Plant Circular RNA Database

Detail information of AT1G69310_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT1G69310_circ_g.5
					
						ID in PlantcircBase
						ath_circ_009309
					
						Alias
						AT1G69310_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 26056117-26056712  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, MapSplice, PcircRNA_finder, circRNA_finder, CIRI2
					
						Parent gene
						
							AT1G69310						
					
						Parent gene annotation
						
							At1g69310
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G69310_circ_g.1 AT1G69310_circ_g.2 AT1G69310_circ_g.3 AT1G69310_circ_g.4 						
					
						Support reads
						4
					
						Tissues
						root, whole_plant/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  
						
							CT-AC							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
						AT1G69310.4:2
AT1G69310.3:2
AT1G69310.1:2
AT1G69310.2:2

General Information
CircRNA Name	AT1G69310_circ_g.5
ID in PlantcircBase	ath_circ_009309
Alias	AT1G69310_C1
Organism	Arabidpsis thaliana
Position	chr1: 26056117-26056712 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, MapSplice, PcircRNA_finder, circRNA_finder, CIRI2
Parent gene	AT1G69310
Parent gene annotation	At1g69310
Parent gene strand	-
Alternative splicing	AT1G69310_circ_g.1 AT1G69310_circ_g.2 AT1G69310_circ_g.3 AT1G69310_circ_g.4
Support reads	4
Tissues	root, whole_plant/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	CT-AC 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	AT1G69310.4:2 AT1G69310.3:2 AT1G69310.1:2 AT1G69310.2:2

			
						 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  
						
							CCATCGATATCCATCTTCAAGATTATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGC
CGAATTCGCTTTTGAGCCTTCTTCTTCTCCTTCACTctcaagggttgcgcatagtttgaggtac
aatatcaccaagtaagccttcctctgatggagtagacacggcaggtgtatcttcagtagtaggt
cggggtaa

									
								

					

						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: 142
Transcript exons: 26056117-26056145,26056600-26056712
CTCAAGGGTTGCGCATAGTTTGAGGTACAGTCCATATTTACGCCATCGATATCCATCTTCAAGA
TTATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGCCGAATTCGCTTTTGAGCCTTCT
TCTTCTCCTTCACT
Transcript length: 205
Transcript exons: 26056117-26056211,26056603-26056712
CTCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGA
CACGGCAGGTGTATCTTCAGTAGTAGGTCGGCATATTTACGCCATCGATATCCATCTTCAAGAT
TATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGCCGAATTCGCTTTTGAGCCTTCTT
CTTCTCCTTCACT
Transcript length: 238
Transcript exons: 26056117-26056241,26056600-26056712
CTCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGA
CACGGCAGGTGTATCTTCAGTAGTAGGTCGGGGTAACCGCGGTGAAGGAGCATTATTGTCTGTC
CATATTTACGCCATCGATATCCATCTTCAAGATTATCCACATCACTCTTGGTCATGAATGCGAA
TCTTGGTTGCCGAATTCGCTTTTGAGCCTTCTTCTTCTCCTTCACT
Transcript length: 277
Transcript exons: 26056117-26056284,26056604-26056712
CTCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGA
CACGGCAGGTGTATCTTCAGTAGTAGGTCGGGGTAACCGCGGTGAAGGAGCATTATTGTCTCTG
TGAAGTTGATGAAGGAGTTCTTGGTAATAATAAGGATTTGATATTTACGCCATCGATATCCATC
TTCAAGATTATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGCCGAATTCGCTTTTGA
GCCTTCTTCTTCTCCTTCACT
Transcript length: 497
Transcript exons: 26056117-26056469,26056569-26056712
CTCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGA
CACGGCAGGTGTATCTTCAGTAGTAGGTCGGGGTAACCGCGGTGAAGGAGCATTATTGTCTCTG
TGAAGTTGATGAAGGAGTTCTTGGTAATAATAAGGATTTGGTAATGGAGGAGGGAGATGATGAT
GAGAAGTGAAGCTATGTGGGTCGTGTGCAGTGAGGATTCCACCACGAGGGAATCCAATGGTTTG
ATGGCAATGTTGTCCTTCGTATGTTGTGATCACTATCGATGGATCATCTGATGAACGTTCTACT
CTCTTCTTCACCGTGCATCTGCTGTTTGTGCATCTTGGGAATGGGCTATTCTTGACGGCTTTTT
GTCCATATTTACGCCATCGATATCCATCTTCAAGATTATCCACATCACTCTTGGTCATGAATGC
GAATCTTGGTTGCCGAATTCGCTTTTGAGCCTTCTTCTTCTCCTTCACT
Transcript length: 509
Transcript exons: 26056117-26056481,26056569-26056712
CTCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGA
CACGGCAGGTGTATCTTCAGTAGTAGGTCGGGGTAACCGCGGTGAAGGAGCATTATTGTCTCTG
TGAAGTTGATGAAGGAGTTCTTGGTAATAATAAGGATTTGGTAATGGAGGAGGGAGATGATGAT
GAGAAGTGAAGCTATGTGGGTCGTGTGCAGTGAGGATTCCACCACGAGGGAATCCAATGGTTTG
ATGGCAATGTTGTCCTTCGTATGTTGTGATCACTATCGATGGATCATCTGATGAACGTTCTACT
CTCTTCTTCACCGTGCATCTGCTGTTTGTGCATCTATAGTAGCTCCTTGGGAATGGGCTATTCT
TGACGGCTTTTTGTCCATATTTACGCCATCGATATCCATCTTCAAGATTATCCACATCACTCTT
GGTCATGAATGCGAATCTTGGTTGCCGAATTCGCTTTTGAGCCTTCTTCTTCTCCTTCACT
						
					

						Genomic sequence
						
							CTCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGA
CACGGCAGGTGTATCTTCAGTAGTAGGTCGGGGTAACCGCGGTGAAGGAGCATTATTGTCTCTG
TGAAGTTGATGAAGGAGTTCTTGGTAATAATAAGGATTTGGTAATGGAGGAGGGAGATGATGAT
GAGAAGTGAAGCTATGTGGGTCGTGTGCAGTGAGGATTCCACCACGAGGGAATCCAATGGTTTG
ATGGCAATGTTGTCCTTCGTATGTTGTGATCACTATCGATGGATCATCTGATGAACGTTCTACT
CTCTTCTTCACCGTGCATCTGCTGTTTGTGCATCTATAGTAGCTCCTATATATCACAACAACAA
TAAGAAATATAGGTTGCATATCCGTTAACTAAGAGAATGATCAAAGAAACTGATGACTTATATA
CGACCTTGGGAATGGGCTATTCTTGACGGCTTTTTGTCCATATTTACGCCATCGATATCCATCT
TCAAGATTATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGCCGAATTCGCTTTTGAG
CCTTCTTCTTCTCCTTCACT
						
					

			
		

Sequences
Splice junction sequence	CCATCGATATCCATCTTCAAGATTATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGC CGAATTCGCTTTTGAGCCTTCTTCTTCTCCTTCACTctcaagggttgcgcatagtttgaggtac aatatcaccaagtaagccttcctctgatggagtagacacggcaggtgtatcttcagtagtaggt cggggtaa
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: 142 Transcript exons: 26056117-26056145,26056600-26056712 CTCAAGGGTTGCGCATAGTTTGAGGTACAGTCCATATTTACGCCATCGATATCCATCTTCAAGA TTATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGCCGAATTCGCTTTTGAGCCTTCT TCTTCTCCTTCACT Transcript length: 205 Transcript exons: 26056117-26056211,26056603-26056712 CTCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGA CACGGCAGGTGTATCTTCAGTAGTAGGTCGGCATATTTACGCCATCGATATCCATCTTCAAGAT TATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGCCGAATTCGCTTTTGAGCCTTCTT CTTCTCCTTCACT Transcript length: 238 Transcript exons: 26056117-26056241,26056600-26056712 CTCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGA CACGGCAGGTGTATCTTCAGTAGTAGGTCGGGGTAACCGCGGTGAAGGAGCATTATTGTCTGTC CATATTTACGCCATCGATATCCATCTTCAAGATTATCCACATCACTCTTGGTCATGAATGCGAA TCTTGGTTGCCGAATTCGCTTTTGAGCCTTCTTCTTCTCCTTCACT Transcript length: 277 Transcript exons: 26056117-26056284,26056604-26056712 CTCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGA CACGGCAGGTGTATCTTCAGTAGTAGGTCGGGGTAACCGCGGTGAAGGAGCATTATTGTCTCTG TGAAGTTGATGAAGGAGTTCTTGGTAATAATAAGGATTTGATATTTACGCCATCGATATCCATC TTCAAGATTATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGCCGAATTCGCTTTTGA GCCTTCTTCTTCTCCTTCACT Transcript length: 497 Transcript exons: 26056117-26056469,26056569-26056712 CTCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGA CACGGCAGGTGTATCTTCAGTAGTAGGTCGGGGTAACCGCGGTGAAGGAGCATTATTGTCTCTG TGAAGTTGATGAAGGAGTTCTTGGTAATAATAAGGATTTGGTAATGGAGGAGGGAGATGATGAT GAGAAGTGAAGCTATGTGGGTCGTGTGCAGTGAGGATTCCACCACGAGGGAATCCAATGGTTTG ATGGCAATGTTGTCCTTCGTATGTTGTGATCACTATCGATGGATCATCTGATGAACGTTCTACT CTCTTCTTCACCGTGCATCTGCTGTTTGTGCATCTTGGGAATGGGCTATTCTTGACGGCTTTTT GTCCATATTTACGCCATCGATATCCATCTTCAAGATTATCCACATCACTCTTGGTCATGAATGC GAATCTTGGTTGCCGAATTCGCTTTTGAGCCTTCTTCTTCTCCTTCACT Transcript length: 509 Transcript exons: 26056117-26056481,26056569-26056712 CTCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGA CACGGCAGGTGTATCTTCAGTAGTAGGTCGGGGTAACCGCGGTGAAGGAGCATTATTGTCTCTG TGAAGTTGATGAAGGAGTTCTTGGTAATAATAAGGATTTGGTAATGGAGGAGGGAGATGATGAT GAGAAGTGAAGCTATGTGGGTCGTGTGCAGTGAGGATTCCACCACGAGGGAATCCAATGGTTTG ATGGCAATGTTGTCCTTCGTATGTTGTGATCACTATCGATGGATCATCTGATGAACGTTCTACT CTCTTCTTCACCGTGCATCTGCTGTTTGTGCATCTATAGTAGCTCCTTGGGAATGGGCTATTCT TGACGGCTTTTTGTCCATATTTACGCCATCGATATCCATCTTCAAGATTATCCACATCACTCTT GGTCATGAATGCGAATCTTGGTTGCCGAATTCGCTTTTGAGCCTTCTTCTTCTCCTTCACT
Genomic sequence	CTCAAGGGTTGCGCATAGTTTGAGGTACAATATCACCAAGTAAGCCTTCCTCTGATGGAGTAGA CACGGCAGGTGTATCTTCAGTAGTAGGTCGGGGTAACCGCGGTGAAGGAGCATTATTGTCTCTG TGAAGTTGATGAAGGAGTTCTTGGTAATAATAAGGATTTGGTAATGGAGGAGGGAGATGATGAT GAGAAGTGAAGCTATGTGGGTCGTGTGCAGTGAGGATTCCACCACGAGGGAATCCAATGGTTTG ATGGCAATGTTGTCCTTCGTATGTTGTGATCACTATCGATGGATCATCTGATGAACGTTCTACT CTCTTCTTCACCGTGCATCTGCTGTTTGTGCATCTATAGTAGCTCCTATATATCACAACAACAA TAAGAAATATAGGTTGCATATCCGTTAACTAAGAGAATGATCAAAGAAACTGATGACTTATATA CGACCTTGGGAATGGGCTATTCTTGACGGCTTTTTGTCCATATTTACGCCATCGATATCCATCT TCAAGATTATCCACATCACTCTTGGTCATGAATGCGAATCTTGGTTGCCGAATTCGCTTTTGAG CCTTCTTCTTCTCCTTCACT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.604136326

Conservation Information
Conserved circRNAs	NA
PMCS	0.604136326

			
						 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; regulation of development and senescence of leaves

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; regulation of development and senescence of leaves

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

circRNA

Detail information of AT1G69310_circ_g.5

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