Plant Circular RNA Database

Detail information of AT2G41720_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT2G41720_circ_g.1
					
						ID in PlantcircBase
						ath_circ_017867
					
						Alias
						2:17404354-17406192
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 17404354-17406192  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G41720						
					
						Parent gene annotation
						
							EMB2654
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1/1
					
						Tissues
						seedling
					
						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
						AT2G41720.1:4
AT2G41720.2:4
AT2G41720.3:4

General Information
CircRNA Name	AT2G41720_circ_g.1
ID in PlantcircBase	ath_circ_017867
Alias	2:17404354-17406192
Organism	Arabidpsis thaliana
Position	chr2: 17404354-17406192 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G41720
Parent gene annotation	EMB2654
Parent gene strand	-
Alternative splicing	NA
Support reads	1/1
Tissues	seedling
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	AT2G41720.1:4 AT2G41720.2:4 AT2G41720.3:4

			
						 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  
						
							TATCTGTCATTTTCTTGCATACTTCCAGAGCCTCTCTCCAGTTTCCACTAGAACCACAAGCATT
GATCAGGTTATTGTAGGTTGAACGACTAGGAGCAATcttcatcattgcttcaactttaccactc
ttcccgaaaagatgcagcatctgattagttaacccgatagaaagcgatggcaggtacggatcca
tcatttgg

									
								

					

						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: 1554
Transcript exons: 17404354-17404486,17404583-17404787,17404877-17404982,17
405083-17406192
CTTCATCATTGCTTCAACTTTACCACTCTTCCCGAAAAGATGCAGCATCTGATTAGTTAACCCG
ATAGAAAGCGATGGCAGGTACGGATCCATCATTTGGATGAGGTCTATTGCTCTTTTCCATTCCT
GCAAGGTGTTACAAGCCGAAAATATCTCAAAGAAGACCGCACCAGTGAAGGGGATTTCTTTTTC
CCGCATTAAATCCATCAGGACAAAGACATTTGACGGTTGACCTCCCTTGTTGAAAGCTCTCATC
AAAGCTGAACAAGCAATCGAATCTGGCTCTATTCCATTTGCCTCCATTTCCAGGAAGAGTTCAC
AAGCCTTTCCCCACTTTTCTGAAGCATTGTAAGCATGGAGCATTGAAGTGTATGCAATCACATC
AGGTTCGCACCCAGCCATTTTCATCTGGTTGAATATGGATTCTGCTTCTGTAACTTGACCCTGT
TTGCTGTAAGCACATAGAACCGAAGAGTACACCTCCTTTGTCAATGGAATACTGAGATCTTCCA
TCTCCTTCAAGTAACTAATTGCTTCAGGGTATTTTGACATCCTACATGAACCGCTTATAAGGAT
AGTGAAAGTAACAGAATCAGCTTTGACTTTCTTTTTTCTCATACTCTGATACAATGCAATGGCC
TTCTCAAGTTCTGCAGCATTTATATAGCTTCCAATGGCTGAGTTATAGGCTGCCGTATTGAGAT
TAATGCCTCTCGACTGTGCTGCGGAAAGTACAGTATCAACATTCACCTTTTTTTTAGACCTACT
ACAAGCAGCCAAAAGAGTGCATACTGAAACAACATTTGGCTTAATGCCATCTTGTTCCATCTGC
CGAAAGATTTCCACAGCTTCAGCTAGAAACCCATTAGACCCATAAGCATCAATCAATGCATTGT
AAGTAACAACATTTGGCTTTCTCCTTTCCTTCCTCATCATGAGGAATACCTCCTTTGCCTTCCC
AGGTTGACGTGATCTTCCATAAGAATTGAGCAAGCATGTATAAGAGACCACATCTGGGATAATA
CCATTCTGCTTGATATCTCCTAACACTGAGAGAGCAGTTCCACTCATTCCATGAACAGCATAGG
CACCCATTAAGGCATTATAGGAAACAATATTAGGCTTTAGACCTTCTGCAACCATTGCTTCGAA
CACGGCTCTGCAGTTTTCTATCTCTCCCTTGACAGAGTATAAATGCATGATGCTCGTAAATGTC
ACAACATCAGGTCTGCACTCAGCTCTCTTCTCCCTCATGGAATTGAAAAGATCAAGGGCTTGGC
TACTTTGACCGAGCTTTGACAGACAATATATAATGATATTGAAAGTTGTAGTATCGGGACGAAC
TTTAGCTCCCTTCATGAGCTCAAAATAAGATAGCGCCTTTGAATACTGACGACCACTCTTGTAT
GCTGACAACACAATGTTATGAGTGACCAAATCCGGTCCAACTCCGTTATCTGTCATTTTCTTGC
ATACTTCCAGAGCCTCTCTCCAGTTTCCACTAGAACCACAAGCATTGATCAGGTTATTGTAGGT
TGAACGACTAGGAGCAAT
						
					

						Genomic sequence
						
							CTTCATCATTGCTTCAACTTTACCACTCTTCCCGAAAAGATGCAGCATCTGATTAGTTAACCCG
ATAGAAAGCGATGGCAGGTACGGATCCATCATTTGGATGAGGTCTATTGCTCTTTTCCATTCCT
GCAAGCTGCAATGTTGAAAGAAGAAGGGTGATATATTGCTCTTTCTGTAATTCGAGCAAGTATT
TTACTGTAATGTTTTAAATAGACATACAAGAACTTACGTGTTACAAGCCGAAAATATCTCAAAG
AAGACCGCACCAGTGAAGGGGATTTCTTTTTCCCGCATTAAATCCATCAGGACAAAGACATTTG
ACGGTTGACCTCCCTTGTTGAAAGCTCTCATCAAAGCTGAACAAGCAATCGAATCTGGCTCTAT
TCCATTTGCCTCCATTTCCAGGAAGAGTTCACAAGCCTTTCCCCACTTTTCTGGCAACACAAAA
CCATTCCAAGCCAACTCAGATCCACTGAAAACATTTTGTTACCATTTTTAACAGTCTTACACTC
ATGGTATTTACCTGAAGCATTGTAAGCATGGAGCATTGAAGTGTATGCAATCACATCAGGTTCG
CACCCAGCCATTTTCATCTGGTTGAATATGGATTCTGCTTCTGTAACTTGACCCTGGAAATTAT
CACAAAGAAAGTGACAGTCAAACCATATGAAAATCAGAATTCTATTGAATACACACGTCTTCTT
CTGAGCTCAAACTCTAAGCACTTGCCTGTTTGCTGTAAGCACATAGAACCGAAGAGTACACCTC
CTTTGTCAATGGAATACTGAGATCTTCCATCTCCTTCAAGTAACTAATTGCTTCAGGGTATTTT
GACATCCTACATGAACCGCTTATAAGGATAGTGAAAGTAACAGAATCAGCTTTGACTTTCTTTT
TTCTCATACTCTGATACAATGCAATGGCCTTCTCAAGTTCTGCAGCATTTATATAGCTTCCAAT
GGCTGAGTTATAGGCTGCCGTATTGAGATTAATGCCTCTCGACTGTGCTGCGGAAAGTACAGTA
TCAACATTCACCTTTTTTTTAGACCTACTACAAGCAGCCAAAAGAGTGCATACTGAAACAACAT
TTGGCTTAATGCCATCTTGTTCCATCTGCCGAAAGATTTCCACAGCTTCAGCTAGAAACCCATT
AGACCCATAAGCATCAATCAATGCATTGTAAGTAACAACATTTGGCTTTCTCCTTTCCTTCCTC
ATCATGAGGAATACCTCCTTTGCCTTCCCAGGTTGACGTGATCTTCCATAAGAATTGAGCAAGC
ATGTATAAGAGACCACATCTGGGATAATACCATTCTGCTTGATATCTCCTAACACTGAGAGAGC
AGTTCCACTCATTCCATGAACAGCATAGGCACCCATTAAGGCATTATAGGAAACAATATTAGGC
TTTAGACCTTCTGCAACCATTGCTTCGAACACGGCTCTGCAGTTTTCTATCTCTCCCTTGACAG
AGTATAAATGCATGATGCTCGTAAATGTCACAACATCAGGTCTGCACTCAGCTCTCTTCTCCCT
CATGGAATTGAAAAGATCAAGGGCTTGGCTACTTTGACCGAGCTTTGACAGACAATATATAATG
ATATTGAAAGTTGTAGTATCGGGACGAACTTTAGCTCCCTTCATGAGCTCAAAATAAGATAGCG
CCTTTGAATACTGACGACCACTCTTGTATGCTGACAACACAATGTTATGAGTGACCAAATCCGG
TCCAACTCCGTTATCTGTCATTTTCTTGCATACTTCCAGAGCCTCTCTCCAGTTTCCACTAGAA
CCACAAGCATTGATCAGGTTATTGTAGGTTGAACGACTAGGAGCAAT
						
					

			
		

Sequences
Splice junction sequence	TATCTGTCATTTTCTTGCATACTTCCAGAGCCTCTCTCCAGTTTCCACTAGAACCACAAGCATT GATCAGGTTATTGTAGGTTGAACGACTAGGAGCAATcttcatcattgcttcaactttaccactc ttcccgaaaagatgcagcatctgattagttaacccgatagaaagcgatggcaggtacggatcca tcatttgg
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: 1554 Transcript exons: 17404354-17404486,17404583-17404787,17404877-17404982,17 405083-17406192 CTTCATCATTGCTTCAACTTTACCACTCTTCCCGAAAAGATGCAGCATCTGATTAGTTAACCCG ATAGAAAGCGATGGCAGGTACGGATCCATCATTTGGATGAGGTCTATTGCTCTTTTCCATTCCT GCAAGGTGTTACAAGCCGAAAATATCTCAAAGAAGACCGCACCAGTGAAGGGGATTTCTTTTTC CCGCATTAAATCCATCAGGACAAAGACATTTGACGGTTGACCTCCCTTGTTGAAAGCTCTCATC AAAGCTGAACAAGCAATCGAATCTGGCTCTATTCCATTTGCCTCCATTTCCAGGAAGAGTTCAC AAGCCTTTCCCCACTTTTCTGAAGCATTGTAAGCATGGAGCATTGAAGTGTATGCAATCACATC AGGTTCGCACCCAGCCATTTTCATCTGGTTGAATATGGATTCTGCTTCTGTAACTTGACCCTGT TTGCTGTAAGCACATAGAACCGAAGAGTACACCTCCTTTGTCAATGGAATACTGAGATCTTCCA TCTCCTTCAAGTAACTAATTGCTTCAGGGTATTTTGACATCCTACATGAACCGCTTATAAGGAT AGTGAAAGTAACAGAATCAGCTTTGACTTTCTTTTTTCTCATACTCTGATACAATGCAATGGCC TTCTCAAGTTCTGCAGCATTTATATAGCTTCCAATGGCTGAGTTATAGGCTGCCGTATTGAGAT TAATGCCTCTCGACTGTGCTGCGGAAAGTACAGTATCAACATTCACCTTTTTTTTAGACCTACT ACAAGCAGCCAAAAGAGTGCATACTGAAACAACATTTGGCTTAATGCCATCTTGTTCCATCTGC CGAAAGATTTCCACAGCTTCAGCTAGAAACCCATTAGACCCATAAGCATCAATCAATGCATTGT AAGTAACAACATTTGGCTTTCTCCTTTCCTTCCTCATCATGAGGAATACCTCCTTTGCCTTCCC AGGTTGACGTGATCTTCCATAAGAATTGAGCAAGCATGTATAAGAGACCACATCTGGGATAATA CCATTCTGCTTGATATCTCCTAACACTGAGAGAGCAGTTCCACTCATTCCATGAACAGCATAGG CACCCATTAAGGCATTATAGGAAACAATATTAGGCTTTAGACCTTCTGCAACCATTGCTTCGAA CACGGCTCTGCAGTTTTCTATCTCTCCCTTGACAGAGTATAAATGCATGATGCTCGTAAATGTC ACAACATCAGGTCTGCACTCAGCTCTCTTCTCCCTCATGGAATTGAAAAGATCAAGGGCTTGGC TACTTTGACCGAGCTTTGACAGACAATATATAATGATATTGAAAGTTGTAGTATCGGGACGAAC TTTAGCTCCCTTCATGAGCTCAAAATAAGATAGCGCCTTTGAATACTGACGACCACTCTTGTAT GCTGACAACACAATGTTATGAGTGACCAAATCCGGTCCAACTCCGTTATCTGTCATTTTCTTGC ATACTTCCAGAGCCTCTCTCCAGTTTCCACTAGAACCACAAGCATTGATCAGGTTATTGTAGGT TGAACGACTAGGAGCAAT
Genomic sequence	CTTCATCATTGCTTCAACTTTACCACTCTTCCCGAAAAGATGCAGCATCTGATTAGTTAACCCG ATAGAAAGCGATGGCAGGTACGGATCCATCATTTGGATGAGGTCTATTGCTCTTTTCCATTCCT GCAAGCTGCAATGTTGAAAGAAGAAGGGTGATATATTGCTCTTTCTGTAATTCGAGCAAGTATT TTACTGTAATGTTTTAAATAGACATACAAGAACTTACGTGTTACAAGCCGAAAATATCTCAAAG AAGACCGCACCAGTGAAGGGGATTTCTTTTTCCCGCATTAAATCCATCAGGACAAAGACATTTG ACGGTTGACCTCCCTTGTTGAAAGCTCTCATCAAAGCTGAACAAGCAATCGAATCTGGCTCTAT TCCATTTGCCTCCATTTCCAGGAAGAGTTCACAAGCCTTTCCCCACTTTTCTGGCAACACAAAA CCATTCCAAGCCAACTCAGATCCACTGAAAACATTTTGTTACCATTTTTAACAGTCTTACACTC ATGGTATTTACCTGAAGCATTGTAAGCATGGAGCATTGAAGTGTATGCAATCACATCAGGTTCG CACCCAGCCATTTTCATCTGGTTGAATATGGATTCTGCTTCTGTAACTTGACCCTGGAAATTAT CACAAAGAAAGTGACAGTCAAACCATATGAAAATCAGAATTCTATTGAATACACACGTCTTCTT CTGAGCTCAAACTCTAAGCACTTGCCTGTTTGCTGTAAGCACATAGAACCGAAGAGTACACCTC CTTTGTCAATGGAATACTGAGATCTTCCATCTCCTTCAAGTAACTAATTGCTTCAGGGTATTTT GACATCCTACATGAACCGCTTATAAGGATAGTGAAAGTAACAGAATCAGCTTTGACTTTCTTTT TTCTCATACTCTGATACAATGCAATGGCCTTCTCAAGTTCTGCAGCATTTATATAGCTTCCAAT GGCTGAGTTATAGGCTGCCGTATTGAGATTAATGCCTCTCGACTGTGCTGCGGAAAGTACAGTA TCAACATTCACCTTTTTTTTAGACCTACTACAAGCAGCCAAAAGAGTGCATACTGAAACAACAT TTGGCTTAATGCCATCTTGTTCCATCTGCCGAAAGATTTCCACAGCTTCAGCTAGAAACCCATT AGACCCATAAGCATCAATCAATGCATTGTAAGTAACAACATTTGGCTTTCTCCTTTCCTTCCTC ATCATGAGGAATACCTCCTTTGCCTTCCCAGGTTGACGTGATCTTCCATAAGAATTGAGCAAGC ATGTATAAGAGACCACATCTGGGATAATACCATTCTGCTTGATATCTCCTAACACTGAGAGAGC AGTTCCACTCATTCCATGAACAGCATAGGCACCCATTAAGGCATTATAGGAAACAATATTAGGC TTTAGACCTTCTGCAACCATTGCTTCGAACACGGCTCTGCAGTTTTCTATCTCTCCCTTGACAG AGTATAAATGCATGATGCTCGTAAATGTCACAACATCAGGTCTGCACTCAGCTCTCTTCTCCCT CATGGAATTGAAAAGATCAAGGGCTTGGCTACTTTGACCGAGCTTTGACAGACAATATATAATG ATATTGAAAGTTGTAGTATCGGGACGAACTTTAGCTCCCTTCATGAGCTCAAAATAAGATAGCG CCTTTGAATACTGACGACCACTCTTGTATGCTGACAACACAATGTTATGAGTGACCAAATCCGG TCCAACTCCGTTATCTGTCATTTTCTTGCATACTTCCAGAGCCTCTCTCCAGTTTCCACTAGAA CCACAAGCATTGATCAGGTTATTGTAGGTTGAACGACTAGGAGCAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.261863521

Conservation Information
Conserved circRNAs	NA
PMCS	0.261863521

			
						 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 AT2G41720_circ_g.1

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