Plant Circular RNA Database

Detail information of AT2G22970_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT2G22970_circ_g.4
					
						ID in PlantcircBase
						ath_circ_014470
					
						Alias
						AT2G22970_C1, AT2G22970_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 9775477-9776106  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							AT2G22970						
					
						Parent gene annotation
						
							Serine carboxypeptidase-like 11
							
						Parent gene strand
						+
					
						Alternative splicing
						
							2_circ_ag.3 2_circ_ag.4 2_circ_ag.5 AT2G22920_circ_g.1 2_circ_ag.2 2_circ_ag.3 2_circ_ag.4 2_circ_ag.5 2_circ_ag.6 AT2G22920_circ_g.7 AT2G22920_circ_g.8 AT2G22920_circ_g.9 2_circ_ag.10 2_circ_ag.11 2_circ_ag.12 AT2G22920_circ_g.13 2_circ_ag.14 2_circ_ag.15 2_circ_ag.16 2_circ_ag.17 2_circ_ag.18 2_circ_ag.19 2_circ_ag.20 AT2G22970_circ_g.1 2_circ_ag.2 2_circ_ag.3 AT2G22970_circ_g.5 AT2G22970_circ_g.6 2_circ_ag.7 2_circ_ag.8 2_circ_ag.9 2_circ_ag.10 2_circ_ag.11 AT2G22980_circ_g.1 AT2G22980_circ_g.2 2_circ_ag.3 2_circ_ag.4 2_circ_ag.5 2_circ_ag.6 AT2G22990_circ_g.1 2_circ_ag.2 AT2G22990_circ_g.3 AT2G22990_circ_g.4 AT2G22990_circ_g.5 2_circ_ag.6 2_circ_ag.7 AT2G22990_circ_g.8 AT2G22990_circ_g.9 AT2G22990_circ_g.10 2_circ_ag.11 AT2G22990_circ_g.12 2_circ_ag.13 AT2G22990_circ_g.14 AT2G22990_circ_g.15 AT2G22990_circ_g.16 AT2G22990_circ_g.17 AT2G22990_circ_g.18 AT2G22990_circ_g.19 AT2G22990_circ_g.20 AT2G22990_circ_g.21 AT2G22990_circ_g.22 AT2G22990_circ_g.23 2_circ_ag.24 AT2G23000_circ_g.1 2_circ_ag.2 2_circ_ag.3 2_circ_ag.4 2_circ_ag.5 2_circ_ag.6 2_circ_ag.7 						
					
						Support reads
						NA
					
						Tissues
						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
						AT2G22970.4:2
AT2G22970.1:2
AT2G22970.3:2
AT2G22970.2:2

General Information
CircRNA Name	AT2G22970_circ_g.4
ID in PlantcircBase	ath_circ_014470
Alias	AT2G22970_C1, AT2G22970_C1
Organism	Arabidpsis thaliana
Position	chr2: 9775477-9776106 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRI2
Parent gene	AT2G22970
Parent gene annotation	Serine carboxypeptidase-like 11
Parent gene strand	+
Alternative splicing	2_circ_ag.3 2_circ_ag.4 2_circ_ag.5 AT2G22920_circ_g.1 2_circ_ag.2 2_circ_ag.3 2_circ_ag.4 2_circ_ag.5 2_circ_ag.6 AT2G22920_circ_g.7 AT2G22920_circ_g.8 AT2G22920_circ_g.9 2_circ_ag.10 2_circ_ag.11 2_circ_ag.12 AT2G22920_circ_g.13 2_circ_ag.14 2_circ_ag.15 2_circ_ag.16 2_circ_ag.17 2_circ_ag.18 2_circ_ag.19 2_circ_ag.20 AT2G22970_circ_g.1 2_circ_ag.2 2_circ_ag.3 AT2G22970_circ_g.5 AT2G22970_circ_g.6 2_circ_ag.7 2_circ_ag.8 2_circ_ag.9 2_circ_ag.10 2_circ_ag.11 AT2G22980_circ_g.1 AT2G22980_circ_g.2 2_circ_ag.3 2_circ_ag.4 2_circ_ag.5 2_circ_ag.6 AT2G22990_circ_g.1 2_circ_ag.2 AT2G22990_circ_g.3 AT2G22990_circ_g.4 AT2G22990_circ_g.5 2_circ_ag.6 2_circ_ag.7 AT2G22990_circ_g.8 AT2G22990_circ_g.9 AT2G22990_circ_g.10 2_circ_ag.11 AT2G22990_circ_g.12 2_circ_ag.13 AT2G22990_circ_g.14 AT2G22990_circ_g.15 AT2G22990_circ_g.16 AT2G22990_circ_g.17 AT2G22990_circ_g.18 AT2G22990_circ_g.19 AT2G22990_circ_g.20 AT2G22990_circ_g.21 AT2G22990_circ_g.22 AT2G22990_circ_g.23 2_circ_ag.24 AT2G23000_circ_g.1 2_circ_ag.2 2_circ_ag.3 2_circ_ag.4 2_circ_ag.5 2_circ_ag.6 2_circ_ag.7
Support reads	NA
Tissues	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	AT2G22970.4:2 AT2G22970.1:2 AT2G22970.3:2 AT2G22970.2:2

			
						 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  
						
							CTAAGCAAGCATCCACAGTTTTCTTCCAACCATTTTTATGCTGGCGGAGATTCTTATTCCGGTA
TGATTGTTCCGGCCCTCGTTCAAGAAATCTCGAAAGacggcgaacataatattcttggatcaac
ctgttggagctggcttctcctactcaagagctccacttattgatacacctactgacacaggaga
agttaaga

						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: 226
Transcript exons: 9775477-9775599,9776004-9776106
ACGGCGAACATAATATTCTTGGATCAACCTGTTGGAGCTGGCTTCTCCTACTCAAGAGCTCCAC
TTATTGATACACCTACTGACACAGGAGAAGTTAAGAGGATTCATGAGTTTCTCCAAAAGTGGCT
AAGCAAGCATCCACAGTTTTCTTCCAACCATTTTTATGCTGGCGGAGATTCTTATTCCGGTATG
ATTGTTCCGGCCCTCGTTCAAGAAATCTCGAAAG
						
						Genomic sequence
						
							ACGGCGAACATAATATTCTTGGATCAACCTGTTGGAGCTGGCTTCTCCTACTCAAGAGCTCCAC
TTATTGATACACCTACTGACACAGGAGAAGTTAAGAGGATTCATGAGTTTCTCCAAAAGGTAAA
CACGTAACTTAATTTGTCATCTCAAAGCATTTGTCATTTTGTCTCTTTGCATTAACGCGCTTGT
GTATGTTGTAATTCGTGAATACTTAATAATCCCTTCGTTCGGTACGGTTTAATATTTTTAACAC
AAATTAATAAAAAATTAAATTATTTGTTTTACTACCTTTTATTAATATGTTTTACAAAAAAAAT
CATTAGTTAACAAAGATATATATTTTATTATAAATCTATATTGAAAATCTAAAACGTTACTTTT
TGTGAAACAAATTTTAAGTTAGAAAAGGACACTTCAGCTAAAATGTATTTGAACTCACTAAAAC
ATTTTGTTTCGTTTAGCCTTCAAATCTTCCCAAATTATTTTAACACCAACCTTAAGAATTTTTT
TTTGTTCCTTTTTAGTGGCTAAGCAAGCATCCACAGTTTTCTTCCAACCATTTTTATGCTGGCG
GAGATTCTTATTCCGGTATGATTGTTCCGGCCCTCGTTCAAGAAATCTCGAAAG

Sequences
Splice junction sequence	CTAAGCAAGCATCCACAGTTTTCTTCCAACCATTTTTATGCTGGCGGAGATTCTTATTCCGGTA TGATTGTTCCGGCCCTCGTTCAAGAAATCTCGAAAGacggcgaacataatattcttggatcaac ctgttggagctggcttctcctactcaagagctccacttattgatacacctactgacacaggaga agttaaga
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: 226 Transcript exons: 9775477-9775599,9776004-9776106 ACGGCGAACATAATATTCTTGGATCAACCTGTTGGAGCTGGCTTCTCCTACTCAAGAGCTCCAC TTATTGATACACCTACTGACACAGGAGAAGTTAAGAGGATTCATGAGTTTCTCCAAAAGTGGCT AAGCAAGCATCCACAGTTTTCTTCCAACCATTTTTATGCTGGCGGAGATTCTTATTCCGGTATG ATTGTTCCGGCCCTCGTTCAAGAAATCTCGAAAG
Genomic sequence	ACGGCGAACATAATATTCTTGGATCAACCTGTTGGAGCTGGCTTCTCCTACTCAAGAGCTCCAC TTATTGATACACCTACTGACACAGGAGAAGTTAAGAGGATTCATGAGTTTCTCCAAAAGGTAAA CACGTAACTTAATTTGTCATCTCAAAGCATTTGTCATTTTGTCTCTTTGCATTAACGCGCTTGT GTATGTTGTAATTCGTGAATACTTAATAATCCCTTCGTTCGGTACGGTTTAATATTTTTAACAC AAATTAATAAAAAATTAAATTATTTGTTTTACTACCTTTTATTAATATGTTTTACAAAAAAAAT CATTAGTTAACAAAGATATATATTTTATTATAAATCTATATTGAAAATCTAAAACGTTACTTTT TGTGAAACAAATTTTAAGTTAGAAAAGGACACTTCAGCTAAAATGTATTTGAACTCACTAAAAC ATTTTGTTTCGTTTAGCCTTCAAATCTTCCCAAATTATTTTAACACCAACCTTAAGAATTTTTT TTTGTTCCTTTTTAGTGGCTAAGCAAGCATCCACAGTTTTCTTCCAACCATTTTTATGCTGGCG GAGATTCTTATTCCGGTATGATTGTTCCGGCCCTCGTTCAAGAAATCTCGAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.258497949

Conservation Information
Conserved circRNAs	NA
PMCS	0.258497949

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9776071-9775544(+)
						
						Potential amino acid sequence
						
							MIVPALVQEISKDGEHNILGSTCWSWLLLLKSSTY*
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	Y
Potential coding position	9776071-9775544(+)
Potential amino acid sequence	MIVPALVQEISKDGEHNILGSTCWSWLLLLKSSTY*
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress

			
						 Other Information
					
						References
						Zhang et al., 2019

circRNA

Detail information of AT2G22970_circ_g.4

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