Plant Circular RNA Database

Detail information of AT2G13360_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT2G13360_circ_g.4
					
						ID in PlantcircBase
						ath_circ_013205
					
						Alias
						At_ciR4689
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 5539633-5540935  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							AT2G13360						
					
						Parent gene annotation
						
							Serine--glyoxylate aminotransferase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G13360_circ_g.1 AT2G13360_circ_g.2 AT2G13360_circ_g.3 AT2G13360_circ_g.5 AT2G13360_circ_g.6 AT2G13360_circ_g.7 AT2G13360_circ_g.8 AT2G13360_circ_g.9 AT2G13360_circ_g.10 AT2G13360_circ_g.11 AT2G13360_circ_g.12 						
					
						Support reads
						3
					
						Tissues
						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
						AT2G13360.1:3
AT2G13360.2:3
AT2G13360.3:3

General Information
CircRNA Name	AT2G13360_circ_g.4
ID in PlantcircBase	ath_circ_013205
Alias	At_ciR4689
Organism	Arabidpsis thaliana
Position	chr2: 5539633-5540935 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	AT2G13360
Parent gene annotation	Serine--glyoxylate aminotransferase
Parent gene strand	-
Alternative splicing	AT2G13360_circ_g.1 AT2G13360_circ_g.2 AT2G13360_circ_g.3 AT2G13360_circ_g.5 AT2G13360_circ_g.6 AT2G13360_circ_g.7 AT2G13360_circ_g.8 AT2G13360_circ_g.9 AT2G13360_circ_g.10 AT2G13360_circ_g.11 AT2G13360_circ_g.12
Support reads	3
Tissues	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	AT2G13360.1:3 AT2G13360.2:3 AT2G13360.3:3

			
						 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  
						
							GTTCCGGTATGTTCACTGGTCCTGGTACAAACAGATGGTGTCTCCCTGGTCCATACATATAGTC
CATTTTTTCCTCTTTTCTTTTGGATCCTCCTCTACActcattcacatttcctaggtgtccaatt
ctgaaaacctttccagccactttgttgagaccaagaccaagacttaagttgtacctctgccatg
cccttctc

						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
						
							CTCATTCACATTTCCTAGGTGTCCAATTCTGAAAACCTTTCCAGCCACTTTGTTGAGACCAAGA
CCAAGACTTAAGTTGTACCTCTGCCATGCCCTTCTCACAATCTCCGAACCGTCTATATGCGGAG
GCACCATAACTGCTGTCACTGTGTTACTTATCCATTCCTCCTTCTGTGTGCAGTTTTTCAGCCC
CCATGCTTCCACCGCAAGCCTATGTACATGATCATTAACAATCAAACTCTAGCTATAATGTTTT
CCAAAGTCAATGTACTAGTAAGAATCAAGATTACGAAGAGGACTAAGTGTATTCATTTTATATG
ATTCATTTACCTGGTGGCCTTTCCCAAACGAGCATGGCGGGCGATGATGTTCTCAAGTCCTTCC
TCAAAGATAAGATCAAGAGCAGCTCTAAGACCGTAGAGAAGTTGAATGGAAGGTGTGTATGGCC
AATAGGTTCCTAGCTTGTAAAACTTAAGGTAGTCATTCCAGTCAAAGAATACTTTGAGAGATTT
AGAAGTTTTGGTAGCTTCCAAAGCTTTAGGACTGGCGCAGACAATACCAAGTCCTGTTGGAAGA
GATAAGGCTTTCTGAGACCCAGTCAAGGCCACGTCCACTCCCCACTCATCCATTCGGAAATCAA
GCGCGCAGATGGACGAAACACCGTCCACTAGCAGCAAAGCCGGATGCTTGTAGTGATCTGTATG
TAAACCCTAATGTAAGTGAGATTTAAAACAGAGAAAACACAAAAGAAAAACAGATTATTTGTGA
GGAATTAATGACCGAGGAGTGTGCGGACAGCAGAGATGTCATTGGTAACTCCGGTCGCGGTCTC
GTTGTGGACAATGCAAATGGCTTTGATGGTATGATTCTCGTCTTGTGAGAGCTTTGAGGCCAAG
ACTTGGAGATTAGCACCTTGTCCCCAATCACTCTCAACCACATCAACATTGAAATTAAGCCTCT
TCTGCTGGTCAATCCAGAGCAAGCTAAATTGTCCAATCAGAAACGAAACAATCCTGTCTCCAGG
AGATAACGTGTTGGTCAAGGCACTCTCCCAAGCACCAGTCCCGGTCGTGGGAAACAGAAAAGGT
GTCCCTGATGTGGTCTTGAATATCTTCTTAACATCCTCCAACAATGTTTTCGTAAGCGCCGGAA
TGGCTGGTGACCGGTAATCCTCGTTGTTCCGGTTCATCGCCCGGATTACCGGTTCCGGTATGTT
CACTGGTCCTGGTACAAACAGATGGTGTCTCCCTGGTCCATACATATAGTCCATTTTTTCCTCT
TTTCTTTTGGATCCTCCTCTACA

Sequences
Splice junction sequence	GTTCCGGTATGTTCACTGGTCCTGGTACAAACAGATGGTGTCTCCCTGGTCCATACATATAGTC CATTTTTTCCTCTTTTCTTTTGGATCCTCCTCTACActcattcacatttcctaggtgtccaatt ctgaaaacctttccagccactttgttgagaccaagaccaagacttaagttgtacctctgccatg cccttctc
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	CTCATTCACATTTCCTAGGTGTCCAATTCTGAAAACCTTTCCAGCCACTTTGTTGAGACCAAGA CCAAGACTTAAGTTGTACCTCTGCCATGCCCTTCTCACAATCTCCGAACCGTCTATATGCGGAG GCACCATAACTGCTGTCACTGTGTTACTTATCCATTCCTCCTTCTGTGTGCAGTTTTTCAGCCC CCATGCTTCCACCGCAAGCCTATGTACATGATCATTAACAATCAAACTCTAGCTATAATGTTTT CCAAAGTCAATGTACTAGTAAGAATCAAGATTACGAAGAGGACTAAGTGTATTCATTTTATATG ATTCATTTACCTGGTGGCCTTTCCCAAACGAGCATGGCGGGCGATGATGTTCTCAAGTCCTTCC TCAAAGATAAGATCAAGAGCAGCTCTAAGACCGTAGAGAAGTTGAATGGAAGGTGTGTATGGCC AATAGGTTCCTAGCTTGTAAAACTTAAGGTAGTCATTCCAGTCAAAGAATACTTTGAGAGATTT AGAAGTTTTGGTAGCTTCCAAAGCTTTAGGACTGGCGCAGACAATACCAAGTCCTGTTGGAAGA GATAAGGCTTTCTGAGACCCAGTCAAGGCCACGTCCACTCCCCACTCATCCATTCGGAAATCAA GCGCGCAGATGGACGAAACACCGTCCACTAGCAGCAAAGCCGGATGCTTGTAGTGATCTGTATG TAAACCCTAATGTAAGTGAGATTTAAAACAGAGAAAACACAAAAGAAAAACAGATTATTTGTGA GGAATTAATGACCGAGGAGTGTGCGGACAGCAGAGATGTCATTGGTAACTCCGGTCGCGGTCTC GTTGTGGACAATGCAAATGGCTTTGATGGTATGATTCTCGTCTTGTGAGAGCTTTGAGGCCAAG ACTTGGAGATTAGCACCTTGTCCCCAATCACTCTCAACCACATCAACATTGAAATTAAGCCTCT TCTGCTGGTCAATCCAGAGCAAGCTAAATTGTCCAATCAGAAACGAAACAATCCTGTCTCCAGG AGATAACGTGTTGGTCAAGGCACTCTCCCAAGCACCAGTCCCGGTCGTGGGAAACAGAAAAGGT GTCCCTGATGTGGTCTTGAATATCTTCTTAACATCCTCCAACAATGTTTTCGTAAGCGCCGGAA TGGCTGGTGACCGGTAATCCTCGTTGTTCCGGTTCATCGCCCGGATTACCGGTTCCGGTATGTT CACTGGTCCTGGTACAAACAGATGGTGTCTCCCTGGTCCATACATATAGTCCATTTTTTCCTCT TTTCTTTTGGATCCTCCTCTACA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.196824944

Conservation Information
Conserved circRNAs	NA
PMCS	0.196824944

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							5540903-5539635(-)
						
					

						Potential amino acid sequence
						
							MDYMYGPGRHHLFVPGPVNIPEPVIRAMNRNNEDYRSPAIPALTKTLLEDVKKIFKTTSGTPFL
FPTTGTGAWESALTNTLSPGDRIVSFLIGQFSLLWIDQQKRLNFNVDVVESDWGQGANLQVLAS
KLSQDENHTIKAICIVHNETATGVTNDISAVRTLLDHYKHPALLLVDGVSSICALDFRMDEWGV
DVALTGSQKALSLPTGLGIVCASPKALEATKTSKSLKVFFDWNDYLKFYKLGTYWPYTPSIQLL
YGLRAALDLIFEEGLENIIARHARLGKATRLAVEAWGLKNCTQKEEWISNTVTAVMVPPHIDGS
EIVRRAWQRYNLSLGLGLNKVAGKVFRIGHLGNVNECRGGSKRKEEKMDYMYGPGRHHLFVPGP
VNIPEPVIRAMNRNNEDYRSPAIPALTKTLLEDVKKIFKTTSGTPFLFPTTGTGAWESALTNTL
SPGDRIVSFLIGQFSLLWIDQQKRLNFNVDVVESDWGQGANLQVLASKLSQDENHTIKAICIVH
NETATGVTNDISAVRTLLDHYKHPALLLVDGVSSICALDFRMDEWGVDVALTGSQKALSLPTGL
GIVCASPKALEATKTSKSLKVFFDWNDYLKFYKLGTYWPYTPSIQLLYGLRAALDLIFEEGLEN
IIARHARLGKATRLAVEAWGLKNCTQKEEWISNTVTAVMVPPHIDGSEIVRRAWQRYNLSLGLG
LNKVAGKVFRIGHLGNVNECRGGSKRKEEKMDYMYGPGRHHLFVPGPVNIPEPVIRAMNRNNED
YRSPAIPALTKTLLEDVKKIFKTTSGTPFLFPTTGTGAWESALTNTLSPGDRIVSFLIGQFSLL
WIDQQKRLNFNVDVVESDWGQGANLQVLASKLSQDENHTIKAICIVHNETATGVTNDISAVRTL
LDHYKHPALLLVDGVSSICALDFRMDEWGVDVALTGSQKALSLPTGLGIVCASPKALEATKTSK
SLKVFFDWNDYLKFYKLGTYWPYTPSIQLLYGLRAALDLIFEEGLENIIARHARLGKATRLAVE
AWGLKNCTQKEEWISNTVTAVMVPPHIDGSEIVRRAWQRYNLSLGLGLNKVAGKVFRIGHLGNV
NECRGGSKRKEEKMDYMYGPGRHHLFVPGPVNIPEPVIRAMNRNNEDYRSPAIPALTKTLLEDV
KKIFKTTSGTPFLFPTTGTGAWESALTNTLSPGDRIVSFLIGQFSLLWIDQQKRLNFNVDVVES
DWGQGANLQVLASKLSQDENHTIKAICIVHNETATGVTNDISAVRTLLDHYKHPALLLVDGVSS
ICALDFRMDEWGVDVALTGSQKALSLPTGLGIVCASPKALEATKTSKSLKVFFDWNDYLKFYKL
GTYWPYTPSIQLLYGLRAALDLIFEEGLENIIARHARLGKATRLAVEAWGLKNCTQKEEWISNT
VTAVMVPPHIDGSEIVRRAWQRYNLSLGLGLNKVAGKVFRIGHLGNVNE(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	5540903-5539635(-)
Potential amino acid sequence	MDYMYGPGRHHLFVPGPVNIPEPVIRAMNRNNEDYRSPAIPALTKTLLEDVKKIFKTTSGTPFL FPTTGTGAWESALTNTLSPGDRIVSFLIGQFSLLWIDQQKRLNFNVDVVESDWGQGANLQVLAS KLSQDENHTIKAICIVHNETATGVTNDISAVRTLLDHYKHPALLLVDGVSSICALDFRMDEWGV DVALTGSQKALSLPTGLGIVCASPKALEATKTSKSLKVFFDWNDYLKFYKLGTYWPYTPSIQLL YGLRAALDLIFEEGLENIIARHARLGKATRLAVEAWGLKNCTQKEEWISNTVTAVMVPPHIDGS EIVRRAWQRYNLSLGLGLNKVAGKVFRIGHLGNVNECRGGSKRKEEKMDYMYGPGRHHLFVPGP VNIPEPVIRAMNRNNEDYRSPAIPALTKTLLEDVKKIFKTTSGTPFLFPTTGTGAWESALTNTL SPGDRIVSFLIGQFSLLWIDQQKRLNFNVDVVESDWGQGANLQVLASKLSQDENHTIKAICIVH NETATGVTNDISAVRTLLDHYKHPALLLVDGVSSICALDFRMDEWGVDVALTGSQKALSLPTGL GIVCASPKALEATKTSKSLKVFFDWNDYLKFYKLGTYWPYTPSIQLLYGLRAALDLIFEEGLEN IIARHARLGKATRLAVEAWGLKNCTQKEEWISNTVTAVMVPPHIDGSEIVRRAWQRYNLSLGLG LNKVAGKVFRIGHLGNVNECRGGSKRKEEKMDYMYGPGRHHLFVPGPVNIPEPVIRAMNRNNED YRSPAIPALTKTLLEDVKKIFKTTSGTPFLFPTTGTGAWESALTNTLSPGDRIVSFLIGQFSLL WIDQQKRLNFNVDVVESDWGQGANLQVLASKLSQDENHTIKAICIVHNETATGVTNDISAVRTL LDHYKHPALLLVDGVSSICALDFRMDEWGVDVALTGSQKALSLPTGLGIVCASPKALEATKTSK SLKVFFDWNDYLKFYKLGTYWPYTPSIQLLYGLRAALDLIFEEGLENIIARHARLGKATRLAVE AWGLKNCTQKEEWISNTVTAVMVPPHIDGSEIVRRAWQRYNLSLGLGLNKVAGKVFRIGHLGNV NECRGGSKRKEEKMDYMYGPGRHHLFVPGPVNIPEPVIRAMNRNNEDYRSPAIPALTKTLLEDV KKIFKTTSGTPFLFPTTGTGAWESALTNTLSPGDRIVSFLIGQFSLLWIDQQKRLNFNVDVVES DWGQGANLQVLASKLSQDENHTIKAICIVHNETATGVTNDISAVRTLLDHYKHPALLLVDGVSS ICALDFRMDEWGVDVALTGSQKALSLPTGLGIVCASPKALEATKTSKSLKVFFDWNDYLKFYKL GTYWPYTPSIQLLYGLRAALDLIFEEGLENIIARHARLGKATRLAVEAWGLKNCTQKEEWISNT VTAVMVPPHIDGSEIVRRAWQRYNLSLGLGLNKVAGKVFRIGHLGNVNE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of AT2G13360_circ_g.4

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