Plant Circular RNA Database

Detail information of AT2G02800_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT2G02800_circ_g.1
					
						ID in PlantcircBase
						ath_circ_012610
					
						Alias
						2:797672-798720
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 797672-798720  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G02800						
					
						Parent gene annotation
						
							Probable serine/threonine-protein kinase PBL3
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G02800_circ_g.2 AT2G02800_circ_g.3 						
					
						Support reads
						1/1
					
						Tissues
						root
					
						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
						AT2G02800.1:4
AT2G02800.2:4

General Information
CircRNA Name	AT2G02800_circ_g.1
ID in PlantcircBase	ath_circ_012610
Alias	2:797672-798720
Organism	Arabidpsis thaliana
Position	chr2: 797672-798720 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G02800
Parent gene annotation	Probable serine/threonine-protein kinase PBL3
Parent gene strand	-
Alternative splicing	AT2G02800_circ_g.2 AT2G02800_circ_g.3
Support reads	1/1
Tissues	root
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	AT2G02800.1:4 AT2G02800.2:4

			
						 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  
						
							GGTGTAGGTAAAGACTCAACACTGCTGTAAGAATTTATGCTTAAGCTTGAAGGAACTGTGGAAC
GACTTGTCTTGCTAGAAACTCTTGAGCTCAATGAAGctgttgctacatattccggggcagcata
tccgtgagtacccatgacttgtgtggacacatgagtcttgtcaccggtaggacctgctttagct
agaccgaa

									
								

					

						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: 735
Transcript exons: 797672-797795,797899-798035,798148-798283,798383-798720
CTGTTGCTACATATTCCGGGGCAGCATATCCGTGAGTACCCATGACTTGTGTGGACACATGAGT
CTTGTCACCGGTAGGACCTGCTTTAGCTAGACCGAAGTCTGAAAGTTTACTGTTGAATTCCGCA
TCAAGTAGAATGTTAGCAGCTTTAAAGTCTCTGTATATCACTTGCGATTTCGCATCATGGAGAA
AAGTAAGTCCTTTGGCAGCCCCTATTGCAACTTTCATCCTTATAGCCCACGTAAGTGGCTGAGC
GCCACGTCTAAAAAGATGATTCTCCAAGCTTCCTTTTGGCATGAACTCGTATACCAGTAACCGG
TTTTCTCCCTCTACACAATACCCAACAAGTTTGACGAGATTTGGGTGACTAAGCTGACCAAGAT
AGTTCACTTCAGTCAACCACTCTTTATGACCTTGATAACCTTCAGTTTTAAGCTTCTTAACCGC
AACAACAATTCCAGAACCCGGTTTTGAAGCAGTTAAAGTAGTTCCATCAATCCACCCTTTAAAC
ACATAGCCAAAACCTCCTTCACCTAAAAGACTATCGGGTCGAAAGTTCCTCGTAGCGTTCTTGA
GCTCGTTAAAGGTGAAAGCTTTAAGATTTGGTGATGACAAAATCTCTCCTTCTGTTCTTGGTGT
AGGTAAAGACTCAACACTGCTGTAAGAATTTATGCTTAAGCTTGAAGGAACTGTGGAACGACTT
GTCTTGCTAGAAACTCTTGAGCTCAATGAAG
						
					

						Genomic sequence
						
							CTGTTGCTACATATTCCGGGGCAGCATATCCGTGAGTACCCATGACTTGTGTGGACACATGAGT
CTTGTCACCGGTAGGACCTGCTTTAGCTAGACCGAAGTCTGAAAGTTTACTGTTGAATTCCTGT
GATTAAGATCGATATAGAAGCTAGTTAGAAAATAGAATCAAATCATCACGAATAAGGGGTTAAA
GAGAGGCTACTCGTCAGGTTTCTCAGGTTTATTACCGCATCAAGTAGAATGTTAGCAGCTTTAA
AGTCTCTGTATATCACTTGCGATTTCGCATCATGGAGAAAAGTAAGTCCTTTGGCAGCCCCTAT
TGCAACTTTCATCCTTATAGCCCACGTAAGTGGCTGAGCGCCACCTGGAAGATCAAAAAAGCAT
TTGACAAGGATTACAAAACAAGAGTATAAAGAAGAAGATAAGATTTGCTGATTCTGAAAAGGAT
TGCTTTGGTAATCACAGGTTTTACATACGTCTAAAAAGATGATTCTCCAAGCTTCCTTTTGGCA
TGAACTCGTATACCAGTAACCGGTTTTCTCCCTCTACACAATACCCAACAAGTTTGACGAGATT
TGGGTGACTAAGCTGACCAAGATAGTTCACTTCAGTCTAAAACCAAACAAATCCAAAAAAAAAG
TATGTCAGCAAACAATGTTAACACCATTCATGATCAAAATCAATAAGAGAATGAAGGAAACAAA
GACGTACCAACCACTCTTTATGACCTTGATAACCTTCAGTTTTAAGCTTCTTAACCGCAACAAC
AATTCCAGAACCCGGTTTTGAAGCAGTTAAAGTAGTTCCATCAATCCACCCTTTAAACACATAG
CCAAAACCTCCTTCACCTAAAAGACTATCGGGTCGAAAGTTCCTCGTAGCGTTCTTGAGCTCGT
TAAAGGTGAAAGCTTTAAGATTTGGTGATGACAAAATCTCTCCTTCTGTTCTTGGTGTAGGTAA
AGACTCAACACTGCTGTAAGAATTTATGCTTAAGCTTGAAGGAACTGTGGAACGACTTGTCTTG
CTAGAAACTCTTGAGCTCAATGAAG
						
					

			
		

Sequences
Splice junction sequence	GGTGTAGGTAAAGACTCAACACTGCTGTAAGAATTTATGCTTAAGCTTGAAGGAACTGTGGAAC GACTTGTCTTGCTAGAAACTCTTGAGCTCAATGAAGctgttgctacatattccggggcagcata tccgtgagtacccatgacttgtgtggacacatgagtcttgtcaccggtaggacctgctttagct agaccgaa
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: 735 Transcript exons: 797672-797795,797899-798035,798148-798283,798383-798720 CTGTTGCTACATATTCCGGGGCAGCATATCCGTGAGTACCCATGACTTGTGTGGACACATGAGT CTTGTCACCGGTAGGACCTGCTTTAGCTAGACCGAAGTCTGAAAGTTTACTGTTGAATTCCGCA TCAAGTAGAATGTTAGCAGCTTTAAAGTCTCTGTATATCACTTGCGATTTCGCATCATGGAGAA AAGTAAGTCCTTTGGCAGCCCCTATTGCAACTTTCATCCTTATAGCCCACGTAAGTGGCTGAGC GCCACGTCTAAAAAGATGATTCTCCAAGCTTCCTTTTGGCATGAACTCGTATACCAGTAACCGG TTTTCTCCCTCTACACAATACCCAACAAGTTTGACGAGATTTGGGTGACTAAGCTGACCAAGAT AGTTCACTTCAGTCAACCACTCTTTATGACCTTGATAACCTTCAGTTTTAAGCTTCTTAACCGC AACAACAATTCCAGAACCCGGTTTTGAAGCAGTTAAAGTAGTTCCATCAATCCACCCTTTAAAC ACATAGCCAAAACCTCCTTCACCTAAAAGACTATCGGGTCGAAAGTTCCTCGTAGCGTTCTTGA GCTCGTTAAAGGTGAAAGCTTTAAGATTTGGTGATGACAAAATCTCTCCTTCTGTTCTTGGTGT AGGTAAAGACTCAACACTGCTGTAAGAATTTATGCTTAAGCTTGAAGGAACTGTGGAACGACTT GTCTTGCTAGAAACTCTTGAGCTCAATGAAG
Genomic sequence	CTGTTGCTACATATTCCGGGGCAGCATATCCGTGAGTACCCATGACTTGTGTGGACACATGAGT CTTGTCACCGGTAGGACCTGCTTTAGCTAGACCGAAGTCTGAAAGTTTACTGTTGAATTCCTGT GATTAAGATCGATATAGAAGCTAGTTAGAAAATAGAATCAAATCATCACGAATAAGGGGTTAAA GAGAGGCTACTCGTCAGGTTTCTCAGGTTTATTACCGCATCAAGTAGAATGTTAGCAGCTTTAA AGTCTCTGTATATCACTTGCGATTTCGCATCATGGAGAAAAGTAAGTCCTTTGGCAGCCCCTAT TGCAACTTTCATCCTTATAGCCCACGTAAGTGGCTGAGCGCCACCTGGAAGATCAAAAAAGCAT TTGACAAGGATTACAAAACAAGAGTATAAAGAAGAAGATAAGATTTGCTGATTCTGAAAAGGAT TGCTTTGGTAATCACAGGTTTTACATACGTCTAAAAAGATGATTCTCCAAGCTTCCTTTTGGCA TGAACTCGTATACCAGTAACCGGTTTTCTCCCTCTACACAATACCCAACAAGTTTGACGAGATT TGGGTGACTAAGCTGACCAAGATAGTTCACTTCAGTCTAAAACCAAACAAATCCAAAAAAAAAG TATGTCAGCAAACAATGTTAACACCATTCATGATCAAAATCAATAAGAGAATGAAGGAAACAAA GACGTACCAACCACTCTTTATGACCTTGATAACCTTCAGTTTTAAGCTTCTTAACCGCAACAAC AATTCCAGAACCCGGTTTTGAAGCAGTTAAAGTAGTTCCATCAATCCACCCTTTAAACACATAG CCAAAACCTCCTTCACCTAAAAGACTATCGGGTCGAAAGTTCCTCGTAGCGTTCTTGAGCTCGT TAAAGGTGAAAGCTTTAAGATTTGGTGATGACAAAATCTCTCCTTCTGTTCTTGGTGTAGGTAA AGACTCAACACTGCTGTAAGAATTTATGCTTAAGCTTGAAGGAACTGTGGAACGACTTGTCTTG CTAGAAACTCTTGAGCTCAATGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.325770349

Conservation Information
Conserved circRNAs	NA
PMCS	0.325770349

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT2G02800_circ_g.1

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