Plant Circular RNA Database

Detail information of AT2G45540_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT2G45540_circ_g.2
					
						ID in PlantcircBase
						ath_circ_018530
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 18758292-18759593  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT2G45540						
					
						Parent gene annotation
						
							BEACH domain-containing protein C2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						9
					
						Tissues
						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
						AT2G45540.2:2
AT2G45540.4:2
AT2G45540.5:2
AT2G45540.1:2
AT2G45540.6:2
AT2G45540.3:2

General Information
CircRNA Name	AT2G45540_circ_g.2
ID in PlantcircBase	ath_circ_018530
Alias	NA
Organism	Arabidpsis thaliana
Position	chr2: 18758292-18759593 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	AT2G45540
Parent gene annotation	BEACH domain-containing protein C2
Parent gene strand	-
Alternative splicing	NA
Support reads	9
Tissues	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	AT2G45540.2:2 AT2G45540.4:2 AT2G45540.5:2 AT2G45540.1:2 AT2G45540.6:2 AT2G45540.3:2

			
						 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  
						
							CATCTTTCAACGGCATCCTCTTCATGTGAGGAACTGTCAACAGCTGGGATGGTGTTTGCCCAAA
ATAAGCTATCTGGTCTTGTGTGGCACGTTGTTGTACctgtagtgtgtataagttgaggaagcaa
attgaaggagatggaacatccagtctttcaatttctttgctatctttcgatgtatcattactac
tcgaataa

						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
						
							CTGTAGTGTGTATAAGTTGAGGAAGCAAATTGAAGGAGATGGAACATCCAGTCTTTCAATTTCT
TTGCTATCTTTCGATGTATCATTACTACTCGAATAATCCGAGTTGGAACATGAGTTCATCCCTA
TCAAGGCATTTTGACCATCCATGGATATTTCCATGCAACCAACGCTACAAAAGAGGGGAAATTT
TGCTTTGGCAATCAGAACACCGTTAATGGTGAACACGCTAATAGAACCTTCTGAACTACTCCAC
GCCATTATAACCCCATCCGATGAAATGCAGAGAGAATCTGCCTTCACACCAACTAATCGTCTGA
TCAGCCGTCCTTTTCTAATGGAATGCAATAGAACATCTGAGGACTCAGAAGACGAAACAACGAC
TCCTTGGTCTGAGCTGACACAACAACAAACTAATTCTCTTCGATGGCCTCGGAGCACTTGTATA
GGCCCTTCAAGGCGACATTTTTTGCCTTTGTTTGCCAACGTATTGGCCAGATTCGTGTTGCTTG
TGGAGGAAGGCGCTCCAGAGCCAGTTGATGGCTCAGACACGCTTGTTCGAGAAGTAAACGCCTT
GTGAATTCTCCATAGCAAAACAGTACTGTCCCGTGAACCCGTCACAAGGAAGTTGTTGTCTGGA
GAAAGAGCCAGACATGTAACAGGGGCACAGTGCCCAAAAGCTGTTTCCAGAGTTTTTGCCCCAT
CAGATGAGACTAGCTTGATACTATTATCCGCATGTCCACCTATAATTAAACACATGAGTCCCAT
AAATATATATTACCAACAAACTTGGGATCGTATAATTGCTTGCTTATTACCTGTGATTATTTCC
CCATCGCTAGTAATAGCAATCACGGACGAACTTCTGATTCCTGATGAGGCAAATGCTTGTGCCT
GAGGAAATTGCCAGTCACCAGTTCCAGAACTAGCTGGACCCTTGAACATGCGCATCAATGATCC
ACTAGTTGAAGTTGTTGTTGCCTTCCCGTGATGGAAGAGGAAAGGAGTACCTTGGCCATCAGGA
GTGTTTGGTTGCCACTTGTGCTGTGCAACACGAGCTGCTGGCACATTCATGTCCACAATCACAA
CACTATCTGAAGATGCCTGAATGGCTGAGGCTGGTAAGTTGCAGCGCTCTGGGGTTTGAACAGT
ATATGGTTTTATTTCTTTTGGATTTCGAAAAATAGTCTGCATATGTAGGACATCTTTCAACGGC
ATCCTCTTCATGTGAGGAACTGTCAACAGCTGGGATGGTGTTTGCCCAAAATAAGCTATCTGGT
CTTGTGTGGCACGTTGTTGTAC

Sequences
Splice junction sequence	CATCTTTCAACGGCATCCTCTTCATGTGAGGAACTGTCAACAGCTGGGATGGTGTTTGCCCAAA ATAAGCTATCTGGTCTTGTGTGGCACGTTGTTGTACctgtagtgtgtataagttgaggaagcaa attgaaggagatggaacatccagtctttcaatttctttgctatctttcgatgtatcattactac tcgaataa
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	CTGTAGTGTGTATAAGTTGAGGAAGCAAATTGAAGGAGATGGAACATCCAGTCTTTCAATTTCT TTGCTATCTTTCGATGTATCATTACTACTCGAATAATCCGAGTTGGAACATGAGTTCATCCCTA TCAAGGCATTTTGACCATCCATGGATATTTCCATGCAACCAACGCTACAAAAGAGGGGAAATTT TGCTTTGGCAATCAGAACACCGTTAATGGTGAACACGCTAATAGAACCTTCTGAACTACTCCAC GCCATTATAACCCCATCCGATGAAATGCAGAGAGAATCTGCCTTCACACCAACTAATCGTCTGA TCAGCCGTCCTTTTCTAATGGAATGCAATAGAACATCTGAGGACTCAGAAGACGAAACAACGAC TCCTTGGTCTGAGCTGACACAACAACAAACTAATTCTCTTCGATGGCCTCGGAGCACTTGTATA GGCCCTTCAAGGCGACATTTTTTGCCTTTGTTTGCCAACGTATTGGCCAGATTCGTGTTGCTTG TGGAGGAAGGCGCTCCAGAGCCAGTTGATGGCTCAGACACGCTTGTTCGAGAAGTAAACGCCTT GTGAATTCTCCATAGCAAAACAGTACTGTCCCGTGAACCCGTCACAAGGAAGTTGTTGTCTGGA GAAAGAGCCAGACATGTAACAGGGGCACAGTGCCCAAAAGCTGTTTCCAGAGTTTTTGCCCCAT CAGATGAGACTAGCTTGATACTATTATCCGCATGTCCACCTATAATTAAACACATGAGTCCCAT AAATATATATTACCAACAAACTTGGGATCGTATAATTGCTTGCTTATTACCTGTGATTATTTCC CCATCGCTAGTAATAGCAATCACGGACGAACTTCTGATTCCTGATGAGGCAAATGCTTGTGCCT GAGGAAATTGCCAGTCACCAGTTCCAGAACTAGCTGGACCCTTGAACATGCGCATCAATGATCC ACTAGTTGAAGTTGTTGTTGCCTTCCCGTGATGGAAGAGGAAAGGAGTACCTTGGCCATCAGGA GTGTTTGGTTGCCACTTGTGCTGTGCAACACGAGCTGCTGGCACATTCATGTCCACAATCACAA CACTATCTGAAGATGCCTGAATGGCTGAGGCTGGTAAGTTGCAGCGCTCTGGGGTTTGAACAGT ATATGGTTTTATTTCTTTTGGATTTCGAAAAATAGTCTGCATATGTAGGACATCTTTCAACGGC ATCCTCTTCATGTGAGGAACTGTCAACAGCTGGGATGGTGTTTGCCCAAAATAAGCTATCTGGT CTTGTGTGGCACGTTGTTGTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.19243179

Conservation Information
Conserved circRNAs	NA
PMCS	0.19243179

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							18759519-18758294(-)
						
					

						Potential amino acid sequence
						
							MKRMPLKDVLHMQTIFRNPKEIKPYTVQTPERCNLPASAIQASSDSVVIVDMNVPAARVAQHKW
QPNTPDGQGTPFLFHHGKATTTSTSGSLMRMFKGPASSGTGDWQFPQAQAFASSGIRSSSVIAI
TSDGEIITGGHADNSIKLVSSDGAKTLETAFGHCAPVTCLALSPDNNFLVTGSRDSTVLLWRIH
KAFTSRTSVSEPSTGSGAPSSTSNTNLANTLANKGKKCRLEGPIQVLRGHRRELVCCCVSSDQG
VVVSSSESSDVLLHSIRKGRLIRRLVGVKADSLCISSDGVIMAWSSSEGSISVFTINGVLIAKA
KFPLFCSVGCMEISMDGQNALIGMNSCSNSDYSSSNDTSKDSKEIERLDVPSPSICFLNLYTLQ
VQQRATQDQIAYFGQTPSQLLTVPHMKRMPLKDVLHMQTIFRNPKEIKPYTVQTPERCNLPASA
IQASSDSVVIVDMNVPAARVAQHKWQPNTPDGQGTPFLFHHGKATTTSTSGSLMRMFKGPASSG
TGDWQFPQAQAFASSGIRSSSVIAITSDGEIITGGHADNSIKLVSSDGAKTLETAFGHCAPVTC
LALSPDNNFLVTGSRDSTVLLWRIHKAFTSRTSVSEPSTGSGAPSSTSNTNLANTLANKGKKCR
LEGPIQVLRGHRRELVCCCVSSDQGVVVSSSESSDVLLHSIRKGRLIRRLVGVKADSLCISSDG
VIMAWSSSEGSISVFTINGVLIAKAKFPLFCSVGCMEISMDGQNALIGMNSCSNSDYSSSNDTS
KDSKEIERLDVPSPSICFLNLYTLQVQQRATQDQIAYFGQTPSQLLTVPHMKRMPLKDVLHMQT
IFRNPKEIKPYTVQTPERCNLPASAIQASSDSVVIVDMNVPAARVAQHKWQPNTPDGQGTPFLF
HHGKATTTSTSGSLMRMFKGPASSGTGDWQFPQAQAFASSGIRSSSVIAITSDGEIITGGHADN
SIKLVSSDGAKTLETAFGHCAPVTCLALSPDNNFLVTGSRDSTVLLWRIHKAFTSRTSVSEPST
GSGAPSSTSNTNLANTLANKGKKCRLEGPIQVLRGHRRELVCCCVSSDQGVVVSSSESSDVLLH
SIRKGRLIRRLVGVKADSLCISSDGVIMAWSSSEGSISVFTINGVLIAKAKFPLFCSVGCMEIS
MDGQNALIGMNSCSNSDYSSSNDTSKDSKEIERLDVPSPSICFLNLYTLQVQQRATQDQIAYFG
QTPSQLLTVPHMKRMPLKDVLHMQTIFRNPKEIKPYTVQTPERCNLPASAIQASSDSVVIVDMN
VPAARVAQHKWQPNTPDGQGTPFLFHHGKATTTSTSGSLMRMFKGPASSGTGDWQFPQAQAFAS
SGIRSSSVIAITSDGEIITGGHADNSIKLVSSDGAKTLETAFGHCAPVTCLALSPDNNFLVTGS
RDSTVLLWRIHKAFTSRTSVSEPSTGSGAPSSTSNTNLANTLANKGKKCRLEGPIQVLRGHRRE
LVCCCVSSDQGVVVSSSESSDVLLHSIRKGRLIRRLVGVKADSLCISSDGVIMAWSSSEGSISV
FTINGVLIAKAKFPLFCSVGCMEISMDGQNALIGMNSCSNSDYSSSNDTSKDSKEIERLDVPSP
SICFLNLYTLQ(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	18759519-18758294(-)
Potential amino acid sequence	MKRMPLKDVLHMQTIFRNPKEIKPYTVQTPERCNLPASAIQASSDSVVIVDMNVPAARVAQHKW QPNTPDGQGTPFLFHHGKATTTSTSGSLMRMFKGPASSGTGDWQFPQAQAFASSGIRSSSVIAI TSDGEIITGGHADNSIKLVSSDGAKTLETAFGHCAPVTCLALSPDNNFLVTGSRDSTVLLWRIH KAFTSRTSVSEPSTGSGAPSSTSNTNLANTLANKGKKCRLEGPIQVLRGHRRELVCCCVSSDQG VVVSSSESSDVLLHSIRKGRLIRRLVGVKADSLCISSDGVIMAWSSSEGSISVFTINGVLIAKA KFPLFCSVGCMEISMDGQNALIGMNSCSNSDYSSSNDTSKDSKEIERLDVPSPSICFLNLYTLQ VQQRATQDQIAYFGQTPSQLLTVPHMKRMPLKDVLHMQTIFRNPKEIKPYTVQTPERCNLPASA IQASSDSVVIVDMNVPAARVAQHKWQPNTPDGQGTPFLFHHGKATTTSTSGSLMRMFKGPASSG TGDWQFPQAQAFASSGIRSSSVIAITSDGEIITGGHADNSIKLVSSDGAKTLETAFGHCAPVTC LALSPDNNFLVTGSRDSTVLLWRIHKAFTSRTSVSEPSTGSGAPSSTSNTNLANTLANKGKKCR LEGPIQVLRGHRRELVCCCVSSDQGVVVSSSESSDVLLHSIRKGRLIRRLVGVKADSLCISSDG VIMAWSSSEGSISVFTINGVLIAKAKFPLFCSVGCMEISMDGQNALIGMNSCSNSDYSSSNDTS KDSKEIERLDVPSPSICFLNLYTLQVQQRATQDQIAYFGQTPSQLLTVPHMKRMPLKDVLHMQT IFRNPKEIKPYTVQTPERCNLPASAIQASSDSVVIVDMNVPAARVAQHKWQPNTPDGQGTPFLF HHGKATTTSTSGSLMRMFKGPASSGTGDWQFPQAQAFASSGIRSSSVIAITSDGEIITGGHADN SIKLVSSDGAKTLETAFGHCAPVTCLALSPDNNFLVTGSRDSTVLLWRIHKAFTSRTSVSEPST GSGAPSSTSNTNLANTLANKGKKCRLEGPIQVLRGHRRELVCCCVSSDQGVVVSSSESSDVLLH SIRKGRLIRRLVGVKADSLCISSDGVIMAWSSSEGSISVFTINGVLIAKAKFPLFCSVGCMEIS MDGQNALIGMNSCSNSDYSSSNDTSKDSKEIERLDVPSPSICFLNLYTLQVQQRATQDQIAYFG QTPSQLLTVPHMKRMPLKDVLHMQTIFRNPKEIKPYTVQTPERCNLPASAIQASSDSVVIVDMN VPAARVAQHKWQPNTPDGQGTPFLFHHGKATTTSTSGSLMRMFKGPASSGTGDWQFPQAQAFAS SGIRSSSVIAITSDGEIITGGHADNSIKLVSSDGAKTLETAFGHCAPVTCLALSPDNNFLVTGS RDSTVLLWRIHKAFTSRTSVSEPSTGSGAPSSTSNTNLANTLANKGKKCRLEGPIQVLRGHRRE LVCCCVSSDQGVVVSSSESSDVLLHSIRKGRLIRRLVGVKADSLCISSDGVIMAWSSSEGSISV FTINGVLIAKAKFPLFCSVGCMEISMDGQNALIGMNSCSNSDYSSSNDTSKDSKEIERLDVPSP SICFLNLYTLQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT2G45540_circ_g.2

Address

Any questions?

Supported by