Plant Circular RNA Database

Detail information of AT4G24450_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT4G24450_circ_g.1
					
						ID in PlantcircBase
						ath_circ_032555
					
						Alias
						AT4G24450_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 12635480-12637376  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						MapSplice, CIRI2
					
						Parent gene
						
							AT4G24450						
					
						Parent gene annotation
						
							Alpha-glucan water dikinase 2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						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
						AT4G24450.3:9
AT4G24450.1:9
AT4G24450.2:9

General Information
CircRNA Name	AT4G24450_circ_g.1
ID in PlantcircBase	ath_circ_032555
Alias	AT4G24450_C1
Organism	Arabidpsis thaliana
Position	chr4: 12635480-12637376 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	MapSplice, CIRI2
Parent gene	AT4G24450
Parent gene annotation	Alpha-glucan water dikinase 2
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	leaf
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	AT4G24450.3:9 AT4G24450.1:9 AT4G24450.2:9

			
						 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  
						
							GATACCACCACCTGACGTGTTACCTGAGAAATCAAAATTTGTTCACGGAGCATGTCAAACACAA
TTTACCGATATGTCGAGCAGAGAACACTCTTATCAGgaaactacttgtgtgtattttgaagagc
ttctatagatttgatacgtttaacgcataaaaacagctcaagtttgtgaagtggaacaaggtaa
acatatgg

									
								

					

						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: 1080
Transcript exons: 12635480-12635567,12635756-12635814,12635888-12635997,12
636074-12636137,12636218-12636309,12636402-12636552,1263
6647-12636952,12637089-12637199,12637278-12637376
GAAACTACTTGTGTGTATTTTGAAGAGCTTCTATAGATTTGATACGTTTAACGCATAAAAACAG
CTCAAGTTTGTGAAGTGGAACAAGCTGCCATGGCAACCTCTAAATCCCAACAATTCCAGCTAAT
TGAAGGGATGGAGCTTCAGATCACCGTCACTGGATTGCCGAATGGGAGCAGTGTAAGAGCTGAG
TTTCACCTGAAGAACTGCACTCGCGCATGGATTCTTCATTGGGGTTGTATTTACCAAGGAAATA
ACCATTGGTATATCCCATCTGAACATTCCTCGAAGCAAGGTGCATTGCAGACTACCTTTGTGAA
GAGTGGGGATGCATATGTAGTGATCCTTGAGTTGCGGGATCCAAGGGTACGCGCAATTGAATTT
GTTTTGAAAGATGGTAGCCATAACAGATGGTTGAGACAGCATAATGGAAACTTCCGTGTTGAGA
TTCCCTGGAATGATCTGCATGCTCATCATCGGATACCGAAGACTCTGATAGAAAGAAGAGCACA
TAAGATATGGGACCGGAAGGGACGACCACAAAGCTCTGCACGTGAACAACAGATAGACTATGAC
AATGCAGTAAGAGAGCTCCACGCCGAGCTCGCTAGAGGAATATCTTTAGACGAACTTCAGGCTA
ACTCTACAGTACCAGTGGAGAAAGAAGAAACCAGTGAGCCACATCACACAATGATCCAATCATA
TCGCCGGAAGCATGATGTTCAGAAATGGTTACAGAAATATACGGAACCAATCAACAGAAGTGGA
AGTGTGAAAAGTTCAGCCCTTGCAGAACTCTCCAAGAGATCTGTGGGCCAAGAAAATCTAGTTT
CACAGAAAAGCTTTCATGTCAGAAACTACGAGATCACGGTCCTCCAAAGGGATGTTAAGGGAGA
TTGTCGCTTATGGATTGCCACGAACATGGCAGGTCCAACAGTTCTCCATTGGGGAGTCGCAAAG
TCATCTGCAGGAGAGTGGTTGATACCACCACCTGACGTGTTACCTGAGAAATCAAAATTTGTTC
ACGGAGCATGTCAAACACAATTTACCGATATGTCGAGCAGAGAACACTCTTATCAG
						
					

						Genomic sequence
						
							GAAACTACTTGTGTGTATTTTGAAGAGCTTCTATAGATTTGATACGTTTAACGCATAAAAACAG
CTCAAGTTTGTGAAGTGGAACAAGGTAAACATATGGAAATAAGTTGGCTGGACTATACAGTAAA
TGATGTTGTTGTTACTCCGATTCTGTTCCAAGATGACAGTAATGATCAGTGGTCCATCAACTAG
AACTTAAATTTTATTTTTTGGAACTATCTGAGATCCTTCATAAGTTTAGTTGAGGCTCACCTGT
TACCTCTTTTTTATGAATAGCTGCCATGGCAACCTCTAAATCCCAACAATTCCAGCTAATTGAA
GGGATGGAGCTTCAGGTCTGTTCTTTCTTCTGTCCTCCTGGAATTTAAAATATCAGATTCTGGA
CTTAATCTTACGTATCGATAATAGATCACCGTCACTGGATTGCCGAATGGGAGCAGTGTAAGAG
CTGAGTTTCACCTGAAGAACTGCACTCGCGCATGGATTCTTCATTGGGGTTGTATTTACCAAGG
AAATAAGTGAGTAATGGATGATCTATAAGATAGAATTTATACTTCAAAAATATCTGTTTGTTTT
GACTTATGTTATCTACAGCCATTGGTATATCCCATCTGAACATTCCTCGAAGCAAGGTGCATTG
CAGACTACCTTTGTGAAGGTCCCTTTCATTTCTTGTTTATCTACAAGGTTTTTCTAGAAGTCCA
TATTTTTCTGCAAAGTGTTTCTTCCCAACTGCAGAGTGGGGATGCATATGTAGTGATCCTTGAG
TTGCGGGATCCAAGGGTACGCGCAATTGAATTTGTTTTGAAAGATGGTAGCCATAACAGATGGT
GCGTATTTCCTTCTTTTCTATAACAGAGTCATGCTTGTGACTTGTGAGGGATGAACGGGAATGC
ACCTTGTTGCCTAATGGAAATTTTAGGTTGAGACAGCATAATGGAAACTTCCGTGTTGAGATTC
CCTGGAATGATCTGCATGCTCATCATCGGATACCGAAGACTCTGATAGAAAGAAGAGCACATAA
GATATGGGACCGGAAGGGACGACCACAAAGCTCTGCACGTGAACAACAGGTAAAAATTGCTTTA
ATGTGTGCTTTAGATTAGCTCATCTATGTGTTTATGATTTGTAAAGGCTGTCTCTCTTTTCTTG
CATGTGTCATTTCAGATAGACTATGACAATGCAGTAAGAGAGCTCCACGCCGAGCTCGCTAGAG
GAATATCTTTAGACGAACTTCAGGCTAACTCTACAGTACCAGTGGAGAAAGAAGAAACCAGTGA
GCCACATCACACAATGATCCAATCATATCGCCGGAAGCATGATGTTCAGAAATGGTTACAGAAA
TATACGGAACCAATCAACAGAAGTGGAAGTGTGAAAAGTTCAGCCCTTGCAGAACTCTCCAAGA
GATCTGTGGGCCAAGAAAATCTAGTTTCACAGAAAAGCTTTCATGTCAGAAACTACGAGATCAC
GGTTCGTTTTATTATATTTTTTGTTCAACAAGATTTTGTAAATATTGTTACTCTCCAACAAGAT
TTTATAATACAACTACTTCGTACAGTCATTTTCATTATTGGTAGTTTTTTAACAACTTCTAGAT
AATATCTAGGTCCTCCAAAGGGATGTTAAGGGAGATTGTCGCTTATGGATTGCCACGAACATGG
CAGGTCCAACAGTTCTCCATTGGGGAGTCGCAAAGTCATCTGCAGGAGAGTGGTTGGTAAGATG
TTCTTGCTTCTGTAGATATTCCTTAATAGAATCTTCTCAATCAGAGAATGATTTTTATAACTCT
AAATAGATACCACCACCTGACGTGTTACCTGAGAAATCAAAATTTGTTCACGGAGCATGTCAAA
CACAATTTACCGATATGTCGAGCAGAGAACACTCTTATCAG
						
					

			
		

Sequences
Splice junction sequence	GATACCACCACCTGACGTGTTACCTGAGAAATCAAAATTTGTTCACGGAGCATGTCAAACACAA TTTACCGATATGTCGAGCAGAGAACACTCTTATCAGgaaactacttgtgtgtattttgaagagc ttctatagatttgatacgtttaacgcataaaaacagctcaagtttgtgaagtggaacaaggtaa acatatgg
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: 1080 Transcript exons: 12635480-12635567,12635756-12635814,12635888-12635997,12 636074-12636137,12636218-12636309,12636402-12636552,1263 6647-12636952,12637089-12637199,12637278-12637376 GAAACTACTTGTGTGTATTTTGAAGAGCTTCTATAGATTTGATACGTTTAACGCATAAAAACAG CTCAAGTTTGTGAAGTGGAACAAGCTGCCATGGCAACCTCTAAATCCCAACAATTCCAGCTAAT TGAAGGGATGGAGCTTCAGATCACCGTCACTGGATTGCCGAATGGGAGCAGTGTAAGAGCTGAG TTTCACCTGAAGAACTGCACTCGCGCATGGATTCTTCATTGGGGTTGTATTTACCAAGGAAATA ACCATTGGTATATCCCATCTGAACATTCCTCGAAGCAAGGTGCATTGCAGACTACCTTTGTGAA GAGTGGGGATGCATATGTAGTGATCCTTGAGTTGCGGGATCCAAGGGTACGCGCAATTGAATTT GTTTTGAAAGATGGTAGCCATAACAGATGGTTGAGACAGCATAATGGAAACTTCCGTGTTGAGA TTCCCTGGAATGATCTGCATGCTCATCATCGGATACCGAAGACTCTGATAGAAAGAAGAGCACA TAAGATATGGGACCGGAAGGGACGACCACAAAGCTCTGCACGTGAACAACAGATAGACTATGAC AATGCAGTAAGAGAGCTCCACGCCGAGCTCGCTAGAGGAATATCTTTAGACGAACTTCAGGCTA ACTCTACAGTACCAGTGGAGAAAGAAGAAACCAGTGAGCCACATCACACAATGATCCAATCATA TCGCCGGAAGCATGATGTTCAGAAATGGTTACAGAAATATACGGAACCAATCAACAGAAGTGGA AGTGTGAAAAGTTCAGCCCTTGCAGAACTCTCCAAGAGATCTGTGGGCCAAGAAAATCTAGTTT CACAGAAAAGCTTTCATGTCAGAAACTACGAGATCACGGTCCTCCAAAGGGATGTTAAGGGAGA TTGTCGCTTATGGATTGCCACGAACATGGCAGGTCCAACAGTTCTCCATTGGGGAGTCGCAAAG TCATCTGCAGGAGAGTGGTTGATACCACCACCTGACGTGTTACCTGAGAAATCAAAATTTGTTC ACGGAGCATGTCAAACACAATTTACCGATATGTCGAGCAGAGAACACTCTTATCAG
Genomic sequence	GAAACTACTTGTGTGTATTTTGAAGAGCTTCTATAGATTTGATACGTTTAACGCATAAAAACAG CTCAAGTTTGTGAAGTGGAACAAGGTAAACATATGGAAATAAGTTGGCTGGACTATACAGTAAA TGATGTTGTTGTTACTCCGATTCTGTTCCAAGATGACAGTAATGATCAGTGGTCCATCAACTAG AACTTAAATTTTATTTTTTGGAACTATCTGAGATCCTTCATAAGTTTAGTTGAGGCTCACCTGT TACCTCTTTTTTATGAATAGCTGCCATGGCAACCTCTAAATCCCAACAATTCCAGCTAATTGAA GGGATGGAGCTTCAGGTCTGTTCTTTCTTCTGTCCTCCTGGAATTTAAAATATCAGATTCTGGA CTTAATCTTACGTATCGATAATAGATCACCGTCACTGGATTGCCGAATGGGAGCAGTGTAAGAG CTGAGTTTCACCTGAAGAACTGCACTCGCGCATGGATTCTTCATTGGGGTTGTATTTACCAAGG AAATAAGTGAGTAATGGATGATCTATAAGATAGAATTTATACTTCAAAAATATCTGTTTGTTTT GACTTATGTTATCTACAGCCATTGGTATATCCCATCTGAACATTCCTCGAAGCAAGGTGCATTG CAGACTACCTTTGTGAAGGTCCCTTTCATTTCTTGTTTATCTACAAGGTTTTTCTAGAAGTCCA TATTTTTCTGCAAAGTGTTTCTTCCCAACTGCAGAGTGGGGATGCATATGTAGTGATCCTTGAG TTGCGGGATCCAAGGGTACGCGCAATTGAATTTGTTTTGAAAGATGGTAGCCATAACAGATGGT GCGTATTTCCTTCTTTTCTATAACAGAGTCATGCTTGTGACTTGTGAGGGATGAACGGGAATGC ACCTTGTTGCCTAATGGAAATTTTAGGTTGAGACAGCATAATGGAAACTTCCGTGTTGAGATTC CCTGGAATGATCTGCATGCTCATCATCGGATACCGAAGACTCTGATAGAAAGAAGAGCACATAA GATATGGGACCGGAAGGGACGACCACAAAGCTCTGCACGTGAACAACAGGTAAAAATTGCTTTA ATGTGTGCTTTAGATTAGCTCATCTATGTGTTTATGATTTGTAAAGGCTGTCTCTCTTTTCTTG CATGTGTCATTTCAGATAGACTATGACAATGCAGTAAGAGAGCTCCACGCCGAGCTCGCTAGAG GAATATCTTTAGACGAACTTCAGGCTAACTCTACAGTACCAGTGGAGAAAGAAGAAACCAGTGA GCCACATCACACAATGATCCAATCATATCGCCGGAAGCATGATGTTCAGAAATGGTTACAGAAA TATACGGAACCAATCAACAGAAGTGGAAGTGTGAAAAGTTCAGCCCTTGCAGAACTCTCCAAGA GATCTGTGGGCCAAGAAAATCTAGTTTCACAGAAAAGCTTTCATGTCAGAAACTACGAGATCAC GGTTCGTTTTATTATATTTTTTGTTCAACAAGATTTTGTAAATATTGTTACTCTCCAACAAGAT TTTATAATACAACTACTTCGTACAGTCATTTTCATTATTGGTAGTTTTTTAACAACTTCTAGAT AATATCTAGGTCCTCCAAAGGGATGTTAAGGGAGATTGTCGCTTATGGATTGCCACGAACATGG CAGGTCCAACAGTTCTCCATTGGGGAGTCGCAAAGTCATCTGCAGGAGAGTGGTTGGTAAGATG TTCTTGCTTCTGTAGATATTCCTTAATAGAATCTTCTCAATCAGAGAATGATTTTTATAACTCT AAATAGATACCACCACCTGACGTGTTACCTGAGAAATCAAAATTTGTTCACGGAGCATGTCAAA CACAATTTACCGATATGTCGAGCAGAGAACACTCTTATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.199965942

Conservation Information
Conserved circRNAs	NA
PMCS	0.199965942

			
						 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
						response to drought stress

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	response to drought stress

			
						 Other Information
					
						References
						Liu et al., 2017;Zhang et al., 2019

circRNA

Detail information of AT4G24450_circ_g.1

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