Plant Circular RNA Database

Detail information of AT1G26550_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G26550_circ_g.1
					
						ID in PlantcircBase
						ath_circ_004414
					
						Alias
						At_ciR2854
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 9171790-9172190  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ, CIRI-full
					
						Parent gene
						
							AT1G26550						
					
						Parent gene annotation
						
							Peptidyl-prolyl cis-trans isomerase
							
						Parent gene strand
						+
					
						Alternative splicing
						
							1_circ_ag.2 AT1G26460_circ_g.1 AT1G26460_circ_g.2 AT1G26470_circ_g.1 AT1G26530_circ_g.1 AT1G26530_circ_g.2 AT1G26550_circ_g.2 AT1G26550_circ_g.3 AT1G26558_circ_g.1 AT1G26560_circ_g.1 AT1G26580_circ_g.1 AT1G26620_circ_g.1 AT1G26620_circ_g.2 AT1G26630_circ_g.1 AT1G26630_circ_g.2 AT1G26660_circ_g.1 AT1G26660_circ_g.2 AT1G26660_circ_g.3 AT1G26660_circ_g.4 AT1G26665_circ_g.1 AT1G26665_circ_g.2 AT1G26690_circ_g.1 AT1G26730_circ_g.1 AT1G26730_circ_g.2 AT1G26730_circ_g.3 AT1G26730_circ_g.4 AT1G26761_circ_g.1 AT1G26770_circ_g.1 AT1G26770_circ_g.2 AT1G26830_circ_g.1 AT1G26830_circ_g.2 AT1G26850_circ_g.1 AT1G26850_circ_g.2 AT1G26850_circ_g.3 AT1G26850_circ_g.4 AT1G26880_circ_g.1 AT1G26880_circ_g.2 AT1G26940_circ_g.1 AT1G26940_circ_g.2 AT1G26940_circ_g.3 AT1G27000_circ_g.1 AT1G27000_circ_g.2 AT1G27000_circ_g.3 AT1G27000_circ_g.4 AT1G27000_circ_g.5 AT1G27000_circ_g.6 AT1G27000_circ_g.7 AT1G27000_circ_g.8 AT1G27030_circ_g.1 AT1G27030_circ_g.2 AT1G27030_circ_g.3 AT1G27030_circ_g.4 AT1G27030_circ_g.5 AT1G27030_circ_g.6 AT1G27030_circ_g.7 AT1G27030_circ_g.8 AT1G27030_circ_g.9 AT1G27045_circ_g.1 AT1G27090_circ_g.1 AT1G27090_circ_g.2 AT1G27090_circ_g.3 AT1G27090_circ_g.4 AT1G27090_circ_g.5 AT1G27090_circ_g.6 AT1G27090_circ_g.7 AT1G27090_circ_g.8 AT1G27100_circ_g.1 AT1G27100_circ_g.2 AT1G27100_circ_g.3 AT1G27150_circ_g.1 AT1G27150_circ_g.2 AT1G27150_circ_g.3 1_circ_ag.4 1_circ_ag.5 AT1G27180_circ_g.1 AT1G27190_circ_g.1 AT1G27210_circ_g.1 AT1G27290_circ_g.1 AT1G27290_circ_g.2 AT1G27310_circ_g.1 AT1G27310_circ_g.2 						
					
						Support reads
						3
					
						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
						AT1G26550.1:2

General Information
CircRNA Name	AT1G26550_circ_g.1
ID in PlantcircBase	ath_circ_004414
Alias	At_ciR2854
Organism	Arabidpsis thaliana
Position	chr1: 9171790-9172190 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ, CIRI-full
Parent gene	AT1G26550
Parent gene annotation	Peptidyl-prolyl cis-trans isomerase
Parent gene strand	+
Alternative splicing	1_circ_ag.2 AT1G26460_circ_g.1 AT1G26460_circ_g.2 AT1G26470_circ_g.1 AT1G26530_circ_g.1 AT1G26530_circ_g.2 AT1G26550_circ_g.2 AT1G26550_circ_g.3 AT1G26558_circ_g.1 AT1G26560_circ_g.1 AT1G26580_circ_g.1 AT1G26620_circ_g.1 AT1G26620_circ_g.2 AT1G26630_circ_g.1 AT1G26630_circ_g.2 AT1G26660_circ_g.1 AT1G26660_circ_g.2 AT1G26660_circ_g.3 AT1G26660_circ_g.4 AT1G26665_circ_g.1 AT1G26665_circ_g.2 AT1G26690_circ_g.1 AT1G26730_circ_g.1 AT1G26730_circ_g.2 AT1G26730_circ_g.3 AT1G26730_circ_g.4 AT1G26761_circ_g.1 AT1G26770_circ_g.1 AT1G26770_circ_g.2 AT1G26830_circ_g.1 AT1G26830_circ_g.2 AT1G26850_circ_g.1 AT1G26850_circ_g.2 AT1G26850_circ_g.3 AT1G26850_circ_g.4 AT1G26880_circ_g.1 AT1G26880_circ_g.2 AT1G26940_circ_g.1 AT1G26940_circ_g.2 AT1G26940_circ_g.3 AT1G27000_circ_g.1 AT1G27000_circ_g.2 AT1G27000_circ_g.3 AT1G27000_circ_g.4 AT1G27000_circ_g.5 AT1G27000_circ_g.6 AT1G27000_circ_g.7 AT1G27000_circ_g.8 AT1G27030_circ_g.1 AT1G27030_circ_g.2 AT1G27030_circ_g.3 AT1G27030_circ_g.4 AT1G27030_circ_g.5 AT1G27030_circ_g.6 AT1G27030_circ_g.7 AT1G27030_circ_g.8 AT1G27030_circ_g.9 AT1G27045_circ_g.1 AT1G27090_circ_g.1 AT1G27090_circ_g.2 AT1G27090_circ_g.3 AT1G27090_circ_g.4 AT1G27090_circ_g.5 AT1G27090_circ_g.6 AT1G27090_circ_g.7 AT1G27090_circ_g.8 AT1G27100_circ_g.1 AT1G27100_circ_g.2 AT1G27100_circ_g.3 AT1G27150_circ_g.1 AT1G27150_circ_g.2 AT1G27150_circ_g.3 1_circ_ag.4 1_circ_ag.5 AT1G27180_circ_g.1 AT1G27190_circ_g.1 AT1G27210_circ_g.1 AT1G27290_circ_g.1 AT1G27290_circ_g.2 AT1G27310_circ_g.1 AT1G27310_circ_g.2
Support reads	3
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	AT1G26550.1:2

			
						 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  
						
							TTTGTGCGAGAAGCAAGGAAAGATCAACGAGGCCTACAAAAAGTTGCAGGATGGTTGGTTGAGC
AACGGAGACAAGGTTCCTCCTGCTGAGTTTGCAAAGttttaattcgatggggaaggacgcaaaa
gctggtgggaagggtaaaggaaagcaagcaagtggtagtgaagaagctccctccaagggtaaag
gaaaagca

						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: 253
Transcript exons: 9171790-9171932,9172081-9172190
TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAAGCAAGCAAGTGGT
AGTGAAGAAGCTCCCTCCAAGGGTAAAGGAAAAGCAGGAAAAGCTGCAGATGGTCTTGGGACAT
GCACTTATGTTAAAGCAAGACATGTTTTGTGCGAGAAGCAAGGAAAGATCAACGAGGCCTACAA
AAAGTTGCAGGATGGTTGGTTGAGCAACGGAGACAAGGTTCCTCCTGCTGAGTTTGCAAAG
						
						Genomic sequence
						
							TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAAGCAAGCAAGTGGT
AGTGAAGAAGCTCCCTCCAAGGGTAAAGGAAAAGCAGGAAAAGCTGCAGATGGTCTTGGGACAT
GCACTTATGTTAAAGGTGTGTTTTTTGGATTCGTTTCTGTGCCTGTTACCTTTGTTCATGAGTA
AAAAATACTGGTAAACAAATATGGATCCAAAAGTTCTCTTACAACTTTTGTATTAGTACAATAG
CATTAAAGTCAAATCTCCAATTGTTTTTGTTTCAGCAAGACATGTTTTGTGCGAGAAGCAAGGA
AAGATCAACGAGGCCTACAAAAAGTTGCAGGATGGTTGGTTGAGCAACGGAGACAAGGTTCCTC
CTGCTGAGTTTGCAAAG

Sequences
Splice junction sequence	TTTGTGCGAGAAGCAAGGAAAGATCAACGAGGCCTACAAAAAGTTGCAGGATGGTTGGTTGAGC AACGGAGACAAGGTTCCTCCTGCTGAGTTTGCAAAGttttaattcgatggggaaggacgcaaaa gctggtgggaagggtaaaggaaagcaagcaagtggtagtgaagaagctccctccaagggtaaag gaaaagca
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: 253 Transcript exons: 9171790-9171932,9172081-9172190 TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAAGCAAGCAAGTGGT AGTGAAGAAGCTCCCTCCAAGGGTAAAGGAAAAGCAGGAAAAGCTGCAGATGGTCTTGGGACAT GCACTTATGTTAAAGCAAGACATGTTTTGTGCGAGAAGCAAGGAAAGATCAACGAGGCCTACAA AAAGTTGCAGGATGGTTGGTTGAGCAACGGAGACAAGGTTCCTCCTGCTGAGTTTGCAAAG
Genomic sequence	TTTTAATTCGATGGGGAAGGACGCAAAAGCTGGTGGGAAGGGTAAAGGAAAGCAAGCAAGTGGT AGTGAAGAAGCTCCCTCCAAGGGTAAAGGAAAAGCAGGAAAAGCTGCAGATGGTCTTGGGACAT GCACTTATGTTAAAGGTGTGTTTTTTGGATTCGTTTCTGTGCCTGTTACCTTTGTTCATGAGTA AAAAATACTGGTAAACAAATATGGATCCAAAAGTTCTCTTACAACTTTTGTATTAGTACAATAG CATTAAAGTCAAATCTCCAATTGTTTTTGTTTCAGCAAGACATGTTTTGTGCGAGAAGCAAGGA AAGATCAACGAGGCCTACAAAAAGTTGCAGGATGGTTGGTTGAGCAACGGAGACAAGGTTCCTC CTGCTGAGTTTGCAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.246968591

Conservation Information
Conserved circRNAs	NA
PMCS	0.246968591

			
						 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
						NA

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	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of AT1G26550_circ_g.1

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