Plant Circular RNA Database

Detail information of AT2G41100_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT2G41100_circ_g.1
					
						ID in PlantcircBase
						ath_circ_017728
					
						Alias
						2:17138107-17138943
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 17138107-17138943  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G41100						
					
						Parent gene annotation
						
							Calmodulin-like protein 12
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G41090_circ_g.1 AT2G41090_circ_g.2 AT2G41090_circ_g.3 2_circ_ag.4 2_circ_ag.5 2_circ_ag.6 AT2G41090_circ_g.7 AT2G41100_circ_g.2 AT2G41100_circ_g.3 AT2G41100_circ_g.4 AT2G41100_circ_g.5 AT2G41100_circ_g.6 AT2G41100_circ_g.7 AT2G41100_circ_g.8 						
					
						Support reads
						1/1
					
						Tissues
						root;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  
						
							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
						AT2G41100.6:2
AT2G41100.2:1
AT2G41100.5:1
AT2G41100.1:3
AT2G41100.3:2
AT2G41100.4:3
AT2G41100.7:2

General Information
CircRNA Name	AT2G41100_circ_g.1
ID in PlantcircBase	ath_circ_017728
Alias	2:17138107-17138943
Organism	Arabidpsis thaliana
Position	chr2: 17138107-17138943 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G41100
Parent gene annotation	Calmodulin-like protein 12
Parent gene strand	+
Alternative splicing	AT2G41090_circ_g.1 AT2G41090_circ_g.2 AT2G41090_circ_g.3 2_circ_ag.4 2_circ_ag.5 2_circ_ag.6 AT2G41090_circ_g.7 AT2G41100_circ_g.2 AT2G41100_circ_g.3 AT2G41100_circ_g.4 AT2G41100_circ_g.5 AT2G41100_circ_g.6 AT2G41100_circ_g.7 AT2G41100_circ_g.8
Support reads	1/1
Tissues	root;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	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	AT2G41100.6:2 AT2G41100.2:1 AT2G41100.5:1 AT2G41100.1:3 AT2G41100.3:2 AT2G41100.4:3 AT2G41100.7:2

			
						 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  
						
							CCGCGTCACACTAAAAAAACAATGGTGGATTATCAGCTCACTGACGATCAGATCTTAGAATTCA
GGGAAGCCTTCCGCGTATTCGACAAGAATGGTGATGtcatcacagaaaacaaaaaaaacaatgg
cggataagctcactgacgatcagattacagaatacagggaatctttcaggttattcgacaagaa
tggtgatg

									
								

					

						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: 737
Transcript exons: 17138107-17138573,17138674-17138943
TCATCACAGAAAACAAAAAAAACAATGGCGGATAAGCTCACTGACGATCAGATTACAGAATACA
GGGAATCTTTCAGGTTATTCGACAAGAATGGTGATGGTATGGTTCATCAACTCTTTCCATTTAA
TCGTAATGTTGGATCATGATCATCTTCAAAGCAATGAAATGACTAACACAAGTCCTTGATTACT
TTTTGTAGGTTCCATTACGAAAAAGGAGCTCGGTACCATGATGCGTTCAATCGGTGAAAAACCG
ACAAAAGCTGATCTTCAGGACTTGATGAACGAAGCGGATTTAGATGGTGATGGAACCATCGATT
TCCCTGAGTTCTTGTGCGTAATGGCTAAGAATCAAGGTCATGATCAAGCGCCGCGTCACACTAA
AAAAACAATGGCGGATAAGCTCACTGACGATCAGATTACAGAGTACAGGGAATCTTTCAGGTTA
TTCGACAAGAATGGTGATGGTTCCATTACGAAAAAGGAGCTCCGTACCGTGATGTTTTCCCTCG
GTAAAAACCGGACAAAAGCTGATCTTCAGGACATGATGAACGAAGTGGATTTAGATGGTGATGG
AACCATCGATTTCCCTGAGTTCTTGTACCTAATGGCTAAGAATCAAGGTCATGATCAAGCGCCG
CGTCACACTAAAAAAACAATGGTGGATTATCAGCTCACTGACGATCAGATCTTAGAATTCAGGG
AAGCCTTCCGCGTATTCGACAAGAATGGTGATG
						
					

						Genomic sequence
						
							TCATCACAGAAAACAAAAAAAACAATGGCGGATAAGCTCACTGACGATCAGATTACAGAATACA
GGGAATCTTTCAGGTTATTCGACAAGAATGGTGATGGTATGGTTCATCAACTCTTTCCATTTAA
TCGTAATGTTGGATCATGATCATCTTCAAAGCAATGAAATGACTAACACAAGTCCTTGATTACT
TTTTGTAGGTTCCATTACGAAAAAGGAGCTCGGTACCATGATGCGTTCAATCGGTGAAAAACCG
ACAAAAGCTGATCTTCAGGACTTGATGAACGAAGCGGATTTAGATGGTGATGGAACCATCGATT
TCCCTGAGTTCTTGTGCGTAATGGCTAAGAATCAAGGTCATGATCAAGCGCCGCGTCACACTAA
AAAAACAATGGCGGATAAGCTCACTGACGATCAGATTACAGAGTACAGGGAATCTTTCAGGTTA
TTCGACAAGAATGGTGATGGTATGGTTCATCAACTCTTTCCATTTAATCGTAATGTTGGATCAT
GATCATCTTCAAAGCAATGAAATGACTAACACTAGTCCTTGATTACTTTTTGTAGGTTCCATTA
CGAAAAAGGAGCTCCGTACCGTGATGTTTTCCCTCGGTAAAAACCGGACAAAAGCTGATCTTCA
GGACATGATGAACGAAGTGGATTTAGATGGTGATGGAACCATCGATTTCCCTGAGTTCTTGTAC
CTAATGGCTAAGAATCAAGGTCATGATCAAGCGCCGCGTCACACTAAAAAAACAATGGTGGATT
ATCAGCTCACTGACGATCAGATCTTAGAATTCAGGGAAGCCTTCCGCGTATTCGACAAGAATGG
TGATG
						
					

			
		

Sequences
Splice junction sequence	CCGCGTCACACTAAAAAAACAATGGTGGATTATCAGCTCACTGACGATCAGATCTTAGAATTCA GGGAAGCCTTCCGCGTATTCGACAAGAATGGTGATGtcatcacagaaaacaaaaaaaacaatgg cggataagctcactgacgatcagattacagaatacagggaatctttcaggttattcgacaagaa tggtgatg
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: 737 Transcript exons: 17138107-17138573,17138674-17138943 TCATCACAGAAAACAAAAAAAACAATGGCGGATAAGCTCACTGACGATCAGATTACAGAATACA GGGAATCTTTCAGGTTATTCGACAAGAATGGTGATGGTATGGTTCATCAACTCTTTCCATTTAA TCGTAATGTTGGATCATGATCATCTTCAAAGCAATGAAATGACTAACACAAGTCCTTGATTACT TTTTGTAGGTTCCATTACGAAAAAGGAGCTCGGTACCATGATGCGTTCAATCGGTGAAAAACCG ACAAAAGCTGATCTTCAGGACTTGATGAACGAAGCGGATTTAGATGGTGATGGAACCATCGATT TCCCTGAGTTCTTGTGCGTAATGGCTAAGAATCAAGGTCATGATCAAGCGCCGCGTCACACTAA AAAAACAATGGCGGATAAGCTCACTGACGATCAGATTACAGAGTACAGGGAATCTTTCAGGTTA TTCGACAAGAATGGTGATGGTTCCATTACGAAAAAGGAGCTCCGTACCGTGATGTTTTCCCTCG GTAAAAACCGGACAAAAGCTGATCTTCAGGACATGATGAACGAAGTGGATTTAGATGGTGATGG AACCATCGATTTCCCTGAGTTCTTGTACCTAATGGCTAAGAATCAAGGTCATGATCAAGCGCCG CGTCACACTAAAAAAACAATGGTGGATTATCAGCTCACTGACGATCAGATCTTAGAATTCAGGG AAGCCTTCCGCGTATTCGACAAGAATGGTGATG
Genomic sequence	TCATCACAGAAAACAAAAAAAACAATGGCGGATAAGCTCACTGACGATCAGATTACAGAATACA GGGAATCTTTCAGGTTATTCGACAAGAATGGTGATGGTATGGTTCATCAACTCTTTCCATTTAA TCGTAATGTTGGATCATGATCATCTTCAAAGCAATGAAATGACTAACACAAGTCCTTGATTACT TTTTGTAGGTTCCATTACGAAAAAGGAGCTCGGTACCATGATGCGTTCAATCGGTGAAAAACCG ACAAAAGCTGATCTTCAGGACTTGATGAACGAAGCGGATTTAGATGGTGATGGAACCATCGATT TCCCTGAGTTCTTGTGCGTAATGGCTAAGAATCAAGGTCATGATCAAGCGCCGCGTCACACTAA AAAAACAATGGCGGATAAGCTCACTGACGATCAGATTACAGAGTACAGGGAATCTTTCAGGTTA TTCGACAAGAATGGTGATGGTATGGTTCATCAACTCTTTCCATTTAATCGTAATGTTGGATCAT GATCATCTTCAAAGCAATGAAATGACTAACACTAGTCCTTGATTACTTTTTGTAGGTTCCATTA CGAAAAAGGAGCTCCGTACCGTGATGTTTTCCCTCGGTAAAAACCGGACAAAAGCTGATCTTCA GGACATGATGAACGAAGTGGATTTAGATGGTGATGGAACCATCGATTTCCCTGAGTTCTTGTAC CTAATGGCTAAGAATCAAGGTCATGATCAAGCGCCGCGTCACACTAAAAAAACAATGGTGGATT ATCAGCTCACTGACGATCAGATCTTAGAATTCAGGGAAGCCTTCCGCGTATTCGACAAGAATGG TGATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.16930111

Conservation Information
Conserved circRNAs	NA
PMCS	0.16930111

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT2G41100_circ_g.1

Address

Any questions?

Supported by