Plant Circular RNA Database

Detail information of AT1G79000_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G79000_circ_g.2
					
						ID in PlantcircBase
						ath_circ_010892
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 29719717-29720395  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, MapSplice
					
						Parent gene
						
							AT1G79000						
					
						Parent gene annotation
						
							Histone acetyltransferase of the CBP family 1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						4/NA
					
						Tissues
						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
						AT1G79000.2:2
AT1G79000.1:2
AT1G79000.3:2

General Information
CircRNA Name	AT1G79000_circ_g.2
ID in PlantcircBase	ath_circ_010892
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 29719717-29720395 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, MapSplice
Parent gene	AT1G79000
Parent gene annotation	Histone acetyltransferase of the CBP family 1
Parent gene strand	-
Alternative splicing	NA
Support reads	4/NA
Tissues	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	AT1G79000.2:2 AT1G79000.1:2 AT1G79000.3:2

			
						 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  
						
							GTGGTGGCTCAAAGGTAAGCTTCTCCACTGCACATAGTTGGCAGGAATTCTCACTCATTGAATG
CTCCATTGCCTGATTCTTTTCTGCTTTGGCTTTACTctcatcataactttttccttgagccctg
gctctctctgttctttcctgcttcagcctcttaaacaaccgctgctctatatggtcactgagaa
ttgttcgc

									
								

					

						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: 218
Transcript exons: 29719717-29719807,29720269-29720395
CTCATCATAACTTTTTCCTTGAGCCCTGGCTCTCTCTGTTCTTTCCTGCTTCAGCCTCTTAAAC
AACCGCTGCTCTATATGGTCACTGAGAGAGCACCACAAGGGGTACAATAAATAGGTGGTGGCTC
AAAGGTAAGCTTCTCCACTGCACATAGTTGGCAGGAATTCTCACTCATTGAATGCTCCATTGCC
TGATTCTTTTCTGCTTTGGCTTTACT
Transcript length: 576
Transcript exons: 29719717-29719995,29720099-29720395
CTCATCATAACTTTTTCCTTGAGCCCTGGCTCTCTCTGTTCTTTCCTGCTTCAGCCTCTTAAAC
AACCGCTGCTCTATATGGTCACTGAGAATTGTTCGCGGTAAGTCTTTAGCTCCAAGAACAGCAC
TCTGAGGTAAAGGCTTCCTCTTACTTTGCTCCACTTCTGCTATAAAGCAATATGGGCAGGTATA
CTCAGCCTGCCCTCCGTCATTCCTTCTCCCATTAAATAAAGCACATATCTGATGCTGCCACGCC
TCACATTTATCACATTGGACCCACCATTCTTCAGTCTCTTCATCATTTTTCTTTTTCTCGAGTC
TTGCCTTAGGCATAGGGGTCCCTTCAGCGAGTATAGTGTCGCCGCGGGATTCATTATAACATGG
AATACAAAAGTAATGACGAGTGTCACCAGCTCCTACGGTGTAGTACATAGCATTTCTCTTGATG
CGAGCACCACAAGGGGTACAATAAATAGGTGGTGGCTCAAAGGTAAGCTTCTCCACTGCACATA
GTTGGCAGGAATTCTCACTCATTGAATGCTCCATTGCCTGATTCTTTTCTGCTTTGGCTTTACT
						
					

						Genomic sequence
						
							CTCATCATAACTTTTTCCTTGAGCCCTGGCTCTCTCTGTTCTTTCCTGCTTCAGCCTCTTAAAC
AACCGCTGCTCTATATGGTCACTGAGAATTGTTCGCGGTAAGTCTTTAGCTCCAAGAACAGCAC
TCTGAGGTAAAGGCTTCCTCTTACTTTGCTCCACTTCTGCTATAAAGCAATATGGGCAGGTATA
CTCAGCCTGCCCTCCGTCATTCCTTCTCCCATTAAATAAAGCACATATCTGATGCTGCCACGCC
TCACATTTATCACATTGGACCCACTGCAAAAATCATACATAGAAACAAAATATAGCATGAACTA
AAAAAACATACAAAGACGGGAGACAAACACAAAATAAGTCTACAGAGTGGATAGGCTTTTACCC
ATTCTTCAGTCTCTTCATCATTTTTCTTTTTCTCGAGTCTTGCCTTAGGCATAGGGGTCCCTTC
AGCGAGTATAGTGTCGCCGCGGGATTCATTATAACATGGAATACAAAAGTAATGACGAGTGTCA
CCAGCTCCTACGGTGTAGTACATAGCATTTCTCTTGATGCGAGCACCACAAGGGGTACAATAAA
TAGGTGGTGGCTCAAAGGTAAGCTTCTCCACTGCACATAGTTGGCAGGAATTCTCACTCATTGA
ATGCTCCATTGCCTGATTCTTTTCTGCTTTGGCTTTACT
						
					

			
		

Sequences
Splice junction sequence	GTGGTGGCTCAAAGGTAAGCTTCTCCACTGCACATAGTTGGCAGGAATTCTCACTCATTGAATG CTCCATTGCCTGATTCTTTTCTGCTTTGGCTTTACTctcatcataactttttccttgagccctg gctctctctgttctttcctgcttcagcctcttaaacaaccgctgctctatatggtcactgagaa ttgttcgc
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: 218 Transcript exons: 29719717-29719807,29720269-29720395 CTCATCATAACTTTTTCCTTGAGCCCTGGCTCTCTCTGTTCTTTCCTGCTTCAGCCTCTTAAAC AACCGCTGCTCTATATGGTCACTGAGAGAGCACCACAAGGGGTACAATAAATAGGTGGTGGCTC AAAGGTAAGCTTCTCCACTGCACATAGTTGGCAGGAATTCTCACTCATTGAATGCTCCATTGCC TGATTCTTTTCTGCTTTGGCTTTACT Transcript length: 576 Transcript exons: 29719717-29719995,29720099-29720395 CTCATCATAACTTTTTCCTTGAGCCCTGGCTCTCTCTGTTCTTTCCTGCTTCAGCCTCTTAAAC AACCGCTGCTCTATATGGTCACTGAGAATTGTTCGCGGTAAGTCTTTAGCTCCAAGAACAGCAC TCTGAGGTAAAGGCTTCCTCTTACTTTGCTCCACTTCTGCTATAAAGCAATATGGGCAGGTATA CTCAGCCTGCCCTCCGTCATTCCTTCTCCCATTAAATAAAGCACATATCTGATGCTGCCACGCC TCACATTTATCACATTGGACCCACCATTCTTCAGTCTCTTCATCATTTTTCTTTTTCTCGAGTC TTGCCTTAGGCATAGGGGTCCCTTCAGCGAGTATAGTGTCGCCGCGGGATTCATTATAACATGG AATACAAAAGTAATGACGAGTGTCACCAGCTCCTACGGTGTAGTACATAGCATTTCTCTTGATG CGAGCACCACAAGGGGTACAATAAATAGGTGGTGGCTCAAAGGTAAGCTTCTCCACTGCACATA GTTGGCAGGAATTCTCACTCATTGAATGCTCCATTGCCTGATTCTTTTCTGCTTTGGCTTTACT
Genomic sequence	CTCATCATAACTTTTTCCTTGAGCCCTGGCTCTCTCTGTTCTTTCCTGCTTCAGCCTCTTAAAC AACCGCTGCTCTATATGGTCACTGAGAATTGTTCGCGGTAAGTCTTTAGCTCCAAGAACAGCAC TCTGAGGTAAAGGCTTCCTCTTACTTTGCTCCACTTCTGCTATAAAGCAATATGGGCAGGTATA CTCAGCCTGCCCTCCGTCATTCCTTCTCCCATTAAATAAAGCACATATCTGATGCTGCCACGCC TCACATTTATCACATTGGACCCACTGCAAAAATCATACATAGAAACAAAATATAGCATGAACTA AAAAAACATACAAAGACGGGAGACAAACACAAAATAAGTCTACAGAGTGGATAGGCTTTTACCC ATTCTTCAGTCTCTTCATCATTTTTCTTTTTCTCGAGTCTTGCCTTAGGCATAGGGGTCCCTTC AGCGAGTATAGTGTCGCCGCGGGATTCATTATAACATGGAATACAAAAGTAATGACGAGTGTCA CCAGCTCCTACGGTGTAGTACATAGCATTTCTCTTGATGCGAGCACCACAAGGGGTACAATAAA TAGGTGGTGGCTCAAAGGTAAGCTTCTCCACTGCACATAGTTGGCAGGAATTCTCACTCATTGA ATGCTCCATTGCCTGATTCTTTTCTGCTTTGGCTTTACT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.561637662

Conservation Information
Conserved circRNAs	NA
PMCS	0.561637662

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29720366-29719719(-)
						
						Potential amino acid sequence
						
							MEHSMSENSCQLCAVEKLTFEPPPIYCTPCGARIKRNAMYYTVGAGDTRHYFCIPCYNESRGDT
ILAEGTPMPKARLEKKKNDEETEEWWVQCDKCEAWQHQICALFNGRRNDGGQAEYTCPYCFIAE
VEQSKRKPLPQSAVLGAKDLPRTILSDHIEQRLFKRLKQERTERARAQGKSYDESKAKAEKNQA
MEHSMSENSCQLCAVEKLTFEPPPIYCTPCGARIKRNAMYYTVGAGDTRHYFCIPCYNESRGDT
ILAEGTPMPKARLEKKKNDEETEEWWVQCDKCEAWQHQICALFNGRRNDGGQAEYTCPYCFIAE
VEQSKRKPLPQSAVLGAKDLPRTILSDHIEQRLFKRLKQERTERARAQGKSYDESKAKAEKNQA
MEHSMSENSCQLCAVEKLTFEPPPIYCTPCGARIKRNAMYYTVGAGDTRHYFCIPCYNESRGDT
ILAEGTPMPKARLEKKKNDEETEEWWVQCDKCEAWQHQICALFNGRRNDGGQAEYTCPYCFIAE
VEQSKRKPLPQSAVLGAKDLPRTILSDHIEQRLFKRLKQERTERARAQGKSYDESKAKAEKNQA
MEHSMSENSCQLCAVEKLTFEPPPIYCTPCGARIKRNAMYYTVGAGDTRHYFCIPCYNESRGDT
ILAEGTPMPKARLEKKKNDEETEEWWVQCDKCEAWQHQICALFNGRRNDGGQAEYTCPYCFIAE
VEQSKRKPLPQSAVLGAKDLPRTILSDHIEQRLFKRLKQERTERARAQGKSYDE(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29720366-29719719(-)
Potential amino acid sequence	MEHSMSENSCQLCAVEKLTFEPPPIYCTPCGARIKRNAMYYTVGAGDTRHYFCIPCYNESRGDT ILAEGTPMPKARLEKKKNDEETEEWWVQCDKCEAWQHQICALFNGRRNDGGQAEYTCPYCFIAE VEQSKRKPLPQSAVLGAKDLPRTILSDHIEQRLFKRLKQERTERARAQGKSYDESKAKAEKNQA MEHSMSENSCQLCAVEKLTFEPPPIYCTPCGARIKRNAMYYTVGAGDTRHYFCIPCYNESRGDT ILAEGTPMPKARLEKKKNDEETEEWWVQCDKCEAWQHQICALFNGRRNDGGQAEYTCPYCFIAE VEQSKRKPLPQSAVLGAKDLPRTILSDHIEQRLFKRLKQERTERARAQGKSYDESKAKAEKNQA MEHSMSENSCQLCAVEKLTFEPPPIYCTPCGARIKRNAMYYTVGAGDTRHYFCIPCYNESRGDT ILAEGTPMPKARLEKKKNDEETEEWWVQCDKCEAWQHQICALFNGRRNDGGQAEYTCPYCFIAE VEQSKRKPLPQSAVLGAKDLPRTILSDHIEQRLFKRLKQERTERARAQGKSYDESKAKAEKNQA MEHSMSENSCQLCAVEKLTFEPPPIYCTPCGARIKRNAMYYTVGAGDTRHYFCIPCYNESRGDT ILAEGTPMPKARLEKKKNDEETEEWWVQCDKCEAWQHQICALFNGRRNDGGQAEYTCPYCFIAE VEQSKRKPLPQSAVLGAKDLPRTILSDHIEQRLFKRLKQERTERARAQGKSYDE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Pan et al., 2017;Liu et al., 2017

circRNA

Detail information of AT1G79000_circ_g.2

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