Plant Circular RNA Database

Detail information of AT5G21100_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G21100_circ_g.1
					
						ID in PlantcircBase
						ath_circ_039625
					
						Alias
						At_ciR1460, Ath_circ_FC3442, Ath_circ_FC3443, AT5G21100_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 7169275-7169676  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, CIRI-full, CIRI2
					
						Parent gene
						
							AT5G21100						
					
						Parent gene annotation
						
							Ascorbate oxidase-like protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						11/17
					
						Tissues
						leaf/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  
						
							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
						AT5G21100.1:1

General Information
CircRNA Name	AT5G21100_circ_g.1
ID in PlantcircBase	ath_circ_039625
Alias	At_ciR1460, Ath_circ_FC3442, Ath_circ_FC3443, AT5G21100_C1
Organism	Arabidpsis thaliana
Position	chr5: 7169275-7169676 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, CIRI-full, CIRI2
Parent gene	AT5G21100
Parent gene annotation	Ascorbate oxidase-like protein
Parent gene strand	+
Alternative splicing	NA
Support reads	11/17
Tissues	leaf/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	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	AT5G21100.1:1

			
						 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  
						
							TCAGTGTGCACCTCAAACTCTTCGAGTCGAACCCAATAGAGTGTACCGTCTTCGAATCGCTAGC
ACAACTGCTCTTGCTTCCCTCAACTTGGCTGTTCAAgcgggaacacatttctaccatggacact
acggaatgcaaagatcatcgggactatacggaatgttaatagtaagatcaccaaaagagaggtt
aatttacg

									
								

					

						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: 208
Transcript exons: 7169275-7169363,7169558-7169676
GCGGGAACACATTTCTACCATGGACACTACGGAATGCAAAGATCATCGGGACTATACGGAATGT
TAATAGTAAGATCACCAAAAGAGAGGCACGTTTAAAGAAAATGATCAGTGTGCACCTCAAACTC
TTCGAGTCGAACCCAATAGAGTGTACCGTCTTCGAATCGCTAGCACAACTGCTCTTGCTTCCCT
CAACTTGGCTGTTCAA
Transcript length: 228
Transcript exons: 7169275-7169413,7169588-7169676
GCGGGAACACATTTCTACCATGGACACTACGGAATGCAAAGATCATCGGGACTATACGGAATGT
TAATAGTAAGATCACCAAAAGAGAGGTTAATTTACGATGGAGAGTTCAATCTCTTGCTCAGTGA
CTGGTGGCACCCTCAAACTCTTCGAGTCGAACCCAATAGAGTGTACCGTCTTCGAATCGCTAGC
ACAACTGCTCTTGCTTCCCTCAACTTGGCTGTTCAA
Transcript length: 402
Transcript exons: 7169275-7169676
GCGGGAACACATTTCTACCATGGACACTACGGAATGCAAAGATCATCGGGACTATACGGAATGT
TAATAGTAAGATCACCAAAAGAGAGGTTAATTTACGATGGAGAGTTCAATCTCTTGCTCAGTGA
CTGGTGGCACCAAAGCATTCACGCGCAAGAACTCGCTCTTTCTTCTCGTCCTATGCGTTGGATC
GGTGAACCTCAAAGCTTGTTGATCAATGGAAGAGGACAGTTCAATTGTTCACAAGCAGCGTATT
TTAACAAAGGAGGAGAGAAAGATGTATGCACGTTTAAAGAAAATGATCAGTGTGCACCTCAAAC
TCTTCGAGTCGAACCCAATAGAGTGTACCGTCTTCGAATCGCTAGCACAACTGCTCTTGCTTCC
CTCAACTTGGCTGTTCAA
						
					

						Genomic sequence
						
							GCGGGAACACATTTCTACCATGGACACTACGGAATGCAAAGATCATCGGGACTATACGGAATGT
TAATAGTAAGATCACCAAAAGAGAGGTTAATTTACGATGGAGAGTTCAATCTCTTGCTCAGTGA
CTGGTGGCACCAAAGCATTCACGCGCAAGAACTCGCTCTTTCTTCTCGTCCTATGCGTTGGATC
GGTGAACCTCAAAGCTTGTTGATCAATGGAAGAGGACAGTTCAATTGTTCACAAGCAGCGTATT
TTAACAAAGGAGGAGAGAAAGATGTATGCACGTTTAAAGAAAATGATCAGTGTGCACCTCAAAC
TCTTCGAGTCGAACCCAATAGAGTGTACCGTCTTCGAATCGCTAGCACAACTGCTCTTGCTTCC
CTCAACTTGGCTGTTCAA
						
					

			
		

Sequences
Splice junction sequence	TCAGTGTGCACCTCAAACTCTTCGAGTCGAACCCAATAGAGTGTACCGTCTTCGAATCGCTAGC ACAACTGCTCTTGCTTCCCTCAACTTGGCTGTTCAAgcgggaacacatttctaccatggacact acggaatgcaaagatcatcgggactatacggaatgttaatagtaagatcaccaaaagagaggtt aatttacg
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: 208 Transcript exons: 7169275-7169363,7169558-7169676 GCGGGAACACATTTCTACCATGGACACTACGGAATGCAAAGATCATCGGGACTATACGGAATGT TAATAGTAAGATCACCAAAAGAGAGGCACGTTTAAAGAAAATGATCAGTGTGCACCTCAAACTC TTCGAGTCGAACCCAATAGAGTGTACCGTCTTCGAATCGCTAGCACAACTGCTCTTGCTTCCCT CAACTTGGCTGTTCAA Transcript length: 228 Transcript exons: 7169275-7169413,7169588-7169676 GCGGGAACACATTTCTACCATGGACACTACGGAATGCAAAGATCATCGGGACTATACGGAATGT TAATAGTAAGATCACCAAAAGAGAGGTTAATTTACGATGGAGAGTTCAATCTCTTGCTCAGTGA CTGGTGGCACCCTCAAACTCTTCGAGTCGAACCCAATAGAGTGTACCGTCTTCGAATCGCTAGC ACAACTGCTCTTGCTTCCCTCAACTTGGCTGTTCAA Transcript length: 402 Transcript exons: 7169275-7169676 GCGGGAACACATTTCTACCATGGACACTACGGAATGCAAAGATCATCGGGACTATACGGAATGT TAATAGTAAGATCACCAAAAGAGAGGTTAATTTACGATGGAGAGTTCAATCTCTTGCTCAGTGA CTGGTGGCACCAAAGCATTCACGCGCAAGAACTCGCTCTTTCTTCTCGTCCTATGCGTTGGATC GGTGAACCTCAAAGCTTGTTGATCAATGGAAGAGGACAGTTCAATTGTTCACAAGCAGCGTATT TTAACAAAGGAGGAGAGAAAGATGTATGCACGTTTAAAGAAAATGATCAGTGTGCACCTCAAAC TCTTCGAGTCGAACCCAATAGAGTGTACCGTCTTCGAATCGCTAGCACAACTGCTCTTGCTTCC CTCAACTTGGCTGTTCAA
Genomic sequence	GCGGGAACACATTTCTACCATGGACACTACGGAATGCAAAGATCATCGGGACTATACGGAATGT TAATAGTAAGATCACCAAAAGAGAGGTTAATTTACGATGGAGAGTTCAATCTCTTGCTCAGTGA CTGGTGGCACCAAAGCATTCACGCGCAAGAACTCGCTCTTTCTTCTCGTCCTATGCGTTGGATC GGTGAACCTCAAAGCTTGTTGATCAATGGAAGAGGACAGTTCAATTGTTCACAAGCAGCGTATT TTAACAAAGGAGGAGAGAAAGATGTATGCACGTTTAAAGAAAATGATCAGTGTGCACCTCAAAC TCTTCGAGTCGAACCCAATAGAGTGTACCGTCTTCGAATCGCTAGCACAACTGCTCTTGCTTCC CTCAACTTGGCTGTTCAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.537096222

Conservation Information
Conserved circRNAs	NA
PMCS	0.537096222

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7169308-7169673(+)
						
						Potential amino acid sequence
						
							MQRSSGLYGMLIVRSPKERLIYDGEFNLLLSDWWHQSIHAQELALSSRPMRWIGEPQSLLINGR
GQFNCSQAAYFNKGGEKDVCTFKENDQCAPQTLRVEPNRVYRLRIASTTALASLNLAVQAGTHF
YHGHYGMQRSSGLYGMLIVRSPKERLIYDGEFNLLLSDWWHQSIHAQELALSSRPMRWIGEPQS
LLINGRGQFNCSQAAYFNKGGEKDVCTFKENDQCAPQTLRVEPNRVYRLRIASTTALASLNLAV
QAGTHFYHGHYGMQRSSGLYGMLIVRSPKERLIYDGEFNLLLSDWWHQSIHAQELALSSRPMRW
IGEPQSLLINGRGQFNCSQAAYFNKGGEKDVCTFKENDQCAPQTLRVEPNRVYRLRIASTTALA
SLNLAVQAGTHFYHGHYGMQRSSGLYGMLIVRSPKERLIYDGEFNLLLSDWWHQSIHAQELALS
SRPMRWIGEPQSLLINGRGQFNCSQAAYFNKGGEKDVCTFKENDQCAPQTLRVEPNRVYRLRIA
STTALASLNLAVQ(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	Y
Potential coding position	7169308-7169673(+)
Potential amino acid sequence	MQRSSGLYGMLIVRSPKERLIYDGEFNLLLSDWWHQSIHAQELALSSRPMRWIGEPQSLLINGR GQFNCSQAAYFNKGGEKDVCTFKENDQCAPQTLRVEPNRVYRLRIASTTALASLNLAVQAGTHF YHGHYGMQRSSGLYGMLIVRSPKERLIYDGEFNLLLSDWWHQSIHAQELALSSRPMRWIGEPQS LLINGRGQFNCSQAAYFNKGGEKDVCTFKENDQCAPQTLRVEPNRVYRLRIASTTALASLNLAV QAGTHFYHGHYGMQRSSGLYGMLIVRSPKERLIYDGEFNLLLSDWWHQSIHAQELALSSRPMRW IGEPQSLLINGRGQFNCSQAAYFNKGGEKDVCTFKENDQCAPQTLRVEPNRVYRLRIASTTALA SLNLAVQAGTHFYHGHYGMQRSSGLYGMLIVRSPKERLIYDGEFNLLLSDWWHQSIHAQELALS SRPMRWIGEPQSLLINGRGQFNCSQAAYFNKGGEKDVCTFKENDQCAPQTLRVEPNRVYRLRIA STTALASLNLAVQ(+)
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 AT5G21100_circ_g.1

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