Plant Circular RNA Database

Detail information of AT2G43240_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT2G43240_circ_g.4
					
						ID in PlantcircBase
						ath_circ_018118
					
						Alias
						2:17972987-17974419
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 17972987-17974419  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G43240						
					
						Parent gene annotation
						
							CMP-sialic acid transporter 2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G43240_circ_g.2 AT2G43240_circ_g.3 AT2G43240_circ_g.5 AT2G43240_circ_g.6 AT2G43240_circ_g.7 						
					
						Support reads
						1/1
					
						Tissues
						seedling;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  
						
							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
						AT2G43240.1:4
AT2G43240.2:3

General Information
CircRNA Name	AT2G43240_circ_g.4
ID in PlantcircBase	ath_circ_018118
Alias	2:17972987-17974419
Organism	Arabidpsis thaliana
Position	chr2: 17972987-17974419 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G43240
Parent gene annotation	CMP-sialic acid transporter 2
Parent gene strand	-
Alternative splicing	AT2G43240_circ_g.2 AT2G43240_circ_g.3 AT2G43240_circ_g.5 AT2G43240_circ_g.6 AT2G43240_circ_g.7
Support reads	1/1
Tissues	seedling;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	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	AT2G43240.1:4 AT2G43240.2:3

			
						 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  
						
							AATCCTAGTAATTCTAAATTGCCTAGTTGCCAAGATGATGTACCTGGACAAACGTGGAAAGAGA
TAGTAGAGGTTTCTCTCCAACTTTTTGGTGCCTGGCaaagataaaggtacatatgtatgcaccc
gtagcaattggaacagccacagttgtagctccttcaggaagagaacgcagctgatttatactaa
tccctatc

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					
						Genomic sequence
						
							AAAGATAAAGGTACATATGTATGCACCCGTAGCAATTGGAACAGCCACAGTTGTAGCTCCTTCA
GGAAGAGAACGCAGCTGATTTATACTAATCCCTATCAGCAACAAAGCAAGTGCTTCCCACTACA
ACAAAAAATAACATATTAAATCCCAATAAGAGTAGGAGATAAGGATGGTCAAATAGATACATCC
ATAATTATATGTATGATACTATAATAATCACACATACAATAACCAAGAATAAGTGAAGTGACCT
GTATGATGGAAAACCGACGCTTCATTATCATCTTCAGTAGTACAGCAATCACCAGAACTTTTAG
ATTGCTGAGCATCTTCACAGTAGCAGGATTGAAATATAGCTGGCACAGCAGAAAAGTGAATTGC
TGTGTGAAACTAAAATAATAGAAAAAGAGATAGAAGCAAATAGAAGCCAAGTAGGCTAGATAAA
TACAACAACAGAGCTTAATGTAACTATCTTGTGAGCAATTGTTCAGTGCAACTTTCACAGCACA
CTCAAACATCTATCACCAAAAGCCAGCATGACATATTGCAGAATGCCGATCAGGACTTGGGAAA
GATAACGATTATGGAAAGTAGAGGGAAATAACCTCTACTTAGAAATGATAATGTAATAATATAC
TCAGGGACCAGTAGTGTCAAGACCAAGAAATGAAAAGTAACAAAACAGAGTTTGTCCTCGAGAA
GAAGTTAAACCAATGATCAACAAATTTGATCAAATTGAGAATATACTCGAGGAGAAGCAAATCA
AGGATTCTTACAAAACCCACTTACGAACTATGTTAGACAGCCACATTAGGCTTCCTTGCATTCC
AAAACTATTGCTACGTTCCTATGGTGTCAAAACACCAAATGATACTTTCTCGCCACAAAGCTAA
AACCTTTTTACTATATAACTCAAGACAGCTAGGAAAATTTTCAATGAAACTACATTTCTGCAGC
TTAATTACCAAAGGATGCACAAAGTGAAAAATAAGAAGCACATGTACCTGCATTGTGAACTTAA
GATAGTTATTAATGGCATACAACCCTGCTGGAACAGCGAGAAGCATATTGTTCCGAGCTGCCTG
CGAAATAAAGGCTCAAGTTACTGCAACTTGCATTATATATAGTTTAAGAAAAAATGAATTACTC
AGAAGTTTCGAGTTTAATAATGGGGACTAATTTAAGAAAAAATATAATACTAGATGATCTAATG
GTGACATAACATCTACATTTCGAACAATCATGCTTTGAAAACCAGATGTATAACATATGCCACA
CCCATTGGACATTAAGATTTCAAGAAACTAATCTTACTTTGAGACTATGCCACAATCCTAGTAA
TTCTAAATTGCCTAGTTGCCAAGATGATGTACCTGGACAAACGTGGAAAGAGATAGTAGAGGTT
TCTCTCCAACTTTTTGGTGCCTGGC

Sequences
Splice junction sequence	AATCCTAGTAATTCTAAATTGCCTAGTTGCCAAGATGATGTACCTGGACAAACGTGGAAAGAGA TAGTAGAGGTTTCTCTCCAACTTTTTGGTGCCTGGCaaagataaaggtacatatgtatgcaccc gtagcaattggaacagccacagttgtagctccttcaggaagagaacgcagctgatttatactaa tccctatc
Assembled circRNA sequence	NA 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	NA
Genomic sequence	AAAGATAAAGGTACATATGTATGCACCCGTAGCAATTGGAACAGCCACAGTTGTAGCTCCTTCA GGAAGAGAACGCAGCTGATTTATACTAATCCCTATCAGCAACAAAGCAAGTGCTTCCCACTACA ACAAAAAATAACATATTAAATCCCAATAAGAGTAGGAGATAAGGATGGTCAAATAGATACATCC ATAATTATATGTATGATACTATAATAATCACACATACAATAACCAAGAATAAGTGAAGTGACCT GTATGATGGAAAACCGACGCTTCATTATCATCTTCAGTAGTACAGCAATCACCAGAACTTTTAG ATTGCTGAGCATCTTCACAGTAGCAGGATTGAAATATAGCTGGCACAGCAGAAAAGTGAATTGC TGTGTGAAACTAAAATAATAGAAAAAGAGATAGAAGCAAATAGAAGCCAAGTAGGCTAGATAAA TACAACAACAGAGCTTAATGTAACTATCTTGTGAGCAATTGTTCAGTGCAACTTTCACAGCACA CTCAAACATCTATCACCAAAAGCCAGCATGACATATTGCAGAATGCCGATCAGGACTTGGGAAA GATAACGATTATGGAAAGTAGAGGGAAATAACCTCTACTTAGAAATGATAATGTAATAATATAC TCAGGGACCAGTAGTGTCAAGACCAAGAAATGAAAAGTAACAAAACAGAGTTTGTCCTCGAGAA GAAGTTAAACCAATGATCAACAAATTTGATCAAATTGAGAATATACTCGAGGAGAAGCAAATCA AGGATTCTTACAAAACCCACTTACGAACTATGTTAGACAGCCACATTAGGCTTCCTTGCATTCC AAAACTATTGCTACGTTCCTATGGTGTCAAAACACCAAATGATACTTTCTCGCCACAAAGCTAA AACCTTTTTACTATATAACTCAAGACAGCTAGGAAAATTTTCAATGAAACTACATTTCTGCAGC TTAATTACCAAAGGATGCACAAAGTGAAAAATAAGAAGCACATGTACCTGCATTGTGAACTTAA GATAGTTATTAATGGCATACAACCCTGCTGGAACAGCGAGAAGCATATTGTTCCGAGCTGCCTG CGAAATAAAGGCTCAAGTTACTGCAACTTGCATTATATATAGTTTAAGAAAAAATGAATTACTC AGAAGTTTCGAGTTTAATAATGGGGACTAATTTAAGAAAAAATATAATACTAGATGATCTAATG GTGACATAACATCTACATTTCGAACAATCATGCTTTGAAAACCAGATGTATAACATATGCCACA CCCATTGGACATTAAGATTTCAAGAAACTAATCTTACTTTGAGACTATGCCACAATCCTAGTAA TTCTAAATTGCCTAGTTGCCAAGATGATGTACCTGGACAAACGTGGAAAGAGATAGTAGAGGTT TCTCTCCAACTTTTTGGTGCCTGGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.118717486

Conservation Information
Conserved circRNAs	NA
PMCS	0.118717486

			
						 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 AT2G43240_circ_g.4

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