Plant Circular RNA Database

Detail information of AT4G36360_circ_g.17

			
						 General Information
					
						CircRNA Name
						AT4G36360_circ_g.17
					
						ID in PlantcircBase
						ath_circ_035026
					
						Alias
						Ath_circ_FC3030, Ath_circ_FC3031, AT4G36360_C2
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 17179851-17180198  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, CIRI2
					
						Parent gene
						
							AT4G36360						
					
						Parent gene annotation
						
							Beta-galactosidase 3
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G36360_circ_g.8 AT4G36360_circ_g.9 AT4G36360_circ_g.10 AT4G36360_circ_g.11 AT4G36360_circ_g.12 AT4G36360_circ_g.13 AT4G36360_circ_g.14 AT4G36360_circ_g.15 AT4G36360_circ_g.16 AT4G36360_circ_g.18 AT4G36360_circ_g.19 AT4G36360_circ_g.20 AT4G36360_circ_g.21 AT4G36360_circ_g.22 AT4G36360_circ_g.23 AT4G36360_circ_g.24 AT4G36360_circ_g.25 						
					
						Support reads
						35/2
					
						Tissues
						aerial, inflorescences, whole_plant/seedlings, 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  
						
							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
						AT4G36360.2:2
AT4G36360.1:2

General Information
CircRNA Name	AT4G36360_circ_g.17
ID in PlantcircBase	ath_circ_035026
Alias	Ath_circ_FC3030, Ath_circ_FC3031, AT4G36360_C2
Organism	Arabidpsis thaliana
Position	chr4: 17179851-17180198 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, CIRI2
Parent gene	AT4G36360
Parent gene annotation	Beta-galactosidase 3
Parent gene strand	-
Alternative splicing	AT4G36360_circ_g.8 AT4G36360_circ_g.9 AT4G36360_circ_g.10 AT4G36360_circ_g.11 AT4G36360_circ_g.12 AT4G36360_circ_g.13 AT4G36360_circ_g.14 AT4G36360_circ_g.15 AT4G36360_circ_g.16 AT4G36360_circ_g.18 AT4G36360_circ_g.19 AT4G36360_circ_g.20 AT4G36360_circ_g.21 AT4G36360_circ_g.22 AT4G36360_circ_g.23 AT4G36360_circ_g.24 AT4G36360_circ_g.25
Support reads	35/2
Tissues	aerial, inflorescences, whole_plant/seedlings, 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	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	AT4G36360.2:2 AT4G36360.1:2

			
						 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  
						
							TTTTTACCTGAGAAAGGATAATGGGACCACCCTGGGACTCGAACAAGTTCTCACTCTTCATCAG
CTCAACTATTCTCTCTGTGAATCCTTTCATAGCTCTcacagggtcaggggcatcgtcttctttg
cacatgacccacgggacaccagtctcagttgctatagccattttagctgcccatgtcatgtagt
tgtgacct

						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: 197
Transcript exons: 17179851-17179979,17180131-17180198
CACAGGGTCAGGGGCATCGTCTTCTTTGCACATGACCCACGGGACACCAGTCTCAGTTGCTATA
GCCATTTTAGCTGCCCATGTCATGTAGTTGTGACCTTCAGCGCCCAATAACTGCCCTTGTCTTC
CTGGGACTCGAACAAGTTCTCACTCTTCATCAGCTCAACTATTCTCTCTGTGAATCCTTTCATA
GCTCT
Transcript length: 205
Transcript exons: 17179851-17179986,17180130-17180198
CACAGGGTCAGGGGCATCGTCTTCTTTGCACATGACCCACGGGACACCAGTCTCAGTTGCTATA
GCCATTTTAGCTGCCCATGTCATGTAGTTGTGACCTTCAGCGCCCAATAACTGCCCTTGTCTTC
CATACTCACTGGGACTCGAACAAGTTCTCACTCTTCATCAGCTCAACTATTCTCTCTGTGAATC
CTTTCATAGCTCT
Transcript length: 237
Transcript exons: 17179851-17179994,17180106-17180198
CACAGGGTCAGGGGCATCGTCTTCTTTGCACATGACCCACGGGACACCAGTCTCAGTTGCTATA
GCCATTTTAGCTGCCCATGTCATGTAGTTGTGACCTTCAGCGCCCAATAACTGCCCTTGTCTTC
CATACTCATTCTCAATCTGAGAAAGGATAATGGGACCACCCTGGGACTCGAACAAGTTCTCACT
CTTCATCAGCTCAACTATTCTCTCTGTGAATCCTTTCATAGCTCT
						
						Genomic sequence
						
							CACAGGGTCAGGGGCATCGTCTTCTTTGCACATGACCCACGGGACACCAGTCTCAGTTGCTATA
GCCATTTTAGCTGCCCATGTCATGTAGTTGTGACCTTCAGCGCCCAATAACTGCCCTTGTCTTC
CATACTCATTCTCAATCTACAGTCAAATGAAAGATGACACCTTTCTATTAACTCACATAGATCC
CTAAAACCATAAATCTGCATGATCTCCAATCCGAGCACTAATCTTTTCCATTAAAGTTTTTACC
TGAGAAAGGATAATGGGACCACCCTGGGACTCGAACAAGTTCTCACTCTTCATCAGCTCAACTA
TTCTCTCTGTGAATCCTTTCATAGCTCT

Sequences
Splice junction sequence	TTTTTACCTGAGAAAGGATAATGGGACCACCCTGGGACTCGAACAAGTTCTCACTCTTCATCAG CTCAACTATTCTCTCTGTGAATCCTTTCATAGCTCTcacagggtcaggggcatcgtcttctttg cacatgacccacgggacaccagtctcagttgctatagccattttagctgcccatgtcatgtagt tgtgacct
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: 197 Transcript exons: 17179851-17179979,17180131-17180198 CACAGGGTCAGGGGCATCGTCTTCTTTGCACATGACCCACGGGACACCAGTCTCAGTTGCTATA GCCATTTTAGCTGCCCATGTCATGTAGTTGTGACCTTCAGCGCCCAATAACTGCCCTTGTCTTC CTGGGACTCGAACAAGTTCTCACTCTTCATCAGCTCAACTATTCTCTCTGTGAATCCTTTCATA GCTCT Transcript length: 205 Transcript exons: 17179851-17179986,17180130-17180198 CACAGGGTCAGGGGCATCGTCTTCTTTGCACATGACCCACGGGACACCAGTCTCAGTTGCTATA GCCATTTTAGCTGCCCATGTCATGTAGTTGTGACCTTCAGCGCCCAATAACTGCCCTTGTCTTC CATACTCACTGGGACTCGAACAAGTTCTCACTCTTCATCAGCTCAACTATTCTCTCTGTGAATC CTTTCATAGCTCT Transcript length: 237 Transcript exons: 17179851-17179994,17180106-17180198 CACAGGGTCAGGGGCATCGTCTTCTTTGCACATGACCCACGGGACACCAGTCTCAGTTGCTATA GCCATTTTAGCTGCCCATGTCATGTAGTTGTGACCTTCAGCGCCCAATAACTGCCCTTGTCTTC CATACTCATTCTCAATCTGAGAAAGGATAATGGGACCACCCTGGGACTCGAACAAGTTCTCACT CTTCATCAGCTCAACTATTCTCTCTGTGAATCCTTTCATAGCTCT
Genomic sequence	CACAGGGTCAGGGGCATCGTCTTCTTTGCACATGACCCACGGGACACCAGTCTCAGTTGCTATA GCCATTTTAGCTGCCCATGTCATGTAGTTGTGACCTTCAGCGCCCAATAACTGCCCTTGTCTTC CATACTCATTCTCAATCTACAGTCAAATGAAAGATGACACCTTTCTATTAACTCACATAGATCC CTAAAACCATAAATCTGCATGATCTCCAATCCGAGCACTAATCTTTTCCATTAAAGTTTTTACC TGAGAAAGGATAATGGGACCACCCTGGGACTCGAACAAGTTCTCACTCTTCATCAGCTCAACTA TTCTCTCTGTGAATCCTTTCATAGCTCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.64129188

Conservation Information
Conserved circRNAs	NA
PMCS	0.64129188

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17180193-17179853(-)
						
						Potential amino acid sequence
						
							MKGFTERIVELMKSENLFESQGGPIILSQIENEYGRQGQLLGAEGHNYMTWAAKMAIATETGVP
WVMCKEDDAPDPVRAMKGFTERIVELMKSENLFESQGGPIILSQIENEYGRQGQLLGAEGHNYM
TWAAKMAIATETGVPWVMCKEDDAPDPVRAMKGFTERIVELMKSENLFESQGGPIILSQIENEY
GRQGQLLGAEGHNYMTWAAKMAIATETGVPWVMCKEDDAPDPVRAMKGFTERIVELMKSENLFE
SQGGPIILSQIENEYGRQGQLLGAEGHNYMTWAAKMAIATETGVPWVMCKEDDAPDPV(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	Y
Potential coding position	17180193-17179853(-)
Potential amino acid sequence	MKGFTERIVELMKSENLFESQGGPIILSQIENEYGRQGQLLGAEGHNYMTWAAKMAIATETGVP WVMCKEDDAPDPVRAMKGFTERIVELMKSENLFESQGGPIILSQIENEYGRQGQLLGAEGHNYM TWAAKMAIATETGVPWVMCKEDDAPDPVRAMKGFTERIVELMKSENLFESQGGPIILSQIENEY GRQGQLLGAEGHNYMTWAAKMAIATETGVPWVMCKEDDAPDPVRAMKGFTERIVELMKSENLFE SQGGPIILSQIENEYGRQGQLLGAEGHNYMTWAAKMAIATETGVPWVMCKEDDAPDPV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress

			
						 Other Information
					
						References
						Chu et al., 2017;Pan et al., 2017;Chen et al., 2017a;Zhang et al., 2019

circRNA

Detail information of AT4G36360_circ_g.17

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