Plant Circular RNA Database

Detail information of AT5G24530_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G24530_circ_g.1
					
						ID in PlantcircBase
						ath_circ_040227
					
						Alias
						At_ciR2560, Ath_circ_FC3496, AT5G24530_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 8381929-8382253  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ, CIRI2
					
						Parent gene
						
							AT5G24530						
					
						Parent gene annotation
						
							Protein DOWNY MILDEW RESISTANCE 6
							
						Parent gene strand
						+
					
						Alternative splicing
						
							5_circ_ag.3 AT5G23820_circ_g.1 AT5G23820_circ_g.2 5_circ_ag.3 5_circ_ag.4 5_circ_ag.5 AT5G23850_circ_g.1 AT5G23860_circ_g.1 AT5G23860_circ_g.2 AT5G23870_circ_g.1 AT5G23870_circ_g.2 AT5G23880_circ_g.1 AT5G23880_circ_g.2 AT5G23880_circ_g.3 AT5G23880_circ_g.4 AT5G23880_circ_g.5 AT5G23880_circ_g.6 AT5G23880_circ_g.7 AT5G23890_circ_g.1 AT5G23890_circ_g.2 AT5G23890_circ_g.3 AT5G23890_circ_g.4 AT5G23900_circ_g.1 AT5G23900_circ_g.2 AT5G23900_circ_g.3 AT5G23900_circ_g.4 AT5G23910_circ_g.1 AT5G23910_circ_g.2 AT5G23910_circ_g.3 AT5G23910_circ_g.4 AT5G23910_circ_g.5 AT5G23910_circ_g.6 AT5G23910_circ_g.7 AT5G23910_circ_g.8 AT5G23910_circ_g.9 AT5G23910_circ_g.10 AT5G23960_circ_g.1 5_circ_ag.2 AT5G24000_circ_g.1 AT5G24000_circ_g.2 AT5G24000_circ_g.3 AT5G24000_circ_g.4 AT5G24030_circ_g.1 AT5G24060_circ_g.1 AT5G24060_circ_g.2 AT5G24080_circ_g.1 AT5G24090_circ_g.1 AT5G24120_circ_g.1 AT5G24120_circ_g.2 AT5G24120_circ_g.3 AT5G24120_circ_g.4 5_circ_ag.5 AT5G24150_circ_g.1 AT5G24150_circ_g.2 AT5G24150_circ_g.3 5_circ_ag.4 5_circ_ag.5 AT5G24150_circ_g.6 AT5G24150_circ_g.7 5_circ_ag.8 AT5G24150_circ_g.9 AT5G24150_circ_g.10 AT5G24150_circ_g.11 AT5G24150_circ_g.12 5_circ_ag.13 5_circ_ag.14 AT5G24150_circ_g.15 AT5G24160_circ_g.1 AT5G24165_circ_g.1 AT5G24165_circ_g.2 AT5G24170_circ_g.1 5_circ_igg.2 5_circ_igg.3 AT5G24206_circ_g.1 AT5G24210_circ_g.1 AT5G24210_circ_g.2 AT5G24230_circ_g.1 AT5G24260_circ_g.1 AT5G24260_circ_g.2 AT5G24260_circ_g.3 AT5G24270_circ_g.1 AT5G24270_circ_g.2 AT5G24280_circ_g.1 AT5G24280_circ_g.2 AT5G24280_circ_g.3 AT5G24280_circ_g.4 AT5G24290_circ_g.1 AT5G24290_circ_g.2 AT5G24300_circ_g.1 AT5G24300_circ_g.2 AT5G24310_circ_g.1 AT5G24314_circ_g.1 AT5G24318_circ_g.1 AT5G24320_circ_g.1 AT5G24330_circ_g.1 AT5G24330_circ_g.2 AT5G24350_circ_g.1 AT5G24350_circ_g.2 AT5G24350_circ_g.3 AT5G24350_circ_g.4 AT5G24350_circ_g.5 AT5G24350_circ_g.6 AT5G24350_circ_g.7 5_circ_ag.8 5_circ_ag.9 5_circ_ag.10 AT5G24352_circ_g.1 AT5G24360_circ_g.1 AT5G24400_circ_g.1 AT5G24430_circ_g.1 AT5G24430_circ_g.2 AT5G24430_circ_g.3 AT5G24430_circ_g.4 AT5G24430_circ_g.5 AT5G24450_circ_g.1 AT5G24450_circ_g.2 AT5G24450_circ_g.3 AT5G24450_circ_g.4 AT5G24450_circ_g.5 AT5G24450_circ_g.6 AT5G24450_circ_g.7 AT5G24450_circ_g.8 AT5G24470_circ_g.1 AT5G24490_circ_g.1 AT5G24490_circ_g.2 AT5G24490_circ_g.3 AT5G24490_circ_g.4 AT5G24490_circ_g.5 AT5G24490_circ_g.6 AT5G24520_circ_g.1 5_circ_igg.2 AT5G24580_circ_g.1 AT5G24580_circ_g.2 AT5G24580_circ_g.3 AT5G24590_circ_g.1 5_circ_ig.2 5_circ_igg.3 5_circ_igg.4 5_circ_igg.5 5_circ_igg.6 5_circ_igg.7 AT5G24620_circ_g.1 AT5G24620_circ_g.2 AT5G24620_circ_g.3 AT5G24620_circ_g.4 AT5G24620_circ_g.5 AT5G24630_circ_g.1 AT5G24630_circ_g.2 AT5G24660_circ_g.1 AT5G24670_circ_g.1 AT5G24670_circ_g.2 AT5G24670_circ_g.3 AT5G24670_circ_g.4 AT5G24670_circ_g.5 AT5G24670_circ_g.6 AT5G24670_circ_g.7 AT5G24670_circ_g.8 AT5G24670_circ_g.9 AT5G24680_circ_g.1 AT5G24690_circ_g.1 AT5G24690_circ_g.2 AT5G24690_circ_g.3 AT5G24690_circ_g.4 						
					
						Support reads
						3/1
					
						Tissues
						leaf/root
					
						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
						AT5G24530.1:1

General Information
CircRNA Name	AT5G24530_circ_g.1
ID in PlantcircBase	ath_circ_040227
Alias	At_ciR2560, Ath_circ_FC3496, AT5G24530_C1
Organism	Arabidpsis thaliana
Position	chr5: 8381929-8382253 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ, CIRI2
Parent gene	AT5G24530
Parent gene annotation	Protein DOWNY MILDEW RESISTANCE 6
Parent gene strand	+
Alternative splicing	5_circ_ag.3 AT5G23820_circ_g.1 AT5G23820_circ_g.2 5_circ_ag.3 5_circ_ag.4 5_circ_ag.5 AT5G23850_circ_g.1 AT5G23860_circ_g.1 AT5G23860_circ_g.2 AT5G23870_circ_g.1 AT5G23870_circ_g.2 AT5G23880_circ_g.1 AT5G23880_circ_g.2 AT5G23880_circ_g.3 AT5G23880_circ_g.4 AT5G23880_circ_g.5 AT5G23880_circ_g.6 AT5G23880_circ_g.7 AT5G23890_circ_g.1 AT5G23890_circ_g.2 AT5G23890_circ_g.3 AT5G23890_circ_g.4 AT5G23900_circ_g.1 AT5G23900_circ_g.2 AT5G23900_circ_g.3 AT5G23900_circ_g.4 AT5G23910_circ_g.1 AT5G23910_circ_g.2 AT5G23910_circ_g.3 AT5G23910_circ_g.4 AT5G23910_circ_g.5 AT5G23910_circ_g.6 AT5G23910_circ_g.7 AT5G23910_circ_g.8 AT5G23910_circ_g.9 AT5G23910_circ_g.10 AT5G23960_circ_g.1 5_circ_ag.2 AT5G24000_circ_g.1 AT5G24000_circ_g.2 AT5G24000_circ_g.3 AT5G24000_circ_g.4 AT5G24030_circ_g.1 AT5G24060_circ_g.1 AT5G24060_circ_g.2 AT5G24080_circ_g.1 AT5G24090_circ_g.1 AT5G24120_circ_g.1 AT5G24120_circ_g.2 AT5G24120_circ_g.3 AT5G24120_circ_g.4 5_circ_ag.5 AT5G24150_circ_g.1 AT5G24150_circ_g.2 AT5G24150_circ_g.3 5_circ_ag.4 5_circ_ag.5 AT5G24150_circ_g.6 AT5G24150_circ_g.7 5_circ_ag.8 AT5G24150_circ_g.9 AT5G24150_circ_g.10 AT5G24150_circ_g.11 AT5G24150_circ_g.12 5_circ_ag.13 5_circ_ag.14 AT5G24150_circ_g.15 AT5G24160_circ_g.1 AT5G24165_circ_g.1 AT5G24165_circ_g.2 AT5G24170_circ_g.1 5_circ_igg.2 5_circ_igg.3 AT5G24206_circ_g.1 AT5G24210_circ_g.1 AT5G24210_circ_g.2 AT5G24230_circ_g.1 AT5G24260_circ_g.1 AT5G24260_circ_g.2 AT5G24260_circ_g.3 AT5G24270_circ_g.1 AT5G24270_circ_g.2 AT5G24280_circ_g.1 AT5G24280_circ_g.2 AT5G24280_circ_g.3 AT5G24280_circ_g.4 AT5G24290_circ_g.1 AT5G24290_circ_g.2 AT5G24300_circ_g.1 AT5G24300_circ_g.2 AT5G24310_circ_g.1 AT5G24314_circ_g.1 AT5G24318_circ_g.1 AT5G24320_circ_g.1 AT5G24330_circ_g.1 AT5G24330_circ_g.2 AT5G24350_circ_g.1 AT5G24350_circ_g.2 AT5G24350_circ_g.3 AT5G24350_circ_g.4 AT5G24350_circ_g.5 AT5G24350_circ_g.6 AT5G24350_circ_g.7 5_circ_ag.8 5_circ_ag.9 5_circ_ag.10 AT5G24352_circ_g.1 AT5G24360_circ_g.1 AT5G24400_circ_g.1 AT5G24430_circ_g.1 AT5G24430_circ_g.2 AT5G24430_circ_g.3 AT5G24430_circ_g.4 AT5G24430_circ_g.5 AT5G24450_circ_g.1 AT5G24450_circ_g.2 AT5G24450_circ_g.3 AT5G24450_circ_g.4 AT5G24450_circ_g.5 AT5G24450_circ_g.6 AT5G24450_circ_g.7 AT5G24450_circ_g.8 AT5G24470_circ_g.1 AT5G24490_circ_g.1 AT5G24490_circ_g.2 AT5G24490_circ_g.3 AT5G24490_circ_g.4 AT5G24490_circ_g.5 AT5G24490_circ_g.6 AT5G24520_circ_g.1 5_circ_igg.2 AT5G24580_circ_g.1 AT5G24580_circ_g.2 AT5G24580_circ_g.3 AT5G24590_circ_g.1 5_circ_ig.2 5_circ_igg.3 5_circ_igg.4 5_circ_igg.5 5_circ_igg.6 5_circ_igg.7 AT5G24620_circ_g.1 AT5G24620_circ_g.2 AT5G24620_circ_g.3 AT5G24620_circ_g.4 AT5G24620_circ_g.5 AT5G24630_circ_g.1 AT5G24630_circ_g.2 AT5G24660_circ_g.1 AT5G24670_circ_g.1 AT5G24670_circ_g.2 AT5G24670_circ_g.3 AT5G24670_circ_g.4 AT5G24670_circ_g.5 AT5G24670_circ_g.6 AT5G24670_circ_g.7 AT5G24670_circ_g.8 AT5G24670_circ_g.9 AT5G24680_circ_g.1 AT5G24690_circ_g.1 AT5G24690_circ_g.2 AT5G24690_circ_g.3 AT5G24690_circ_g.4
Support reads	3/1
Tissues	leaf/root
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	AT5G24530.1:1

			
						 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  
						
							CACTACTGTTTGCGGTCTCCAGATCTTGATCGACGGTCAGTGGTTCGCCGTTAATCCACATCCT
GATGCTTTTGTCATCAACATAGGTGACCAGTTACAGggaaatagtaagtaaatacagtagagaa
gtaagagaagtgggatttaaaatagaggaattaatatcagagagcttaggtttagaaaaagatt
acatgaag

						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: 325
Transcript exons: 8381929-8382253
GGAAATAGTAAGTAAATACAGTAGAGAAGTAAGAGAAGTGGGATTTAAAATAGAGGAATTAATA
TCAGAGAGCTTAGGTTTAGAAAAAGATTACATGAAGAAAGTGCTTGGTGAACAAGGTCAACACA
TGGCAGTCAACTATTATCCTCCATGTCCTGAACCTGAGCTCACTTACGGTTTACCTGCTCATAC
CGACCCAAACGCCCTAACCATTCTTCTTCAAGACACTACTGTTTGCGGTCTCCAGATCTTGATC
GACGGTCAGTGGTTCGCCGTTAATCCACATCCTGATGCTTTTGTCATCAACATAGGTGACCAGT
TACAG
						
						Genomic sequence
						
							GGAAATAGTAAGTAAATACAGTAGAGAAGTAAGAGAAGTGGGATTTAAAATAGAGGAATTAATA
TCAGAGAGCTTAGGTTTAGAAAAAGATTACATGAAGAAAGTGCTTGGTGAACAAGGTCAACACA
TGGCAGTCAACTATTATCCTCCATGTCCTGAACCTGAGCTCACTTACGGTTTACCTGCTCATAC
CGACCCAAACGCCCTAACCATTCTTCTTCAAGACACTACTGTTTGCGGTCTCCAGATCTTGATC
GACGGTCAGTGGTTCGCCGTTAATCCACATCCTGATGCTTTTGTCATCAACATAGGTGACCAGT
TACAG

Sequences
Splice junction sequence	CACTACTGTTTGCGGTCTCCAGATCTTGATCGACGGTCAGTGGTTCGCCGTTAATCCACATCCT GATGCTTTTGTCATCAACATAGGTGACCAGTTACAGggaaatagtaagtaaatacagtagagaa gtaagagaagtgggatttaaaatagaggaattaatatcagagagcttaggtttagaaaaagatt acatgaag
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: 325 Transcript exons: 8381929-8382253 GGAAATAGTAAGTAAATACAGTAGAGAAGTAAGAGAAGTGGGATTTAAAATAGAGGAATTAATA TCAGAGAGCTTAGGTTTAGAAAAAGATTACATGAAGAAAGTGCTTGGTGAACAAGGTCAACACA TGGCAGTCAACTATTATCCTCCATGTCCTGAACCTGAGCTCACTTACGGTTTACCTGCTCATAC CGACCCAAACGCCCTAACCATTCTTCTTCAAGACACTACTGTTTGCGGTCTCCAGATCTTGATC GACGGTCAGTGGTTCGCCGTTAATCCACATCCTGATGCTTTTGTCATCAACATAGGTGACCAGT TACAG
Genomic sequence	GGAAATAGTAAGTAAATACAGTAGAGAAGTAAGAGAAGTGGGATTTAAAATAGAGGAATTAATA TCAGAGAGCTTAGGTTTAGAAAAAGATTACATGAAGAAAGTGCTTGGTGAACAAGGTCAACACA TGGCAGTCAACTATTATCCTCCATGTCCTGAACCTGAGCTCACTTACGGTTTACCTGCTCATAC CGACCCAAACGCCCTAACCATTCTTCTTCAAGACACTACTGTTTGCGGTCTCCAGATCTTGATC GACGGTCAGTGGTTCGCCGTTAATCCACATCCTGATGCTTTTGTCATCAACATAGGTGACCAGT TACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.46699628

Conservation Information
Conserved circRNAs	NA
PMCS	0.46699628

			
						 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
						Ye et al., 2015;Chu et al., 2017;Chen et al., 2017a;Zhang et al., 2019

circRNA

Detail information of AT5G24530_circ_g.1

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