Plant Circular RNA Database

Detail information of 5_circ_ag.9

			
						 General Information
					
						CircRNA Name
						5_circ_ag.9
					
						ID in PlantcircBase
						ath_circ_041490
					
						Alias
						At_ciR4
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 15381583-15384589  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							AT5G38410_circ_g.1 AT5G38410_circ_g.2 5_circ_ag.3 5_circ_ag.4 AT5G38410_circ_g.5 5_circ_ag.6 5_circ_ag.7 AT5G38410_circ_g.8 5_circ_ag.9 5_circ_ag.10 AT5G38410_circ_g.11 AT5G38410_circ_g.12 AT5G38410_circ_g.13 5_circ_ag.14 5_circ_ag.15 5_circ_ag.16 5_circ_ag.17 5_circ_ag.18 AT5G38410_circ_g.19 5_circ_ag.20 AT5G38410_circ_g.21 AT5G38410_circ_g.22 AT5G38410_circ_g.23 AT5G38410_circ_g.24 AT5G38410_circ_g.25 AT5G38410_circ_g.26 AT5G38410_circ_g.27 5_circ_ag.28 5_circ_ag.29 5_circ_ag.30 5_circ_ag.31 5_circ_ag.32 5_circ_ag.33 5_circ_ag.34 AT5G38410_circ_g.35 AT5G38410_circ_g.36 AT5G38410_circ_g.37 AT5G38410_circ_g.38 AT5G38410_circ_g.39 AT5G38420_circ_g.1 AT5G38420_circ_g.2 AT5G38420_circ_g.3 AT5G38420_circ_g.4 AT5G38420_circ_g.5 AT5G38420_circ_g.6 AT5G38420_circ_g.7 5_circ_ag.8 AT5G38420_circ_g.10 AT5G38420_circ_g.11 5_circ_ag.12 AT5G38420_circ_g.13 5_circ_ag.14 AT5G38430_circ_g.1 AT5G38430_circ_g.2 AT5G38430_circ_g.3 						
					
						Support reads
						5192/10469
					
						Tissues
						leaf/aerial, inflorescences, whole_plant
					
						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-AC							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.9
ID in PlantcircBase	ath_circ_041490
Alias	At_ciR4
Organism	Arabidpsis thaliana
Position	chr5: 15381583-15384589 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	AT5G38410_circ_g.1 AT5G38410_circ_g.2 5_circ_ag.3 5_circ_ag.4 AT5G38410_circ_g.5 5_circ_ag.6 5_circ_ag.7 AT5G38410_circ_g.8 5_circ_ag.9 5_circ_ag.10 AT5G38410_circ_g.11 AT5G38410_circ_g.12 AT5G38410_circ_g.13 5_circ_ag.14 5_circ_ag.15 5_circ_ag.16 5_circ_ag.17 5_circ_ag.18 AT5G38410_circ_g.19 5_circ_ag.20 AT5G38410_circ_g.21 AT5G38410_circ_g.22 AT5G38410_circ_g.23 AT5G38410_circ_g.24 AT5G38410_circ_g.25 AT5G38410_circ_g.26 AT5G38410_circ_g.27 5_circ_ag.28 5_circ_ag.29 5_circ_ag.30 5_circ_ag.31 5_circ_ag.32 5_circ_ag.33 5_circ_ag.34 AT5G38410_circ_g.35 AT5G38410_circ_g.36 AT5G38410_circ_g.37 AT5G38410_circ_g.38 AT5G38410_circ_g.39 AT5G38420_circ_g.1 AT5G38420_circ_g.2 AT5G38420_circ_g.3 AT5G38420_circ_g.4 AT5G38420_circ_g.5 AT5G38420_circ_g.6 AT5G38420_circ_g.7 5_circ_ag.8 AT5G38420_circ_g.10 AT5G38420_circ_g.11 5_circ_ag.12 AT5G38420_circ_g.13 5_circ_ag.14 AT5G38430_circ_g.1 AT5G38430_circ_g.2 AT5G38430_circ_g.3
Support reads	5192/10469
Tissues	leaf/aerial, inflorescences, whole_plant
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-AC 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  
						
							CGGAGTCGGTGCATCCGAACAATGGAAGCTTCCACATTGTCCAGTACCGTCCATCGTAGTATCC
GGGAGTGTTTCCGTGCTCACGGTACACAAATCCGTGctccaactcgaattcaacacaaggaatc
cacttgttgcggagaaggtagtcaacttccttagccaattcaacgtcactaaggtcagggaggt
aagataga

									
								

					

						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
						
							CTCCAACTCGAATTCAACACAAGGAATCCACTTGTTGCGGAGAAGGTAGTCAACTTCCTTAGCC
AATTCAACGTCACTAAGGTCAGGGAGGTAAGATAGAGTCTCAAACTTCTTCTTTCCGATTGGTG
GCCACACCTATAAATTCGAATTCCCAATTATTCTAAAGTATTGTTCAGTTGCACTAATTGCACA
TGACAAAAGACAGTTTTCATTAATGACATTTACCTTCATGCAGCTAACTCTTCCTCCGTTGCTT
GTGATGGAAGTAATGTCGTTGTTGGCCTTGCGGGTGACCGGGAAAGAAGCGGATGACTTCAAGC
CGGTGAATGGAGCGACCATGGTGGCTTGAGCCGGGGAGGTAACCACAGCGGTGGAGGAGAACAT
AGAGGAAGCCATTACTTCTTCTTGTTGTTTCTCTTCTTCTTTTGGTTTTTCTCTTACTTACTTG
TTTGTCTGTTGGTTTTGTCATCTTTATATAGTGGGAACCGCTAGAGGCAACTAGCCCTAATGAT
CAAAGGGGCCATAATTCATGATAACGTCGTTAATTGCCACAGGATTAAGGAAAGGTGTTGACAC
CCTTATCGATTTGGACCACTAGGATAAGATCACGTGGCAGAAAACTCCATAATCTTATCTTTCT
CATGTAAGGGTAGGAGTGAATGTGTATGGCTACTGGTCTCCACTTGATCGGTTGCTTTTGGCTC
CTTTCAATTGGGAGGCGTCAAATTGTAGATATCGGTTAAATACTTTTTACATATAGATTAAAAA
AATGATTAAATTTCTATTACCTTATATTAACACATTCATATTTTTATTTTTCCACTTGATAATC
TTAAATAATAAGAATATAAGTATAATCTTTGAATTCATCCCACATTTTAAAAGTATAATTAAAT
CAGACAGAGTTCATTCAAAATGGTTTTTAATTGGGAAATGTAAACTAGTATTTTGTGTTATTAT
TTTCTATGTAGTATGTACGATCACTAGAACTTTTAGTCACATAATGGATATTAAATTAGAAAAC
AATCCAAATGCTTGTGAATTTTCAGGTTTTACGGCTAATTAATATATTTCTGATGAACAAGAGG
AACCCACGGCACCGTTCCTTTTGGAGCACAACGCAATTGCACTTACGGCCCACTTAAGCACGAA
TGTGGCACCTCAAGATAATTCCCACCATGACAACTTAAGCACAAAAGCCATGACGGATCATGGG
GAAATTTTATAACACACTTCAATGGATGGTGTGGATCCGAGGGAAGAATCCACACTCTAAGGCC
ACATGAAGAAGCTCATATGGTCATGGGTCCACGAATACCACGTAAAAGCTCATATATGCCCCGG
TCCAACCATATGAGAAGAAGTAGCCAAACCCATTCAAGAAACATTGATTACTTTTCATTGTAAA
TAAGTGTTTTAGCTTTGAATGTATCGTAAACTATCTAATTTAATGTAAAACAGTTTCCAAATTA
TAAATATTCATGCTTTGTTATCTCCATTATAAATTTCATTAATTCTTGCGTGTCCTTGCTTGCT
ATGATGTCATCTCTAAATTTTTGGACTTGCGGCTCTAGAATTCATGTTTATGGATTTAAAATAT
ACAGTTGGATTTTTCTATGTCATTTTAAAAAAGAAAATTTTTAGATTAGATTTTAAAAAGAGAA
ATAAACGTGTTTACAACTTAATGCATACTTTTTTGAAAAACAAATCTAAAACAGAGGATTTGGT
CTTAAGCTTGTCTTGTACCAAACCAAACTTGAAGACCTCCTTCATACTTCAAAGCTCCCCCCAC
TCCGTATTGTGCTCAGCCGGTTCCAAACATTTTTGTCAATTAACTTGACAAGTTTCTCCATTGG
TGATGGTTGTTCACCATGCTTTCAAGCATTTCTTTCTCCCCAAATCGAATGAACCGTGTTTTGG
AAGACATACCGTAGAATGAAGATTTTTGTTTTGTCATAGTTTTTGTCACAAATGGTTTTAAAGA
CTTCCCTCCAATATGTCGAGTACTTATCAAGTAGTATTCCCCTTATCAGCTTCTCCCATACCTT
CTGCGAGTAAGAGCACCCAAAAAAAAGATGGTGTCTTGTTTCCATAGGTTCGTGACAGAACATG
CAGTTTGTGTTCACTTGTTGATTCCATTTAAACATTCTGTCTCCCGTGGCAACTCTGTTTTTTG
AAGCTAGCCAACTGAGAAAGGAGTAGTTAGGGTAAAGTAAAAGAAACAGATCCCTTTGTATCCG
TCCATCGTAGGCTTAGTGTTGCGAATTTTTGAGCATGTATCTCTTGTGACAAACTTTTGACGGT
AGTGATCATTTTTTCCTTTCCAAAGGGCTATGTAACTTTCATCTTCTCTGAGACGACATCTCTA
TTTTCTACGTATTTTTACTACCTTTACTGGCTGTTTTTCATCTTTAAATTAAAATGTTCTAAAT
CAACCCTCAAAATTTGATTGATGGACGCATCTTTGCTATGCTTTCAAGTGCGAAATGTACCTAA
AAAGGGTACTCTTTCATTAGAGAACCAAAGGCAAGAATTAGGAGAGAAATTTAAAGGAACTAAA
ATGTTAGTTAAAAGAGATAAAACGAATAAAAAGAGTTAAAAGTGATAAGAGCAGAAATGAAGTG
ATATGAATAGAGATTTTTATAGAGGAAACGATAGAAAAACAAACCTTCAGTTTTTTCACTTTGG
CAAAATAATTACTTAAATTTACATTGACCATACAAAATTGGGTTCCGGATAGTCAACATTGAAT
ATTCCAGAAAAGGATTTAAGCATCAGTGAAGCTTGGGGGCTTGTAGGCAATGAAACTGATGCAT
TGGACTTGACGGGTGTTGTCGAATCCGATGATCCTAATGAAGGCGCCCGGGTACTCCTTCTTGC
ATTCTTCAACTTCCTTCAACACTTGAGCGGAGTCGGTGCATCCGAACAATGGAAGCTTCCACAT
TGTCCAGTACCGTCCATCGTAGTATCCGGGAGTGTTTCCGTGCTCACGGTACACAAATCCGTG
						
					

			
		

Sequences
Splice junction sequence	CGGAGTCGGTGCATCCGAACAATGGAAGCTTCCACATTGTCCAGTACCGTCCATCGTAGTATCC GGGAGTGTTTCCGTGCTCACGGTACACAAATCCGTGctccaactcgaattcaacacaaggaatc cacttgttgcggagaaggtagtcaacttccttagccaattcaacgtcactaaggtcagggaggt aagataga
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	CTCCAACTCGAATTCAACACAAGGAATCCACTTGTTGCGGAGAAGGTAGTCAACTTCCTTAGCC AATTCAACGTCACTAAGGTCAGGGAGGTAAGATAGAGTCTCAAACTTCTTCTTTCCGATTGGTG GCCACACCTATAAATTCGAATTCCCAATTATTCTAAAGTATTGTTCAGTTGCACTAATTGCACA TGACAAAAGACAGTTTTCATTAATGACATTTACCTTCATGCAGCTAACTCTTCCTCCGTTGCTT GTGATGGAAGTAATGTCGTTGTTGGCCTTGCGGGTGACCGGGAAAGAAGCGGATGACTTCAAGC CGGTGAATGGAGCGACCATGGTGGCTTGAGCCGGGGAGGTAACCACAGCGGTGGAGGAGAACAT AGAGGAAGCCATTACTTCTTCTTGTTGTTTCTCTTCTTCTTTTGGTTTTTCTCTTACTTACTTG TTTGTCTGTTGGTTTTGTCATCTTTATATAGTGGGAACCGCTAGAGGCAACTAGCCCTAATGAT CAAAGGGGCCATAATTCATGATAACGTCGTTAATTGCCACAGGATTAAGGAAAGGTGTTGACAC CCTTATCGATTTGGACCACTAGGATAAGATCACGTGGCAGAAAACTCCATAATCTTATCTTTCT CATGTAAGGGTAGGAGTGAATGTGTATGGCTACTGGTCTCCACTTGATCGGTTGCTTTTGGCTC CTTTCAATTGGGAGGCGTCAAATTGTAGATATCGGTTAAATACTTTTTACATATAGATTAAAAA AATGATTAAATTTCTATTACCTTATATTAACACATTCATATTTTTATTTTTCCACTTGATAATC TTAAATAATAAGAATATAAGTATAATCTTTGAATTCATCCCACATTTTAAAAGTATAATTAAAT CAGACAGAGTTCATTCAAAATGGTTTTTAATTGGGAAATGTAAACTAGTATTTTGTGTTATTAT TTTCTATGTAGTATGTACGATCACTAGAACTTTTAGTCACATAATGGATATTAAATTAGAAAAC AATCCAAATGCTTGTGAATTTTCAGGTTTTACGGCTAATTAATATATTTCTGATGAACAAGAGG AACCCACGGCACCGTTCCTTTTGGAGCACAACGCAATTGCACTTACGGCCCACTTAAGCACGAA TGTGGCACCTCAAGATAATTCCCACCATGACAACTTAAGCACAAAAGCCATGACGGATCATGGG GAAATTTTATAACACACTTCAATGGATGGTGTGGATCCGAGGGAAGAATCCACACTCTAAGGCC ACATGAAGAAGCTCATATGGTCATGGGTCCACGAATACCACGTAAAAGCTCATATATGCCCCGG TCCAACCATATGAGAAGAAGTAGCCAAACCCATTCAAGAAACATTGATTACTTTTCATTGTAAA TAAGTGTTTTAGCTTTGAATGTATCGTAAACTATCTAATTTAATGTAAAACAGTTTCCAAATTA TAAATATTCATGCTTTGTTATCTCCATTATAAATTTCATTAATTCTTGCGTGTCCTTGCTTGCT ATGATGTCATCTCTAAATTTTTGGACTTGCGGCTCTAGAATTCATGTTTATGGATTTAAAATAT ACAGTTGGATTTTTCTATGTCATTTTAAAAAAGAAAATTTTTAGATTAGATTTTAAAAAGAGAA ATAAACGTGTTTACAACTTAATGCATACTTTTTTGAAAAACAAATCTAAAACAGAGGATTTGGT CTTAAGCTTGTCTTGTACCAAACCAAACTTGAAGACCTCCTTCATACTTCAAAGCTCCCCCCAC TCCGTATTGTGCTCAGCCGGTTCCAAACATTTTTGTCAATTAACTTGACAAGTTTCTCCATTGG TGATGGTTGTTCACCATGCTTTCAAGCATTTCTTTCTCCCCAAATCGAATGAACCGTGTTTTGG AAGACATACCGTAGAATGAAGATTTTTGTTTTGTCATAGTTTTTGTCACAAATGGTTTTAAAGA CTTCCCTCCAATATGTCGAGTACTTATCAAGTAGTATTCCCCTTATCAGCTTCTCCCATACCTT CTGCGAGTAAGAGCACCCAAAAAAAAGATGGTGTCTTGTTTCCATAGGTTCGTGACAGAACATG CAGTTTGTGTTCACTTGTTGATTCCATTTAAACATTCTGTCTCCCGTGGCAACTCTGTTTTTTG AAGCTAGCCAACTGAGAAAGGAGTAGTTAGGGTAAAGTAAAAGAAACAGATCCCTTTGTATCCG TCCATCGTAGGCTTAGTGTTGCGAATTTTTGAGCATGTATCTCTTGTGACAAACTTTTGACGGT AGTGATCATTTTTTCCTTTCCAAAGGGCTATGTAACTTTCATCTTCTCTGAGACGACATCTCTA TTTTCTACGTATTTTTACTACCTTTACTGGCTGTTTTTCATCTTTAAATTAAAATGTTCTAAAT CAACCCTCAAAATTTGATTGATGGACGCATCTTTGCTATGCTTTCAAGTGCGAAATGTACCTAA AAAGGGTACTCTTTCATTAGAGAACCAAAGGCAAGAATTAGGAGAGAAATTTAAAGGAACTAAA ATGTTAGTTAAAAGAGATAAAACGAATAAAAAGAGTTAAAAGTGATAAGAGCAGAAATGAAGTG ATATGAATAGAGATTTTTATAGAGGAAACGATAGAAAAACAAACCTTCAGTTTTTTCACTTTGG CAAAATAATTACTTAAATTTACATTGACCATACAAAATTGGGTTCCGGATAGTCAACATTGAAT ATTCCAGAAAAGGATTTAAGCATCAGTGAAGCTTGGGGGCTTGTAGGCAATGAAACTGATGCAT TGGACTTGACGGGTGTTGTCGAATCCGATGATCCTAATGAAGGCGCCCGGGTACTCCTTCTTGC ATTCTTCAACTTCCTTCAACACTTGAGCGGAGTCGGTGCATCCGAACAATGGAAGCTTCCACAT TGTCCAGTACCGTCCATCGTAGTATCCGGGAGTGTTTCCGTGCTCACGGTACACAAATCCGTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						1.06327968

Conservation Information
Conserved circRNAs	NA
PMCS	1.06327968

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

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

circRNA

Detail information of 5_circ_ag.9

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