Plant Circular RNA Database

Detail information of AT3G19720_circ_g.8

			
						 General Information
					
						CircRNA Name
						AT3G19720_circ_g.8
					
						ID in PlantcircBase
						ath_circ_022755
					
						Alias
						At_ciR736, Ath_circ_FC2079, Ath_circ_FC4888
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 6854182-6854865  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							AT3G19720						
					
						Parent gene annotation
						
							Dynamin-like protein ARC5
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G19720_circ_g.2 AT3G19720_circ_g.3 AT3G19720_circ_g.4 AT3G19720_circ_g.5 AT3G19720_circ_g.6 AT3G19720_circ_g.7 AT3G19720_circ_g.9 						
					
						Support reads
						11/5
					
						Tissues
						leaf/whole_plant
					
						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
						AT3G19720.1:3
AT3G19720.3:3
AT3G19720.2:3

General Information
CircRNA Name	AT3G19720_circ_g.8
ID in PlantcircBase	ath_circ_022755
Alias	At_ciR736, Ath_circ_FC2079, Ath_circ_FC4888
Organism	Arabidpsis thaliana
Position	chr3: 6854182-6854865 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	AT3G19720
Parent gene annotation	Dynamin-like protein ARC5
Parent gene strand	-
Alternative splicing	AT3G19720_circ_g.2 AT3G19720_circ_g.3 AT3G19720_circ_g.4 AT3G19720_circ_g.5 AT3G19720_circ_g.6 AT3G19720_circ_g.7 AT3G19720_circ_g.9
Support reads	11/5
Tissues	leaf/whole_plant
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	AT3G19720.1:3 AT3G19720.3:3 AT3G19720.2:3

			
						 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  
						
							TTGGACAATACTTATACTGGACTTTCACAATAATCTCCTTTGCAGAGAATGGGCTACATGGCTC
TTGCTCCAGCCTCATGTTCTCAGCCTCAATATATGCctgtttgaactcgtcattagacttatac
actgaatcctgtccatagccaactcttccagaaggcacagacgtgaaaaaaggagaatcgccca
ataaggag

						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: 513
Transcript exons: 6854182-6854403,6854480-6854602,6854698-6854865
CTGTTTGAACTCGTCATTAGACTTATACACTGAATCCTGTCCATAGCCAACTCTTCCAGAAGGC
ACAGACGTGAAAAAAGGAGAATCGCCCAATAAGGAGCTGTCAAGTGCGCTTGCAGGAGGTGAGA
GAAAGACTTCCACGTCAGATGAACATGAGAATTGAGGGATTTTAGTGTCAAGCTTTGTAGAAAC
AACAATTGTCCTAGAAAGCTCAGGATCAACTTGCATCACTATCCTTCGAGTGGTTGCAATGCTC
CAGTCACTGCTATCTTCGAGGCATAAAATGATGAACTCTTTGTGTTGCATCTTTGCTCGGACTA
GAGCTTCCACAGCCCGTGCTTGAACCTGAAGAGCTCGGTTTTTCAGTCCTGGTGCAGGAGCAAT
AAGTCCAGGTGTATCAATGATGGTAAGGTTTGGACAATACTTATACTGGACTTTCACAATAATC
TCCTTTGCAGAGAATGGGCTACATGGCTCTTGCTCCAGCCTCATGTTCTCAGCCTCAATATATG
C
						
						Genomic sequence
						
							CTGTTTGAACTCGTCATTAGACTTATACACTGAATCCTGTCCATAGCCAACTCTTCCAGAAGGC
ACAGACGTGAAAAAAGGAGAATCGCCCAATAAGGAGCTGTCAAGTGCGCTTGCAGGAGGTGAGA
GAAAGACTTCCACGTCAGATGAACATGAGAATTGAGGGATTTTAGTGTCAAGCTTTGTAGAAAC
AACAATTGTCCTAGAAAGCTCAGGATCAACCTACATGAACGAGAAACAAACTTTAACAAAAATA
AAGACAAGGTTAGACGCAATGGAGTTACGTCAAGCAACGTACTTGCATCACTATCCTTCGAGTG
GTTGCAATGCTCCAGTCACTGCTATCTTCGAGGCATAAAATGATGAACTCTTTGTGTTGCATCT
TTGCTCGGACTAGAGCTTCCACAGCCCGTGCTTGAACCTAAGAAAAAGAACAAGTAACCCACTC
TCAAATAAAGCAAAACCAAAACATGAAATCAGCCACGGAATTGGCTGGAAGCCATAAGAAAAAA
CAACCTGAAGAGCTCGGTTTTTCAGTCCTGGTGCAGGAGCAATAAGTCCAGGTGTATCAATGAT
GGTAAGGTTTGGACAATACTTATACTGGACTTTCACAATAATCTCCTTTGCAGAGAATGGGCTA
CATGGCTCTTGCTCCAGCCTCATGTTCTCAGCCTCAATATATGC

Sequences
Splice junction sequence	TTGGACAATACTTATACTGGACTTTCACAATAATCTCCTTTGCAGAGAATGGGCTACATGGCTC TTGCTCCAGCCTCATGTTCTCAGCCTCAATATATGCctgtttgaactcgtcattagacttatac actgaatcctgtccatagccaactcttccagaaggcacagacgtgaaaaaaggagaatcgccca ataaggag
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: 513 Transcript exons: 6854182-6854403,6854480-6854602,6854698-6854865 CTGTTTGAACTCGTCATTAGACTTATACACTGAATCCTGTCCATAGCCAACTCTTCCAGAAGGC ACAGACGTGAAAAAAGGAGAATCGCCCAATAAGGAGCTGTCAAGTGCGCTTGCAGGAGGTGAGA GAAAGACTTCCACGTCAGATGAACATGAGAATTGAGGGATTTTAGTGTCAAGCTTTGTAGAAAC AACAATTGTCCTAGAAAGCTCAGGATCAACTTGCATCACTATCCTTCGAGTGGTTGCAATGCTC CAGTCACTGCTATCTTCGAGGCATAAAATGATGAACTCTTTGTGTTGCATCTTTGCTCGGACTA GAGCTTCCACAGCCCGTGCTTGAACCTGAAGAGCTCGGTTTTTCAGTCCTGGTGCAGGAGCAAT AAGTCCAGGTGTATCAATGATGGTAAGGTTTGGACAATACTTATACTGGACTTTCACAATAATC TCCTTTGCAGAGAATGGGCTACATGGCTCTTGCTCCAGCCTCATGTTCTCAGCCTCAATATATG C
Genomic sequence	CTGTTTGAACTCGTCATTAGACTTATACACTGAATCCTGTCCATAGCCAACTCTTCCAGAAGGC ACAGACGTGAAAAAAGGAGAATCGCCCAATAAGGAGCTGTCAAGTGCGCTTGCAGGAGGTGAGA GAAAGACTTCCACGTCAGATGAACATGAGAATTGAGGGATTTTAGTGTCAAGCTTTGTAGAAAC AACAATTGTCCTAGAAAGCTCAGGATCAACCTACATGAACGAGAAACAAACTTTAACAAAAATA AAGACAAGGTTAGACGCAATGGAGTTACGTCAAGCAACGTACTTGCATCACTATCCTTCGAGTG GTTGCAATGCTCCAGTCACTGCTATCTTCGAGGCATAAAATGATGAACTCTTTGTGTTGCATCT TTGCTCGGACTAGAGCTTCCACAGCCCGTGCTTGAACCTAAGAAAAAGAACAAGTAACCCACTC TCAAATAAAGCAAAACCAAAACATGAAATCAGCCACGGAATTGGCTGGAAGCCATAAGAAAAAA CAACCTGAAGAGCTCGGTTTTTCAGTCCTGGTGCAGGAGCAATAAGTCCAGGTGTATCAATGAT GGTAAGGTTTGGACAATACTTATACTGGACTTTCACAATAATCTCCTTTGCAGAGAATGGGCTA CATGGCTCTTGCTCCAGCCTCATGTTCTCAGCCTCAATATATGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.229708919

Conservation Information
Conserved circRNAs	NA
PMCS	0.229708919

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6854845-6854184(-)
						
						Potential amino acid sequence
						
							MRLEQEPCSPFSAKEIIVKVQYKYCPNLTIIDTPGLIAPAPGLKNRALQVQARAVEALVRAKMQ
HKEFIILCLEDSSDWSIATTRRIVMQVDPELSRTIVVSTKLDTKIPQFSCSSDVEVFLSPPASA
LDSSLLGDSPFFTSVPSGRVGYGQDSVYKSNDEFKQAYIEAENMRLEQEPCSPFSAKEIIVKVQ
YKYCPNLTIIDTPGLIAPAPGLKNRALQVQARAVEALVRAKMQHKEFIILCLEDSSDWSIATTR
RIVMQVDPELSRTIVVSTKLDTKIPQFSCSSDVEVFLSPPASALDSSLLGDSPFFTSVPSGRVG
YGQDSVYKSNDEFKQAYIEAENMRLEQEPCSPFSAKEIIVKVQYKYCPNLTIIDTPGLIAPAPG
LKNRALQVQARAVEALVRAKMQHKEFIILCLEDSSDWSIATTRRIVMQVDPELSRTIVVSTKLD
TKIPQFSCSSDVEVFLSPPASALDSSLLGDSPFFTSVPSGRVGYGQDSVYKSNDEFKQAYIEAE
NMRLEQEPCSPFSAKEIIVKVQYKYCPNLTIIDTPGLIAPAPGLKNRALQVQARAVEALVRAKM
QHKEFIILCLEDSSDWSIATTRRIVMQVDPELSRTIVVSTKLDTKIPQFSCSSDVEVFLSPPAS
ALDSSLLGDSPFFTSVPSGRVGYGQDSVYKSNDEFKQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	6854845-6854184(-)
Potential amino acid sequence	MRLEQEPCSPFSAKEIIVKVQYKYCPNLTIIDTPGLIAPAPGLKNRALQVQARAVEALVRAKMQ HKEFIILCLEDSSDWSIATTRRIVMQVDPELSRTIVVSTKLDTKIPQFSCSSDVEVFLSPPASA LDSSLLGDSPFFTSVPSGRVGYGQDSVYKSNDEFKQAYIEAENMRLEQEPCSPFSAKEIIVKVQ YKYCPNLTIIDTPGLIAPAPGLKNRALQVQARAVEALVRAKMQHKEFIILCLEDSSDWSIATTR RIVMQVDPELSRTIVVSTKLDTKIPQFSCSSDVEVFLSPPASALDSSLLGDSPFFTSVPSGRVG YGQDSVYKSNDEFKQAYIEAENMRLEQEPCSPFSAKEIIVKVQYKYCPNLTIIDTPGLIAPAPG LKNRALQVQARAVEALVRAKMQHKEFIILCLEDSSDWSIATTRRIVMQVDPELSRTIVVSTKLD TKIPQFSCSSDVEVFLSPPASALDSSLLGDSPFFTSVPSGRVGYGQDSVYKSNDEFKQAYIEAE NMRLEQEPCSPFSAKEIIVKVQYKYCPNLTIIDTPGLIAPAPGLKNRALQVQARAVEALVRAKM QHKEFIILCLEDSSDWSIATTRRIVMQVDPELSRTIVVSTKLDTKIPQFSCSSDVEVFLSPPAS ALDSSLLGDSPFFTSVPSGRVGYGQDSVYKSNDEFKQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT3G19720_circ_g.8

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