACATGGTGTTTATGTTAATAATTGGTATCAAGTTCAGATC
TGCAAGCATCTATGTAAAGCTTATAGTATTGTTACTGTTTCCATTGGTTTGCTCTTTGACTATG
TCACTGTTTTATATCAGAATTCTGATTTGCAAGTCTCTGTGCAGAACTTATACTTTTGTTACTG
TTTCCAGTCGTTTTGTACATATCTTTAGCCTCTTGTTTTGTGTGATATTGCTTCTGTTTACCTA
TTTTGATCTCATCACCGAAGTAGGTCCTTAAACTACTCTTATTGGAACAATACTTTCTGGTTAA
GTTGCAAGTAGAAATCTGATACTTGATGATCATCAGTTTGTTGAGTTTACTGTCTGCTTTGATT
CTTTTCTCATCGTACTGTTTGGATATGTCTAAAGCTTACACATACTTGGATTTTCTTCTGTGTG
CAGTTGGTGATTTGAACCACTTGATTTCTGCTACTATGTCTGGTGTGACTTGCTGTCTGAGGTT
CCCTGGTCAACTCAACTCTGACCTCCGAAAGCTTGCTGTGAATCTCATCCCATTCCCCCGTCTT
CACTTCTTCATGGTGGGTTTTGCTCCTCTCACCTCAAGAGGTTCTCAGCAGTACCGTTCCCTCA
CAGTCCCTGAGCTCACCCAGCAAATGTGGGACTCCAAGAACATGATGTGTGCTGCAGACCCAAG
GCACGGACGCTACCTCACAGCCTCTGCCATGTTCCGTGGCAAGATGAGCACAAAGGAAGTTGAC
GAGCAGATGCTGAATGTGCAGAACAAGAACTCGTCCTACTTTGTGGAGTGGATCCCCAACAACG
TGAAATCGACAGTCTGTGACATCCCACCTACTGGTCTGAAGATGGCATCAACTTTCATTGGAAA
CTCAACATCAATCCAAGAGATGTTCAGGCGAGTGAGTGAGCAGTTCACAGCTATGTTCAGGAGA
AAGGCTTTCTTGCATTGGTACACAGGTGAGGGAATGGACGAGATGGAATTCACAGAAGCGGAGA
GCAACATGAACGATCTTGTGTCAGAGTACCAGCAATACCAAGATGCAACTGCGGATGAAGAAGG
TGACTACGAGGATGAGGAAGAAGGTGAATATCAACAGGAGGAAGAGTACTGAGAATAATTTAGT
TATAACTGCTTTAAAAACAAAAACAATTTAGTCGTTTGCTACTTTTCTTTTTTTTAAAAGGAAC
ACCTCAACTACCAGTTGTAGTTTTTTTCTCTGCTTGTATTTGACATATCTGGTTGATGTTTCTG
TACTTTTGTTCTTAATCTTGTTATTGCCTGTGATGTTTCTATTAATATTTTCCAGTTGTACTGT
CTTCAATCTTTGGTCTTCTATCCTCATCTTTCTGCTACCTGACTACCTCAGTACCTACTTAAGG
ACTTTAGGTTTGATCTGTTTGGAAAATAGATTAAGGTTCGGGATTTGTGACCTCAGGGCAAGTG
CAGCTCCATATTAGACCCCAAAACAAATTTATCACTGTTCTGAAATACAAATTCCCCAACATGC
CTAGCTTTGAGGATTGATTGTTTCTAAGCTATTTATTTTCTTTACCAATTCACATAAATACTTT
AGGATAAAGTGGAAATTGTCAATATTCAAACACGTTCTCTTCCCTTTGTTAACAAGCAAAATAT
GAAAATAACATGTGCTCTTCCATTATTTCATTTTTTGCAACCCTTATGAATGGGCCCAAAGCCT
GCCACAAACATGTGCACAATATTAGAAAAGAAACTCTAAAAACAAAAACAAAATGAACATTCTT
TTTTTTGCAATTTGTATTATAATATCAAAATAATATTTTAAAACTCAATTTAATATTGGAAAAT
AAAATAAAATTTGGAAACTAAACAGTTACCATAGAGAAAGAAACGGACCATTTTTAAATTTTGA
ATTTCGAGAAAAACAAAATCGGCGCCTCTTATTAGAGATAATTGGGGGAAAAAAACAAAAAACA
AACACAGAGAGAGCAATAATAAAAACTCACTCACTCTCACTTTTTTCATTTCTTCAACAAAAAA
AACCTAAAGCTCTCTTTTCTCTCCAGATTTCGATTCCCGAGGCTCGAGAGAAAACCGTAAATCT
CTTCTCCGTTCACTCAATCAACCAAAGATGCGTGAGATTCTTCACATCCAGGGTGGTCAATGCG
GTAACCAGATCGGAGCCAAGTTCTGGGAAGTGGTTTGCGCCGAGCACGGCATCGATCCAACCGG
AAGGTACACCGGAGACTCAGATCTGCAACTTGAGCGCATCAACGTTTACTACAATGAAGCGAGT
TGCGGTAGATTCGTTCCTCGTGCAGTGCTCATGGATTTGGAGCCTGGGACTATGGATAGTCTCA
GATCTGGACCGTACGGTCAGACCTTTCGACCTGATAACTTCGTCTTTGGTCAATCCGGTGCGGG
TAACAACTGGGCCAAGGGACACTACACTGAAGGAGCTGAACTAATCGATTCCGTTCTCGATGTT
GTTCGTAAGGAAGCTGAGAACTGTGACTGCCTCCAAG
						
					

			
		

Sequences
Splice junction sequence	AACAACTGGGCCAAGGGACACTACACTGAAGGAGCTGAACTAATCGATTCCGTTCTCGATGTTG TTCGTAAGGAAGCTGAGAACTGTGACTGCCTCCAAGggttccaggtttgtcactcgttgggagg aggaactggatctggtatgggaacattgttgatctctaagatccgtgaagagtacccagatcgc atgatgct
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: 718 Transcript exons: 25182042-25182311,25182812-25183033,25184669-25184894 GGTTCCAGGTTTGTCACTCGTTGGGAGGAGGAACTGGATCTGGTATGGGAACATTGTTGATCTC TAAGATCCGTGAAGAGTACCCAGATCGCATGATGCTTACCTTCTCGGTGTTCCCTTCACCAAAG GTTTCTGATACTGTGGTTGAGCCTTACAACGCTACTCTGTCTGTCCATCAGCTTGTTGAGAATG CTGATGAGTGCATGGTTCTTGATAATGAGGCCTTGTACGATATTTGCTTCAGGACTCTCAAACT CACTACCCCCAGCTGTTGGTGATTTGAACCACTTGATTTCTGCTACTATGTCTGGTGTGACTTG CTGTCTGAGGTTCCCTGGTCAACTCAACTCTGACCTCCGAAAGCTTGCTGTGAATCTCATCCCA TTCCCCCGTCTTCACTTCTTCATGGTGGGTTTTGCTCCTCTCACCTCAAGAGGTTCTCAGCAGT ACCGTTCCCTCACAGTCCCTGAGCTCACCCAGCAAATGTGGGACGGTAGATTCGTTCCTCGTGC AGTGCTCATGGATTTGGAGCCTGGGACTATGGATAGTCTCAGATCTGGACCGTACGGTCAGACC TTTCGACCTGATAACTTCGTCTTTGGTCAATCCGGTGCGGGTAACAACTGGGCCAAGGGACACT ACACTGAAGGAGCTGAACTAATCGATTCCGTTCTCGATGTTGTTCGTAAGGAAGCTGAGAACTG TGACTGCCTCCAAG
Genomic sequence	GGTTCCAGGTTTGTCACTCGTTGGGAGGAGGAACTGGATCTGGTATGGGAACATTGTTGATCTC TAAGATCCGTGAAGAGTACCCAGATCGCATGATGCTTACCTTCTCGGTGTTCCCTTCACCAAAG GTTTCTGATACTGTGGTTGAGCCTTACAACGCTACTCTGTCTGTCCATCAGCTTGTTGAGAATG CTGATGAGTGCATGGTTCTTGATAATGAGGCCTTGTACGATATTTGCTTCAGGACTCTCAAACT CACTACCCCCAGCTGTAAGATTTCATTTCCCAATTATGCTCTCCACCAATGTTAAGATGAGTTA AACTATGCTTGAAATGCTTGGTCTACATGGTGTTTATGTTAATAATTGGTATCAAGTTCAGATC TGCAAGCATCTATGTAAAGCTTATAGTATTGTTACTGTTTCCATTGGTTTGCTCTTTGACTATG TCACTGTTTTATATCAGAATTCTGATTTGCAAGTCTCTGTGCAGAACTTATACTTTTGTTACTG TTTCCAGTCGTTTTGTACATATCTTTAGCCTCTTGTTTTGTGTGATATTGCTTCTGTTTACCTA TTTTGATCTCATCACCGAAGTAGGTCCTTAAACTACTCTTATTGGAACAATACTTTCTGGTTAA GTTGCAAGTAGAAATCTGATACTTGATGATCATCAGTTTGTTGAGTTTACTGTCTGCTTTGATT CTTTTCTCATCGTACTGTTTGGATATGTCTAAAGCTTACACATACTTGGATTTTCTTCTGTGTG CAGTTGGTGATTTGAACCACTTGATTTCTGCTACTATGTCTGGTGTGACTTGCTGTCTGAGGTT CCCTGGTCAACTCAACTCTGACCTCCGAAAGCTTGCTGTGAATCTCATCCCATTCCCCCGTCTT CACTTCTTCATGGTGGGTTTTGCTCCTCTCACCTCAAGAGGTTCTCAGCAGTACCGTTCCCTCA CAGTCCCTGAGCTCACCCAGCAAATGTGGGACTCCAAGAACATGATGTGTGCTGCAGACCCAAG GCACGGACGCTACCTCACAGCCTCTGCCATGTTCCGTGGCAAGATGAGCACAAAGGAAGTTGAC GAGCAGATGCTGAATGTGCAGAACAAGAACTCGTCCTACTTTGTGGAGTGGATCCCCAACAACG TGAAATCGACAGTCTGTGACATCCCACCTACTGGTCTGAAGATGGCATCAACTTTCATTGGAAA CTCAACATCAATCCAAGAGATGTTCAGGCGAGTGAGTGAGCAGTTCACAGCTATGTTCAGGAGA AAGGCTTTCTTGCATTGGTACACAGGTGAGGGAATGGACGAGATGGAATTCACAGAAGCGGAGA GCAACATGAACGATCTTGTGTCAGAGTACCAGCAATACCAAGATGCAACTGCGGATGAAGAAGG TGACTACGAGGATGAGGAAGAAGGTGAATATCAACAGGAGGAAGAGTACTGAGAATAATTTAGT TATAACTGCTTTAAAAACAAAAACAATTTAGTCGTTTGCTACTTTTCTTTTTTTTAAAAGGAAC ACCTCAACTACCAGTTGTAGTTTTTTTCTCTGCTTGTATTTGACATATCTGGTTGATGTTTCTG TACTTTTGTTCTTAATCTTGTTATTGCCTGTGATGTTTCTATTAATATTTTCCAGTTGTACTGT CTTCAATCTTTGGTCTTCTATCCTCATCTTTCTGCTACCTGACTACCTCAGTACCTACTTAAGG ACTTTAGGTTTGATCTGTTTGGAAAATAGATTAAGGTTCGGGATTTGTGACCTCAGGGCAAGTG CAGCTCCATATTAGACCCCAAAACAAATTTATCACTGTTCTGAAATACAAATTCCCCAACATGC CTAGCTTTGAGGATTGATTGTTTCTAAGCTATTTATTTTCTTTACCAATTCACATAAATACTTT AGGATAAAGTGGAAATTGTCAATATTCAAACACGTTCTCTTCCCTTTGTTAACAAGCAAAATAT GAAAATAACATGTGCTCTTCCATTATTTCATTTTTTGCAACCCTTATGAATGGGCCCAAAGCCT GCCACAAACATGTGCACAATATTAGAAAAGAAACTCTAAAAACAAAAACAAAATGAACATTCTT TTTTTTGCAATTTGTATTATAATATCAAAATAATATTTTAAAACTCAATTTAATATTGGAAAAT AAAATAAAATTTGGAAACTAAACAGTTACCATAGAGAAAGAAACGGACCATTTTTAAATTTTGA ATTTCGAGAAAAACAAAATCGGCGCCTCTTATTAGAGATAATTGGGGGAAAAAAACAAAAAACA AACACAGAGAGAGCAATAATAAAAACTCACTCACTCTCACTTTTTTCATTTCTTCAACAAAAAA AACCTAAAGCTCTCTTTTCTCTCCAGATTTCGATTCCCGAGGCTCGAGAGAAAACCGTAAATCT CTTCTCCGTTCACTCAATCAACCAAAGATGCGTGAGATTCTTCACATCCAGGGTGGTCAATGCG GTAACCAGATCGGAGCCAAGTTCTGGGAAGTGGTTTGCGCCGAGCACGGCATCGATCCAACCGG AAGGTACACCGGAGACTCAGATCTGCAACTTGAGCGCATCAACGTTTACTACAATGAAGCGAGT TGCGGTAGATTCGTTCCTCGTGCAGTGCTCATGGATTTGGAGCCTGGGACTATGGATAGTCTCA GATCTGGACCGTACGGTCAGACCTTTCGACCTGATAACTTCGTCTTTGGTCAATCCGGTGCGGG TAACAACTGGGCCAAGGGACACTACACTGAAGGAGCTGAACTAATCGATTCCGTTCTCGATGTT GTTCGTAAGGAAGCTGAGAACTGTGACTGCCTCCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						1.25730673

Conservation Information
Conserved circRNAs	NA
PMCS	1.25730673

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR5632-5p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	ath-miR5632-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of 5_circ_ag.3

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