Plant Circular RNA Database

Detail information of AT5G43822_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT5G43822_circ_g.4
					
						ID in PlantcircBase
						ath_circ_042274
					
						Alias
						At_ciR1051, Ath_circ_FC3658, Ath_circ_FC3659, AT5G43822_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 17620798-17621714  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, MapSplice, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
					
						Parent gene
						
							AT5G43822						
					
						Parent gene annotation
						
							Uncharacterized protein At5g43822
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G43822_circ_g.1 AT5G43822_circ_g.2 AT5G43822_circ_g.3 						
					
						Support reads
						5/10/2
					
						Tissues
						leaf/root, leaf, aerial, inflorescences, whole_plant/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
						AT5G43822.1:5

General Information
CircRNA Name	AT5G43822_circ_g.4
ID in PlantcircBase	ath_circ_042274
Alias	At_ciR1051, Ath_circ_FC3658, Ath_circ_FC3659, AT5G43822_C1
Organism	Arabidpsis thaliana
Position	chr5: 17620798-17621714 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, MapSplice, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
Parent gene	AT5G43822
Parent gene annotation	Uncharacterized protein At5g43822
Parent gene strand	+
Alternative splicing	AT5G43822_circ_g.1 AT5G43822_circ_g.2 AT5G43822_circ_g.3
Support reads	5/10/2
Tissues	leaf/root, leaf, aerial, inflorescences, whole_plant/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	AT5G43822.1:5

			
						 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  
						
							AAATTGTTCTTATATTCTTGTTTACTGTTGTATAGTCCTGGTGATCTAAACGCGCTACAATACC
TCGTGGTTGATCAGCCGAATATCCCGAAAGATGAAGgttgcaatagtgaaattcgtagagtgtt
ctgaatggaggcagtaattaggaaatggcagcagaagttcagaaaagggaaggaggagatggaa
aagtggga

									
								

					

						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: 179
Transcript exons: 17620798-17620951,17621690-17621714
GTTGCAATAGTGAAATTCGTAGAGTGTTCTGAATGGAGGCAGTAATTAGGAAATGGCAGCAGAA
GTTCAGAAAAGGGAAGGAGGAGATGGAAAAGTGGGAGGCACTTCAAGTTCGATGGGTGTCCCTC
TTCAGGAACGCTTCTTCTATCATCCACAGCCGAATATCCCGAAAGATGAAG
Transcript length: 183
Transcript exons: 17620798-17620914,17621649-17621714
GTTGCAATAGTGAAATTCGTAGAGTGTTCTGAATGGAGGCAGTAATTAGGAAATGGCAGCAGAA
GTTCAGAAAAGGGAAGGAGGAGATGGAAAAGTGGGAGGCACTTCAAGTTCGATGTCCTGGTGAT
CTAAACGCGCTACAATACCTCGTGGTTGATCAGCCGAATATCCCGAAAGATGAAG
Transcript length: 576
Transcript exons: 17620798-17620961,17621035-17621153,17621265-17621435,17
621516-17621572,17621650-17621714
GTTGCAATAGTGAAATTCGTAGAGTGTTCTGAATGGAGGCAGTAATTAGGAAATGGCAGCAGAA
GTTCAGAAAAGGGAAGGAGGAGATGGAAAAGTGGGAGGCACTTCAAGTTCGATGGGTGTCCCTC
TTCAGGAACGCTTCTTCTATCATCCAGAGATTACAGGAAATGCAAAATCATGGGAGCTATGGAG
CTTTGAGATGCCTGAAAGGGATTGAAGACGCAGTTGTGCAGCAACAGATGGGTCAACTGGAGTC
TCTATTGCGTTCCATGAAAAACGTTATGGAGGAATTCTGGGGCTGTGTTTTGACATTTGAGAAG
CTACATCGGGACGGTTTACAGTTACGTGAAATTGAATCAAGCAAGAGGCGAGTAGAGGAACGAA
TTGGAGTAAAACCGTGCATTACTGATTGCTTGGAGGGACTTTCTATTCTTTATGACATGCATCA
ATCAGAATACCATCTTAAATCTTCAATTCTTTCCGTACTTTCATGTCTTATCCTGAAACCAAGT
CCTGGTGATCTAAACGCGCTACAATACCTCGTGGTTGATCAGCCGAATATCCCGAAAGATGAAG
						
					

						Genomic sequence
						
							GTTGCAATAGTGAAATTCGTAGAGTGTTCTGAATGGAGGCAGTAATTAGGAAATGGCAGCAGAA
GTTCAGAAAAGGGAAGGAGGAGATGGAAAAGTGGGAGGCACTTCAAGTTCGATGGGTGTCCCTC
TTCAGGAACGCTTCTTCTATCATCCAGAGATTACAGGTAGCTTGAATCTTTGTGGTTTGTTGTC
AGAAATTTTGAAACTGTATGTGTGATTTTTTGGGTTTGGGAATAGGAAATGCAAAATCATGGGA
GCTATGGAGCTTTGAGATGCCTGAAAGGGATTGAAGACGCAGTTGTGCAGCAACAGATGGGTCA
ACTGGAGTCTCTATTGCGTTCCATGAAAAACGTTATGTAAGTATATGGAGGAAAGAAAGGTGTT
ACTTTAGACTGGCATGAGAGTTTCGGGGTTCTAGTAGGAAGTAAAGATTGTTGAAATGTGTAAT
ATATGGGTGATGATGTCAGGGAGGAATTCTGGGGCTGTGTTTTGACATTTGAGAAGCTACATCG
GGACGGTTTACAGTTACGTGAAATTGAATCAAGCAAGAGGCGAGTAGAGGAACGAATTGGAGTA
AAACCGTGCATTACTGATTGCTTGGAGGGACTTTCTATTCTTTATGACATGCATCAATCAGAGT
AAGCAAACAAAATCTGCTTAGTTATGTAGTTATAATCATCACTTTTTAACTTTTGTTTGTGCTC
TAAAAATCTCGCAGATACCATCTTAAATCTTCAATTCTTTCCGTACTTTCATGTCTTATCCTGA
AACCAAGGTACTGAGAATATTGCCTTGTTTGAACTTTGACAAGTTTATAAAATTGTTCTTATAT
TCTTGTTTACTGTTGTATAGTCCTGGTGATCTAAACGCGCTACAATACCTCGTGGTTGATCAGC
CGAATATCCCGAAAGATGAAG
						
					

			
		

Sequences
Splice junction sequence	AAATTGTTCTTATATTCTTGTTTACTGTTGTATAGTCCTGGTGATCTAAACGCGCTACAATACC TCGTGGTTGATCAGCCGAATATCCCGAAAGATGAAGgttgcaatagtgaaattcgtagagtgtt ctgaatggaggcagtaattaggaaatggcagcagaagttcagaaaagggaaggaggagatggaa aagtggga
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: 179 Transcript exons: 17620798-17620951,17621690-17621714 GTTGCAATAGTGAAATTCGTAGAGTGTTCTGAATGGAGGCAGTAATTAGGAAATGGCAGCAGAA GTTCAGAAAAGGGAAGGAGGAGATGGAAAAGTGGGAGGCACTTCAAGTTCGATGGGTGTCCCTC TTCAGGAACGCTTCTTCTATCATCCACAGCCGAATATCCCGAAAGATGAAG Transcript length: 183 Transcript exons: 17620798-17620914,17621649-17621714 GTTGCAATAGTGAAATTCGTAGAGTGTTCTGAATGGAGGCAGTAATTAGGAAATGGCAGCAGAA GTTCAGAAAAGGGAAGGAGGAGATGGAAAAGTGGGAGGCACTTCAAGTTCGATGTCCTGGTGAT CTAAACGCGCTACAATACCTCGTGGTTGATCAGCCGAATATCCCGAAAGATGAAG Transcript length: 576 Transcript exons: 17620798-17620961,17621035-17621153,17621265-17621435,17 621516-17621572,17621650-17621714 GTTGCAATAGTGAAATTCGTAGAGTGTTCTGAATGGAGGCAGTAATTAGGAAATGGCAGCAGAA GTTCAGAAAAGGGAAGGAGGAGATGGAAAAGTGGGAGGCACTTCAAGTTCGATGGGTGTCCCTC TTCAGGAACGCTTCTTCTATCATCCAGAGATTACAGGAAATGCAAAATCATGGGAGCTATGGAG CTTTGAGATGCCTGAAAGGGATTGAAGACGCAGTTGTGCAGCAACAGATGGGTCAACTGGAGTC TCTATTGCGTTCCATGAAAAACGTTATGGAGGAATTCTGGGGCTGTGTTTTGACATTTGAGAAG CTACATCGGGACGGTTTACAGTTACGTGAAATTGAATCAAGCAAGAGGCGAGTAGAGGAACGAA TTGGAGTAAAACCGTGCATTACTGATTGCTTGGAGGGACTTTCTATTCTTTATGACATGCATCA ATCAGAATACCATCTTAAATCTTCAATTCTTTCCGTACTTTCATGTCTTATCCTGAAACCAAGT CCTGGTGATCTAAACGCGCTACAATACCTCGTGGTTGATCAGCCGAATATCCCGAAAGATGAAG
Genomic sequence	GTTGCAATAGTGAAATTCGTAGAGTGTTCTGAATGGAGGCAGTAATTAGGAAATGGCAGCAGAA GTTCAGAAAAGGGAAGGAGGAGATGGAAAAGTGGGAGGCACTTCAAGTTCGATGGGTGTCCCTC TTCAGGAACGCTTCTTCTATCATCCAGAGATTACAGGTAGCTTGAATCTTTGTGGTTTGTTGTC AGAAATTTTGAAACTGTATGTGTGATTTTTTGGGTTTGGGAATAGGAAATGCAAAATCATGGGA GCTATGGAGCTTTGAGATGCCTGAAAGGGATTGAAGACGCAGTTGTGCAGCAACAGATGGGTCA ACTGGAGTCTCTATTGCGTTCCATGAAAAACGTTATGTAAGTATATGGAGGAAAGAAAGGTGTT ACTTTAGACTGGCATGAGAGTTTCGGGGTTCTAGTAGGAAGTAAAGATTGTTGAAATGTGTAAT ATATGGGTGATGATGTCAGGGAGGAATTCTGGGGCTGTGTTTTGACATTTGAGAAGCTACATCG GGACGGTTTACAGTTACGTGAAATTGAATCAAGCAAGAGGCGAGTAGAGGAACGAATTGGAGTA AAACCGTGCATTACTGATTGCTTGGAGGGACTTTCTATTCTTTATGACATGCATCAATCAGAGT AAGCAAACAAAATCTGCTTAGTTATGTAGTTATAATCATCACTTTTTAACTTTTGTTTGTGCTC TAAAAATCTCGCAGATACCATCTTAAATCTTCAATTCTTTCCGTACTTTCATGTCTTATCCTGA AACCAAGGTACTGAGAATATTGCCTTGTTTGAACTTTGACAAGTTTATAAAATTGTTCTTATAT TCTTGTTTACTGTTGTATAGTCCTGGTGATCTAAACGCGCTACAATACCTCGTGGTTGATCAGC CGAATATCCCGAAAGATGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.509537568

Conservation Information
Conserved circRNAs	NA
PMCS	0.509537568

			
						 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; responsive to methyl jasmonate

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; responsive to methyl jasmonate

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Pan et al., 2017;Chen et al., 2017a;Liu et al., 2017;Zhang et al., 2019

circRNA

Detail information of AT5G43822_circ_g.4

Address

Any questions?

Supported by