Plant Circular RNA Database

Detail information of AT5G23720_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G23720_circ_g.1
					
						ID in PlantcircBase
						ath_circ_040093
					
						Alias
						At_ciR2814, Ath_circ_FC3483, AT5G23720_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 7998521-7999682  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ, CIRI2
					
						Parent gene
						
							AT5G23720						
					
						Parent gene annotation
						
							Dual specificity protein phosphatase PHS1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						3/1/2
					
						Tissues
						leaf/root/seedlings
					
						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
						AT5G23720.1:5
AT5G23720.3:5
AT5G23720.2:5

General Information
CircRNA Name	AT5G23720_circ_g.1
ID in PlantcircBase	ath_circ_040093
Alias	At_ciR2814, Ath_circ_FC3483, AT5G23720_C1
Organism	Arabidpsis thaliana
Position	chr5: 7998521-7999682 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ, CIRI2
Parent gene	AT5G23720
Parent gene annotation	Dual specificity protein phosphatase PHS1
Parent gene strand	+
Alternative splicing	NA
Support reads	3/1/2
Tissues	leaf/root/seedlings
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	AT5G23720.1:5 AT5G23720.3:5 AT5G23720.2:5

			
						 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  
						
							CACAAGCTAAAGCGACTTCGGAGGGGGACGAGGTTGGTGAAATGACATGTTCAGAACTTCTGGA
AGCCCTTGAGCTCAGCCGTTGTCTTCTCTTAATGAGgaaaaagacgaagagaaagatctatacc
ttgttcacgacgagcacgagtctcctcttcctctcaccgtcacttctcgtgtaaatttctccga
tcctaaat

									
								

					

						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: 761
Transcript exons: 7998521-7998598,7998689-7998831,7998967-7999168,7999241-
7999417,7999522-7999682
GAAAAAGACGAAGAGAAAGATCTATACCTTGTTCACGACGAGCACGAGTCTCCTCTTCCTCTCA
CCGTCACTTCTCGTGTTTTGTACATGTTAGGAGATATAGCATCTGGTCCAGCTTATAGGTTTAC
TCAATGGTTGGATTTAGTTCGTAAACGAAGTGCTACTTACGGATCCTCTGGCTTCCCTCACCGC
CTTCACCGCATCGATGATATGGTCACTAGTGCAGGAGAGAGGAATACTGATCCTAAAAGTCCAC
CAAGTAGGCAGAGTTCAGAGATTAGTTTGTGGGAAAGGCTTGGTAAAGCTTCTACTGTGGATAT
TGATTCGAGCTGTTTTTCATGGAATATGTTGTCTTCACTTCATCATACTGAACATAGTAGTAGC
ACTGATCATTCTGAAGAAGACCAGAGTAAACCACTTGAGGTTACTGTGAATTCTGGAGGAGTTG
TTTTCTTTGCCCTGTTCAATAGTTCCAGCTCTGAAGATGCCTCTCGTAAGGAAGAAGCAGCAGT
TATTAAATTTGCATCATCGAGGATGGCCACGCAATCAGAACGTCTAGGTTATGAGTTTTCCAAG
TGGCTAGGGGTGCAGATTCCGCAGGCTAGAGTAATTCACAGCTGTAATCCTGAGTGGACACTGA
TCAAAGAAGCCACTGAAAAAGCACAAGCTAAAGCGACTTCGGAGGGGGACGAGGTTGGTGAAAT
GACATGTTCAGAACTTCTGGAAGCCCTTGAGCTCAGCCGTTGTCTTCTCTTAATGAG
						
					

						Genomic sequence
						
							GAAAAAGACGAAGAGAAAGATCTATACCTTGTTCACGACGAGCACGAGTCTCCTCTTCCTCTCA
CCGTCACTTCTCGTGTAAATTTCTCCGATCCTAAATTCGTTTTAGGTTTTAGGGTTATATTAAT
AGTCTCGTCTTAAAAATTGGAAGACTTTTGGAATTTGCAGGTTTTGTACATGTTAGGAGATATA
GCATCTGGTCCAGCTTATAGGTTTACTCAATGGTTGGATTTAGTTCGTAAACGAAGTGCTACTT
ACGGATCCTCTGGCTTCCCTCACCGCCTTCACCGCATCGATGATATGGTCACTAGGTTAACACT
TTCTCTGACTTTTTGTCAAGTACTTGGTTTGTTGATTATGATTTTGGAATCTTATGAGTATATC
AGAACAAAGGTTTCTAAATTAGGATATTAGTCTTCATGTCAGTTGATACAAGTATTATCCAGTG
CAGGAGAGAGGAATACTGATCCTAAAAGTCCACCAAGTAGGCAGAGTTCAGAGATTAGTTTGTG
GGAAAGGCTTGGTAAAGCTTCTACTGTGGATATTGATTCGAGCTGTTTTTCATGGAATATGTTG
TCTTCACTTCATCATACTGAACATAGTAGTAGCACTGATCATTCTGAAGAAGACCAGAGTAAAC
CACTTGAGGTATATATATCATTATGATCTTGGACTGGTGATGCTAGGAGGATCTTTTGACACTA
TTAGATGTCTGTACAGGTTACTGTGAATTCTGGAGGAGTTGTTTTCTTTGCCCTGTTCAATAGT
TCCAGCTCTGAAGATGCCTCTCGTAAGGAAGAAGCAGCAGTTATTAAATTTGCATCATCGAGGA
TGGCCACGCAATCAGAACGTCTAGGTTATGAGTTTTCCAAGTGGCTAGGGGTGCAGATTCCGCA
GGTGCTTCTTTTCTTTCTTGTAGTTTTTTAAAAATGTAGTAATGGTTTTGCTCATTTCACTTTC
TTTCTAGAATTTTCAAGTAATGAGTAATCATCATGCGACAGGCTAGAGTAATTCACAGCTGTAA
TCCTGAGTGGACACTGATCAAAGAAGCCACTGAAAAAGCACAAGCTAAAGCGACTTCGGAGGGG
GACGAGGTTGGTGAAATGACATGTTCAGAACTTCTGGAAGCCCTTGAGCTCAGCCGTTGTCTTC
TCTTAATGAG
						
					

			
		

Sequences
Splice junction sequence	CACAAGCTAAAGCGACTTCGGAGGGGGACGAGGTTGGTGAAATGACATGTTCAGAACTTCTGGA AGCCCTTGAGCTCAGCCGTTGTCTTCTCTTAATGAGgaaaaagacgaagagaaagatctatacc ttgttcacgacgagcacgagtctcctcttcctctcaccgtcacttctcgtgtaaatttctccga tcctaaat
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: 761 Transcript exons: 7998521-7998598,7998689-7998831,7998967-7999168,7999241- 7999417,7999522-7999682 GAAAAAGACGAAGAGAAAGATCTATACCTTGTTCACGACGAGCACGAGTCTCCTCTTCCTCTCA CCGTCACTTCTCGTGTTTTGTACATGTTAGGAGATATAGCATCTGGTCCAGCTTATAGGTTTAC TCAATGGTTGGATTTAGTTCGTAAACGAAGTGCTACTTACGGATCCTCTGGCTTCCCTCACCGC CTTCACCGCATCGATGATATGGTCACTAGTGCAGGAGAGAGGAATACTGATCCTAAAAGTCCAC CAAGTAGGCAGAGTTCAGAGATTAGTTTGTGGGAAAGGCTTGGTAAAGCTTCTACTGTGGATAT TGATTCGAGCTGTTTTTCATGGAATATGTTGTCTTCACTTCATCATACTGAACATAGTAGTAGC ACTGATCATTCTGAAGAAGACCAGAGTAAACCACTTGAGGTTACTGTGAATTCTGGAGGAGTTG TTTTCTTTGCCCTGTTCAATAGTTCCAGCTCTGAAGATGCCTCTCGTAAGGAAGAAGCAGCAGT TATTAAATTTGCATCATCGAGGATGGCCACGCAATCAGAACGTCTAGGTTATGAGTTTTCCAAG TGGCTAGGGGTGCAGATTCCGCAGGCTAGAGTAATTCACAGCTGTAATCCTGAGTGGACACTGA TCAAAGAAGCCACTGAAAAAGCACAAGCTAAAGCGACTTCGGAGGGGGACGAGGTTGGTGAAAT GACATGTTCAGAACTTCTGGAAGCCCTTGAGCTCAGCCGTTGTCTTCTCTTAATGAG
Genomic sequence	GAAAAAGACGAAGAGAAAGATCTATACCTTGTTCACGACGAGCACGAGTCTCCTCTTCCTCTCA CCGTCACTTCTCGTGTAAATTTCTCCGATCCTAAATTCGTTTTAGGTTTTAGGGTTATATTAAT AGTCTCGTCTTAAAAATTGGAAGACTTTTGGAATTTGCAGGTTTTGTACATGTTAGGAGATATA GCATCTGGTCCAGCTTATAGGTTTACTCAATGGTTGGATTTAGTTCGTAAACGAAGTGCTACTT ACGGATCCTCTGGCTTCCCTCACCGCCTTCACCGCATCGATGATATGGTCACTAGGTTAACACT TTCTCTGACTTTTTGTCAAGTACTTGGTTTGTTGATTATGATTTTGGAATCTTATGAGTATATC AGAACAAAGGTTTCTAAATTAGGATATTAGTCTTCATGTCAGTTGATACAAGTATTATCCAGTG CAGGAGAGAGGAATACTGATCCTAAAAGTCCACCAAGTAGGCAGAGTTCAGAGATTAGTTTGTG GGAAAGGCTTGGTAAAGCTTCTACTGTGGATATTGATTCGAGCTGTTTTTCATGGAATATGTTG TCTTCACTTCATCATACTGAACATAGTAGTAGCACTGATCATTCTGAAGAAGACCAGAGTAAAC CACTTGAGGTATATATATCATTATGATCTTGGACTGGTGATGCTAGGAGGATCTTTTGACACTA TTAGATGTCTGTACAGGTTACTGTGAATTCTGGAGGAGTTGTTTTCTTTGCCCTGTTCAATAGT TCCAGCTCTGAAGATGCCTCTCGTAAGGAAGAAGCAGCAGTTATTAAATTTGCATCATCGAGGA TGGCCACGCAATCAGAACGTCTAGGTTATGAGTTTTCCAAGTGGCTAGGGGTGCAGATTCCGCA GGTGCTTCTTTTCTTTCTTGTAGTTTTTTAAAAATGTAGTAATGGTTTTGCTCATTTCACTTTC TTTCTAGAATTTTCAAGTAATGAGTAATCATCATGCGACAGGCTAGAGTAATTCACAGCTGTAA TCCTGAGTGGACACTGATCAAAGAAGCCACTGAAAAAGCACAAGCTAAAGCGACTTCGGAGGGG GACGAGGTTGGTGAAATGACATGTTCAGAACTTCTGGAAGCCCTTGAGCTCAGCCGTTGTCTTC TCTTAATGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.349304519

Conservation Information
Conserved circRNAs	NA
PMCS	0.349304519

			
						 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;Pan et al., 2017;Chen et al., 2017a;Zhang et al., 2019

circRNA

Detail information of AT5G23720_circ_g.1

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