Plant Circular RNA Database

Detail information of AT2G43360_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT2G43360_circ_g.2
					
						ID in PlantcircBase
						ath_circ_018132
					
						Alias
						Ath_circ_FC1658
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 18011307-18012603  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT2G43360						
					
						Parent gene annotation
						
							BIOB
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G43360_circ_g.1 AT2G43360_circ_g.3 AT2G43360_circ_g.4 AT2G43360_circ_g.5 						
					
						Support reads
						21/3
					
						Tissues
						leaf, inflorescences, whole_plant/seedlings
					
						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
						AT2G43360.1:4

General Information
CircRNA Name	AT2G43360_circ_g.2
ID in PlantcircBase	ath_circ_018132
Alias	Ath_circ_FC1658
Organism	Arabidpsis thaliana
Position	chr2: 18011307-18012603 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	AT2G43360
Parent gene annotation	BIOB
Parent gene strand	-
Alternative splicing	AT2G43360_circ_g.1 AT2G43360_circ_g.3 AT2G43360_circ_g.4 AT2G43360_circ_g.5
Support reads	21/3
Tissues	leaf, inflorescences, whole_plant/seedlings
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	AT2G43360.1:4

			
						 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  
						
							GACAATATGAACAGTCTTCACTACAGCCACCAGTCTTTATGGAGAGGAGGGTACATTGTTGTAC
CTCCCTGAAGTTATGAACATGTCTATGAACCTGAGCcttctggtcttcaagaggagtgcctttc
actgcaagtagagcattaatgggaacactctcagggtgagaaggaagtgttgccagcgtgtgta
ataaacct

									
								

					

						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: 633
Transcript exons: 18011307-18011446,18011617-18011822,18012101-18012207,18
012424-18012603
CTTCTGGTCTTCAAGAGGAGTGCCTTTCACTGCAAGTAGAGCATTAATGGGAACACTCTCAGGG
TGAGAAGGAAGTGTTGCCAGCGTGTGTAATAAACCTATTCTGTCTTCCTCTGCCTCACCAAGCC
CTATGATTCCTCCTGAACAAACGTTGATTCCAGCATCACGAACATGGCTAAGAGTTTCAAGGCG
ATCGTCATAACTTCTAGTAGTGATGACGTTTGGGTAGTACTCTCTTGAAGTATCAAGATTGTGG
TTATAAGCAGTGAGGCCAGCCTTCTTTAGCTCTAGTGCTTGTTGTTTCTCAATCATGCCTAAGG
TGCAGCAAACTTCCATCCCCATGCCTCTTATTTCTTTGATGTATTCAAGAATCTGGCTGAAGTT
GGTTTTCCGTCCAATTGTATCTCGCCAAGCAGCACCCATGCAAAAACGTGTGCTCCCAGCTTCT
TTTGCCTTCTTAGCAGCATCAATGACAGCGTCCTTAGACATGAGTCTTTGTGCCTTAACTCCAG
TGCTATATCTCGAAGACTGAGGACAATATGAACAGTCTTCACTACAGCCACCAGTCTTTATGGA
GAGGAGGGTACATTGTTGTACCTCCCTGAAGTTATGAACATGTCTATGAACCTGAGC
						
					

						Genomic sequence
						
							CTTCTGGTCTTCAAGAGGAGTGCCTTTCACTGCAAGTAGAGCATTAATGGGAACACTCTCAGGG
TGAGAAGGAAGTGTTGCCAGCGTGTGTAATAAACCTATTCTGTCTTCCTCTGCCTCACCAAGCC
CTATGATTCCTCCTGTTTATCGGTAAAAGAAAACACTTGAGAACATGTCGTATCTATGGATTTA
TCAAAATCAACGAATATTACAAAACTGTGAGTCTAATGACCAAGCTGAAGACAGGTTTCAATCC
TTTAGTTCTATAGAATTGAGGCATACAAGAATACTATTTTCATATCAAAGTTACCTGAACAAAC
GTTGATTCCAGCATCACGAACATGGCTAAGAGTTTCAAGGCGATCGTCATAACTTCTAGTAGTG
ATGACGTTTGGGTAGTACTCTCTTGAAGTATCAAGATTGTGGTTATAAGCAGTGAGGCCAGCCT
TCTTTAGCTCTAGTGCTTGTTGTTTCTCAATCATGCCTAAGGTGCAGCAAACTTCCATCCCCAT
GCCTCTGTTTTAAAGTGAGAGCCCAGAAAGTTAGTAAACACATTCAGCCAGACACCATCATCAA
CATCATATTCATTCTGCTCACGGATACATCAAGTACACTTTGAAATTTTCACTTTAGTTTGACA
TGCAAAAATGTTCATTCTAGAACCATTAATGATCGGTTCGGTGGGTTATCTTTTAAGTTAGCTT
AGATTCAGAAGCAGCTGAAAAAGGGATCATATAATGTAGTATAAACAAGGAAATTCAAAGTTCA
ACTTAAAAAGCATAATAGTAAGGTACCTTATTTCTTTGATGTATTCAAGAATCTGGCTGAAGTT
GGTTTTCCGTCCAATTGTATCTCGCCAAGCAGCACCCATGCAAAAACGTGTGCTCCCAGCTTCT
TTTGCCTAACAACACATCAAATTTGTTAATTCAAATCAGAAGAGCTCATTACATCGTCAAAATG
CTTCATTAAACAATTAGAGTCTTTTGGATAGAGATAGAGCTCGGATTGATAAAAACAACGTTTT
GGTACATAGTAATGCATGTCCCCTTCTTCTTGATACATTCTGCTAAGGATTCTACATTCAGCAA
AAATAAACATTCACAAGAAAAGTGCAAACCTTCTTAGCAGCATCAATGACAGCGTCCTTAGACA
TGAGTCTTTGTGCCTTAACTCCAGTGCTATATCTCGAAGACTGAGGACAATATGAACAGTCTTC
ACTACAGCCACCAGTCTTTATGGAGAGGAGGGTACATTGTTGTACCTCCCTGAAGTTATGAACA
TGTCTATGAACCTGAGC
						
					

			
		

Sequences
Splice junction sequence	GACAATATGAACAGTCTTCACTACAGCCACCAGTCTTTATGGAGAGGAGGGTACATTGTTGTAC CTCCCTGAAGTTATGAACATGTCTATGAACCTGAGCcttctggtcttcaagaggagtgcctttc actgcaagtagagcattaatgggaacactctcagggtgagaaggaagtgttgccagcgtgtgta ataaacct
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: 633 Transcript exons: 18011307-18011446,18011617-18011822,18012101-18012207,18 012424-18012603 CTTCTGGTCTTCAAGAGGAGTGCCTTTCACTGCAAGTAGAGCATTAATGGGAACACTCTCAGGG TGAGAAGGAAGTGTTGCCAGCGTGTGTAATAAACCTATTCTGTCTTCCTCTGCCTCACCAAGCC CTATGATTCCTCCTGAACAAACGTTGATTCCAGCATCACGAACATGGCTAAGAGTTTCAAGGCG ATCGTCATAACTTCTAGTAGTGATGACGTTTGGGTAGTACTCTCTTGAAGTATCAAGATTGTGG TTATAAGCAGTGAGGCCAGCCTTCTTTAGCTCTAGTGCTTGTTGTTTCTCAATCATGCCTAAGG TGCAGCAAACTTCCATCCCCATGCCTCTTATTTCTTTGATGTATTCAAGAATCTGGCTGAAGTT GGTTTTCCGTCCAATTGTATCTCGCCAAGCAGCACCCATGCAAAAACGTGTGCTCCCAGCTTCT TTTGCCTTCTTAGCAGCATCAATGACAGCGTCCTTAGACATGAGTCTTTGTGCCTTAACTCCAG TGCTATATCTCGAAGACTGAGGACAATATGAACAGTCTTCACTACAGCCACCAGTCTTTATGGA GAGGAGGGTACATTGTTGTACCTCCCTGAAGTTATGAACATGTCTATGAACCTGAGC
Genomic sequence	CTTCTGGTCTTCAAGAGGAGTGCCTTTCACTGCAAGTAGAGCATTAATGGGAACACTCTCAGGG TGAGAAGGAAGTGTTGCCAGCGTGTGTAATAAACCTATTCTGTCTTCCTCTGCCTCACCAAGCC CTATGATTCCTCCTGTTTATCGGTAAAAGAAAACACTTGAGAACATGTCGTATCTATGGATTTA TCAAAATCAACGAATATTACAAAACTGTGAGTCTAATGACCAAGCTGAAGACAGGTTTCAATCC TTTAGTTCTATAGAATTGAGGCATACAAGAATACTATTTTCATATCAAAGTTACCTGAACAAAC GTTGATTCCAGCATCACGAACATGGCTAAGAGTTTCAAGGCGATCGTCATAACTTCTAGTAGTG ATGACGTTTGGGTAGTACTCTCTTGAAGTATCAAGATTGTGGTTATAAGCAGTGAGGCCAGCCT TCTTTAGCTCTAGTGCTTGTTGTTTCTCAATCATGCCTAAGGTGCAGCAAACTTCCATCCCCAT GCCTCTGTTTTAAAGTGAGAGCCCAGAAAGTTAGTAAACACATTCAGCCAGACACCATCATCAA CATCATATTCATTCTGCTCACGGATACATCAAGTACACTTTGAAATTTTCACTTTAGTTTGACA TGCAAAAATGTTCATTCTAGAACCATTAATGATCGGTTCGGTGGGTTATCTTTTAAGTTAGCTT AGATTCAGAAGCAGCTGAAAAAGGGATCATATAATGTAGTATAAACAAGGAAATTCAAAGTTCA ACTTAAAAAGCATAATAGTAAGGTACCTTATTTCTTTGATGTATTCAAGAATCTGGCTGAAGTT GGTTTTCCGTCCAATTGTATCTCGCCAAGCAGCACCCATGCAAAAACGTGTGCTCCCAGCTTCT TTTGCCTAACAACACATCAAATTTGTTAATTCAAATCAGAAGAGCTCATTACATCGTCAAAATG CTTCATTAAACAATTAGAGTCTTTTGGATAGAGATAGAGCTCGGATTGATAAAAACAACGTTTT GGTACATAGTAATGCATGTCCCCTTCTTCTTGATACATTCTGCTAAGGATTCTACATTCAGCAA AAATAAACATTCACAAGAAAAGTGCAAACCTTCTTAGCAGCATCAATGACAGCGTCCTTAGACA TGAGTCTTTGTGCCTTAACTCCAGTGCTATATCTCGAAGACTGAGGACAATATGAACAGTCTTC ACTACAGCCACCAGTCTTTATGGAGAGGAGGGTACATTGTTGTACCTCCCTGAAGTTATGAACA TGTCTATGAACCTGAGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.377350478

Conservation Information
Conserved circRNAs	NA
PMCS	0.377350478

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							18012460-18011309(-)
						
						Potential amino acid sequence
						
							MSKDAVIDAAKKAKEAGSTRFCMGAAWRDTIGRKTNFSQILEYIKEIRGMGMEVCCTLGMIEKQ
QALELKKAGLTAYNHNLDTSREYYPNVITTRSYDDRLETLSHVRDAGINVCSGGIIGLGEAEED
RIGLLHTLATLPSHPESVPINALLAVKGTPLEDQKAQVHRHVHNFREVQQCTLLSIKTGGCSED
CSYCPQSSRYSTGVKAQRLMSKDAVIDAAKKAKEAGSTRFCMGAAWRDTIGRKTNFSQILEYIK
EIRGMGMEVCCTLGMIEKQQALELKKAGLTAYNHNLDTSREYYPNVITTRSYDDRLETLSHVRD
AGINVCSGGIIGLGEAEEDRIGLLHTLATLPSHPESVPINALLAVKGTPLEDQKAQVHRHVHNF
REVQQCTLLSIKTGGCSEDCSYCPQSSRYSTGVKAQRLMSKDAVIDAAKKAKEAGSTRFCMGAA
WRDTIGRKTNFSQILEYIKEIRGMGMEVCCTLGMIEKQQALELKKAGLTAYNHNLDTSREYYPN
VITTRSYDDRLETLSHVRDAGINVCSGGIIGLGEAEEDRIGLLHTLATLPSHPESVPINALLAV
KGTPLEDQKAQVHRHVHNFREVQQCTLLSIKTGGCSEDCSYCPQSSRYSTGVKAQRLMSKDAVI
DAAKKAKEAGSTRFCMGAAWRDTIGRKTNFSQILEYIKEIRGMGMEVCCTLGMIEKQQALELKK
AGLTAYNHNLDTSREYYPNVITTRSYDDRLETLSHVRDAGINVCSGGIIGLGEAEEDRIGLLHT
LATLPSHPESVPINALLAVKGTPLEDQK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	18012460-18011309(-)
Potential amino acid sequence	MSKDAVIDAAKKAKEAGSTRFCMGAAWRDTIGRKTNFSQILEYIKEIRGMGMEVCCTLGMIEKQ QALELKKAGLTAYNHNLDTSREYYPNVITTRSYDDRLETLSHVRDAGINVCSGGIIGLGEAEED RIGLLHTLATLPSHPESVPINALLAVKGTPLEDQKAQVHRHVHNFREVQQCTLLSIKTGGCSED CSYCPQSSRYSTGVKAQRLMSKDAVIDAAKKAKEAGSTRFCMGAAWRDTIGRKTNFSQILEYIK EIRGMGMEVCCTLGMIEKQQALELKKAGLTAYNHNLDTSREYYPNVITTRSYDDRLETLSHVRD AGINVCSGGIIGLGEAEEDRIGLLHTLATLPSHPESVPINALLAVKGTPLEDQKAQVHRHVHNF REVQQCTLLSIKTGGCSEDCSYCPQSSRYSTGVKAQRLMSKDAVIDAAKKAKEAGSTRFCMGAA WRDTIGRKTNFSQILEYIKEIRGMGMEVCCTLGMIEKQQALELKKAGLTAYNHNLDTSREYYPN VITTRSYDDRLETLSHVRDAGINVCSGGIIGLGEAEEDRIGLLHTLATLPSHPESVPINALLAV KGTPLEDQKAQVHRHVHNFREVQQCTLLSIKTGGCSEDCSYCPQSSRYSTGVKAQRLMSKDAVI DAAKKAKEAGSTRFCMGAAWRDTIGRKTNFSQILEYIKEIRGMGMEVCCTLGMIEKQQALELKK AGLTAYNHNLDTSREYYPNVITTRSYDDRLETLSHVRDAGINVCSGGIIGLGEAEEDRIGLLHT LATLPSHPESVPINALLAVKGTPLEDQK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017;Pan et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT2G43360_circ_g.2

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