Plant Circular RNA Database

Detail information of AT2G16950_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT2G16950_circ_g.3
					
						ID in PlantcircBase
						ath_circ_013492
					
						Alias
						2:7354907-7356473
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 7354907-7356473  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G16950						
					
						Parent gene annotation
						
							transportin 1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G16950_circ_g.1 AT2G16950_circ_g.2 AT2G16950_circ_g.4 AT2G16950_circ_g.5 AT2G16950_circ_g.6 AT2G16950_circ_g.7 AT2G16950_circ_g.8 AT2G16950_circ_g.9 AT2G16950_circ_g.10 AT2G16950_circ_g.11 AT2G16950_circ_g.12 AT2G16950_circ_g.13 AT2G16950_circ_g.14 AT2G16950_circ_g.15 AT2G16950_circ_g.16 AT2G16950_circ_g.17 AT2G16950_circ_g.18 AT2G16950_circ_g.19 2_circ_ag.20 AT2G16950_circ_g.21 AT2G16950_circ_g.22 2_circ_ag.23 AT2G16950_circ_g.24 AT2G16950_circ_g.25 2_circ_ag.26 AT2G16950_circ_g.27 AT2G16950_circ_g.28 AT2G16950_circ_g.29 						
					
						Support reads
						2
					
						Tissues
						flower
					
						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
						AT2G16950.1:7
AT2G16950.2:7

General Information
CircRNA Name	AT2G16950_circ_g.3
ID in PlantcircBase	ath_circ_013492
Alias	2:7354907-7356473
Organism	Arabidpsis thaliana
Position	chr2: 7354907-7356473 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G16950
Parent gene annotation	transportin 1
Parent gene strand	+
Alternative splicing	AT2G16950_circ_g.1 AT2G16950_circ_g.2 AT2G16950_circ_g.4 AT2G16950_circ_g.5 AT2G16950_circ_g.6 AT2G16950_circ_g.7 AT2G16950_circ_g.8 AT2G16950_circ_g.9 AT2G16950_circ_g.10 AT2G16950_circ_g.11 AT2G16950_circ_g.12 AT2G16950_circ_g.13 AT2G16950_circ_g.14 AT2G16950_circ_g.15 AT2G16950_circ_g.16 AT2G16950_circ_g.17 AT2G16950_circ_g.18 AT2G16950_circ_g.19 2_circ_ag.20 AT2G16950_circ_g.21 AT2G16950_circ_g.22 2_circ_ag.23 AT2G16950_circ_g.24 AT2G16950_circ_g.25 2_circ_ag.26 AT2G16950_circ_g.27 AT2G16950_circ_g.28 AT2G16950_circ_g.29
Support reads	2
Tissues	flower
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	AT2G16950.1:7 AT2G16950.2:7

			
						 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  
						
							TGATAACATAAAAGTTATATTGTTGTTTGGCAGGTCTGCATACTGTGATGCTCAGCTACCTCCA
GAGAACTTGAAAGAGTTTCTGCCACGCCTAATTCCAggaaagtctgttgaggttcgtcaagctg
ctggattgcttttgaaaaataatttgaggggtgcttatccatccatgactcaagaaaaccaaaa
atatatca

									
								

					

						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: 741
Transcript exons: 7354907-7355194,7355367-7355456,7355585-7355662,7355750-
7355830,7356006-7356056,7356205-7356290,7356407-7356473
GGAAAGTCTGTTGAGGTTCGTCAAGCTGCTGGATTGCTTTTGAAAAATAATTTGAGGGGTGCTT
ATCCATCCATGACTCAAGAAAACCAAAAATATATCAAGTCAGAGTTACTGCCTTGTCTGGGAGC
AGCGGACAGGAATATACGGACTACAGTTGGAACTATCATCAGTGTTATTGTTAATATTGAGGGA
GTTTCTGGATGGCATGAGCTTTTGCCAGCTCTTGTTACTTGTTTAGACAGTAATGACCTTAATC
ACATGGATGGTGCTATGGATGCATTGTCAAAGATTTGTGAGGATATTCCGCATGTCTTGGATAC
AGAAGTGCCTGGCTTAGCAGAACGCCCTATCAACATTTTCCTGCCTAGGCTATTACAGTTTTTT
CAGTCACCCCATGCTTCACTGAGGAAGCTTGCCCTGGGTTCTGTGAACCAGTATATCATTATAA
TGCCTGCTGCTTTGTACAATTCATTGGATAAGTACCTTCAGGGGTTGTTTGTCCTAGCCAATGA
TCCTGTACCAGAAGTCAGAAAATTGGTCTGCGCAGCATTTGTGCATCTCACGGAAGTACTCCCC
TCATCTATAGAGCCGCATCTCAGGAATGTCATGGAATACATGTTACAAGTTAATAGAGACCCTG
ACGAAGAAGTGTCGCTCGAAGCATGTGAATTTTGGTCTGCATACTGTGATGCTCAGCTACCTCC
AGAGAACTTGAAAGAGTTTCTGCCACGCCTAATTCCA
						
					

						Genomic sequence
						
							GGAAAGTCTGTTGAGGTTCGTCAAGCTGCTGGATTGCTTTTGAAAAATAATTTGAGGGGTGCTT
ATCCATCCATGACTCAAGAAAACCAAAAATATATCAAGTCAGAGTTACTGCCTTGTCTGGGAGC
AGCGGACAGGAATATACGGACTACAGTTGGAACTATCATCAGTGTTATTGTTAATATTGAGGGA
GTTTCTGGATGGCATGAGCTTTTGCCAGCTCTTGTTACTTGTTTAGACAGTAATGACCTTAATC
ACATGGATGGTGCTATGGATGCATTGTCAAAGGTATGTAGCAGCTATGTGTTCTCTTTTCTGTT
TCTTGCTCTTTTCGTTGAACCTTTGATTTATGAACCATAAGCTTGTGTAATCCAAAGTTGTGAT
TGTTGGTTTTGATGATATATTTGGAGTTTTTTTCAAAGTTTTTCTAATATCTACATGTCGTATT
CTTATCAATCAGATTTGTGAGGATATTCCGCATGTCTTGGATACAGAAGTGCCTGGCTTAGCAG
AACGCCCTATCAACATTTTCCTGCCTAGGCTATTACAGGTAAACATCTCTTATTCCTACACAGA
TTTTGGAACTCGGTTGTAGCACTTGTTTAGGTTCTAGTTTGATTTCTTTCGTCCTGTTGGATTG
GTTGCGTTAAGATTGATTACCTCTCTTTTTTTGAGCAGTTTTTTCAGTCACCCCATGCTTCACT
GAGGAAGCTTGCCCTGGGTTCTGTGAACCAGTATATCATTATAATGCCTGCTGTAAGTATTGCG
AAGACTACTTGTAAGCTTCGTTTTTGTTTTATATGTTATTAAGGACCGTAAATGGTAACAATCT
GAGTTTGGCAGGCTTTGTACAATTCATTGGATAAGTACCTTCAGGGGTTGTTTGTCCTAGCCAA
TGATCCTGTACCAGAAGTCAGAAAATTGGTATGCCTCTTATTTAAGCTTCTGTCAATTGTTTCT
TATTTTTGTCAGTACAGGAGAGAGTGATTTCGTGTTGAAGAATTTTTTCTTTAGATGACATATG
ATTCAATCAGATTCCTATCTCATATCGGATGTTCTTATGCTTCTGTAATAATGTCTTTTCTTCT
TTTGTTAAAAGGTCTGCGCAGCATTTGTGCATCTCACGGAAGTACTCCCCTCATCTATAGAGGT
ATTTTTCTTTGTGGTTTTAGTATACACATTGTTTCAAATCTATTCCAAAGTTTCCCTTTTTTTT
TGAGGTACTTCATATGTGTAGTTTGAGCATTTCTTCTACCTTGCATCTCTGATTTGTCTTCTTC
CCTTATTTTCTATTTCAGCCGCATCTCAGGAATGTCATGGAATACATGTTACAAGTTAATAGAG
ACCCTGACGAAGAAGTGTCGCTCGAAGCATGTGAATTTTGGTAAAATGCTATTCTCTTTATTTT
CTCTATAGATGACTTTTTTATACCTGTTTTTTCTCTTATGTTTTATCCTTGTCCTCATTTGATA
ACATAAAAGTTATATTGTTGTTTGGCAGGTCTGCATACTGTGATGCTCAGCTACCTCCAGAGAA
CTTGAAAGAGTTTCTGCCACGCCTAATTCCA
						
					

			
		

Sequences
Splice junction sequence	TGATAACATAAAAGTTATATTGTTGTTTGGCAGGTCTGCATACTGTGATGCTCAGCTACCTCCA GAGAACTTGAAAGAGTTTCTGCCACGCCTAATTCCAggaaagtctgttgaggttcgtcaagctg ctggattgcttttgaaaaataatttgaggggtgcttatccatccatgactcaagaaaaccaaaa atatatca
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: 741 Transcript exons: 7354907-7355194,7355367-7355456,7355585-7355662,7355750- 7355830,7356006-7356056,7356205-7356290,7356407-7356473 GGAAAGTCTGTTGAGGTTCGTCAAGCTGCTGGATTGCTTTTGAAAAATAATTTGAGGGGTGCTT ATCCATCCATGACTCAAGAAAACCAAAAATATATCAAGTCAGAGTTACTGCCTTGTCTGGGAGC AGCGGACAGGAATATACGGACTACAGTTGGAACTATCATCAGTGTTATTGTTAATATTGAGGGA GTTTCTGGATGGCATGAGCTTTTGCCAGCTCTTGTTACTTGTTTAGACAGTAATGACCTTAATC ACATGGATGGTGCTATGGATGCATTGTCAAAGATTTGTGAGGATATTCCGCATGTCTTGGATAC AGAAGTGCCTGGCTTAGCAGAACGCCCTATCAACATTTTCCTGCCTAGGCTATTACAGTTTTTT CAGTCACCCCATGCTTCACTGAGGAAGCTTGCCCTGGGTTCTGTGAACCAGTATATCATTATAA TGCCTGCTGCTTTGTACAATTCATTGGATAAGTACCTTCAGGGGTTGTTTGTCCTAGCCAATGA TCCTGTACCAGAAGTCAGAAAATTGGTCTGCGCAGCATTTGTGCATCTCACGGAAGTACTCCCC TCATCTATAGAGCCGCATCTCAGGAATGTCATGGAATACATGTTACAAGTTAATAGAGACCCTG ACGAAGAAGTGTCGCTCGAAGCATGTGAATTTTGGTCTGCATACTGTGATGCTCAGCTACCTCC AGAGAACTTGAAAGAGTTTCTGCCACGCCTAATTCCA
Genomic sequence	GGAAAGTCTGTTGAGGTTCGTCAAGCTGCTGGATTGCTTTTGAAAAATAATTTGAGGGGTGCTT ATCCATCCATGACTCAAGAAAACCAAAAATATATCAAGTCAGAGTTACTGCCTTGTCTGGGAGC AGCGGACAGGAATATACGGACTACAGTTGGAACTATCATCAGTGTTATTGTTAATATTGAGGGA GTTTCTGGATGGCATGAGCTTTTGCCAGCTCTTGTTACTTGTTTAGACAGTAATGACCTTAATC ACATGGATGGTGCTATGGATGCATTGTCAAAGGTATGTAGCAGCTATGTGTTCTCTTTTCTGTT TCTTGCTCTTTTCGTTGAACCTTTGATTTATGAACCATAAGCTTGTGTAATCCAAAGTTGTGAT TGTTGGTTTTGATGATATATTTGGAGTTTTTTTCAAAGTTTTTCTAATATCTACATGTCGTATT CTTATCAATCAGATTTGTGAGGATATTCCGCATGTCTTGGATACAGAAGTGCCTGGCTTAGCAG AACGCCCTATCAACATTTTCCTGCCTAGGCTATTACAGGTAAACATCTCTTATTCCTACACAGA TTTTGGAACTCGGTTGTAGCACTTGTTTAGGTTCTAGTTTGATTTCTTTCGTCCTGTTGGATTG GTTGCGTTAAGATTGATTACCTCTCTTTTTTTGAGCAGTTTTTTCAGTCACCCCATGCTTCACT GAGGAAGCTTGCCCTGGGTTCTGTGAACCAGTATATCATTATAATGCCTGCTGTAAGTATTGCG AAGACTACTTGTAAGCTTCGTTTTTGTTTTATATGTTATTAAGGACCGTAAATGGTAACAATCT GAGTTTGGCAGGCTTTGTACAATTCATTGGATAAGTACCTTCAGGGGTTGTTTGTCCTAGCCAA TGATCCTGTACCAGAAGTCAGAAAATTGGTATGCCTCTTATTTAAGCTTCTGTCAATTGTTTCT TATTTTTGTCAGTACAGGAGAGAGTGATTTCGTGTTGAAGAATTTTTTCTTTAGATGACATATG ATTCAATCAGATTCCTATCTCATATCGGATGTTCTTATGCTTCTGTAATAATGTCTTTTCTTCT TTTGTTAAAAGGTCTGCGCAGCATTTGTGCATCTCACGGAAGTACTCCCCTCATCTATAGAGGT ATTTTTCTTTGTGGTTTTAGTATACACATTGTTTCAAATCTATTCCAAAGTTTCCCTTTTTTTT TGAGGTACTTCATATGTGTAGTTTGAGCATTTCTTCTACCTTGCATCTCTGATTTGTCTTCTTC CCTTATTTTCTATTTCAGCCGCATCTCAGGAATGTCATGGAATACATGTTACAAGTTAATAGAG ACCCTGACGAAGAAGTGTCGCTCGAAGCATGTGAATTTTGGTAAAATGCTATTCTCTTTATTTT CTCTATAGATGACTTTTTTATACCTGTTTTTTCTCTTATGTTTTATCCTTGTCCTCATTTGATA ACATAAAAGTTATATTGTTGTTTGGCAGGTCTGCATACTGTGATGCTCAGCTACCTCCAGAGAA CTTGAAAGAGTTTCTGCCACGCCTAATTCCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.200621334

Conservation Information
Conserved circRNAs	NA
PMCS	0.200621334

			
						 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 AT2G16950_circ_g.3

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