Plant Circular RNA Database

Detail information of AT2G30740_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT2G30740_circ_g.2
					
						ID in PlantcircBase
						ath_circ_015718
					
						Alias
						2:13096352-13098009
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 13096352-13098009  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G30740						
					
						Parent gene annotation
						
							PTI1-like tyrosine-protein kinase 2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							2_circ_ag.5 2_circ_ag.6 2_circ_ag.7 2_circ_ag.8 AT2G30740_circ_g.1 AT2G30740_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  
						
							GT-AG							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
						AT2G30740.12:6
AT2G30740.15:6
AT2G30740.11:6
AT2G30740.3:6
AT2G30740.7:6
AT2G30740.6:6
AT2G30740.2:6
AT2G30740.8:6
AT2G30740.5:6
AT2G30740.10:6
AT2G30740.13:6
AT2G30740.1:6
AT2G30740.14:6
AT2G30740.4:6
AT2G30740.9:6

General Information
CircRNA Name	AT2G30740_circ_g.2
ID in PlantcircBase	ath_circ_015718
Alias	2:13096352-13098009
Organism	Arabidpsis thaliana
Position	chr2: 13096352-13098009 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G30740
Parent gene annotation	PTI1-like tyrosine-protein kinase 2
Parent gene strand	+
Alternative splicing	2_circ_ag.5 2_circ_ag.6 2_circ_ag.7 2_circ_ag.8 AT2G30740_circ_g.1 AT2G30740_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	GT-AG 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	AT2G30740.12:6 AT2G30740.15:6 AT2G30740.11:6 AT2G30740.3:6 AT2G30740.7:6 AT2G30740.6:6 AT2G30740.2:6 AT2G30740.8:6 AT2G30740.5:6 AT2G30740.10:6 AT2G30740.13:6 AT2G30740.1:6 AT2G30740.14:6 AT2G30740.4:6 AT2G30740.9:6

			
						 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  
						
							GTCTATTATTCAGGCTACACCGAGACTCAGTGAAGATAAAGTGAAGCAATGTGTTGATCCAAAG
TTAAAAGGAGAATATCCTCCTAAATCAGTAGCCAAGgtactaagaagctgtggaggatctatat
ttgaaagaagagaacaaggatgcgtaggtggatctgttgtggggataaaaaaggagattcagat
ttatcaaa

									
								

					

						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: 1016
Transcript exons: 13096352-13096492,13096764-13097017,13097109-13097235,13
097338-13097611,13097698-13097830,13097923-13098009
GTACTAAGAAGCTGTGGAGGATCTATATTTGAAAGAAGAGAACAAGGATGCGTAGGTGGATCTG
TTGTGGGGATAAAAAAGGAGATTCAGATTTATCAAATGAAGAGGTGCATTTGAAAAGTCCATGG
CAAAATTCTGAGGCAAATCAAAAGAATCAAAAACCACAAGCTGTTGTAAAGCCTGAGGCGCAGA
AAGAAGCTCTTCCCATCGAAGTTCCTCCCTTGTCTGTGGATGAGGTTAAAGAAAAGACTGACAA
TTTTGGATCTAAGTCTCTGATTGGTGAGGGTTCTTATGGAAGGGTATATTATGCAACTCTAAAT
GATGGGAAAGCAGTTGCTTTGAAGAAACTCGATGTTGCACCTGAAGCTGAAACAAACACCGAGT
TCCTGAATCAGGTTTCCATGGTTTCAAGACTAAAACATGAGAATCTCATTCAACTGGTTGGTTA
TTGTGTTGATGAAAACCTCCGTGTTCTTGCTTATGAGTTTGCAACAATGGGATCACTGCACGAC
ATTCTACATGGTAGGAAGGGAGTTCAAGGAGCACAGCCAGGTCCAACACTTGACTGGTTAACGA
GGGTGAAGATAGCTGTTGAGGCAGCTAGGGGTTTAGAATACCTTCATGAGAAGGTTCAGCCTCC
TGTAATACATAGAGACATAAGATCTAGCAATGTTCTCCTTTTTGAAGACTATCAAGCAAAAGTT
GCAGATTTTAATCTCTCAAATCAAGCTCCTGATAATGCTGCTCGTCTTCACTCTACGAGAGTTT
TAGGCACCTTTGGCTATCACGCTCCAGAATATGCTATGACAGGACAGTTAACGCAGAAGAGTGA
CGTGTATAGCTTTGGGGTTGTTCTTCTAGAGCTTTTGACAGGAAGGAAACCTGTAGATCATACA
ATGCCACGCGGCCAACAGAGTCTTGTAACTTGGGCTACACCGAGACTCAGTGAAGATAAAGTGA
AGCAATGTGTTGATCCAAAGTTAAAAGGAGAATATCCTCCTAAATCAGTAGCCAAG
						
					

						Genomic sequence
						
							GTACTAAGAAGCTGTGGAGGATCTATATTTGAAAGAAGAGAACAAGGATGCGTAGGTGGATCTG
TTGTGGGGATAAAAAAGGAGATTCAGATTTATCAAATGAAGAGGTGCATTTGAAAAGTCCATGG
CAAAATTCTGAGGGTATGTTGCAGACCCAGAGATCACTTAACTTACTGATACTTATTGTCTATG
TATGGTTCGGATTTGATAATCTATTGGGAATATGATTTTGGTGGTATTGTTTGCGTACTAAATA
TAGGCTTAAGCTTTCAGAGTTTTTATAATTAGTATCATAGTTTCCCACATAAGAATTAGTATTT
GACTGTTTTGAAGGAGTGAACTTGTAACATTTGATGAATATCTGTAATGGTTCTAATAAGAATA
TGGTATTTGCATGTTATCACGTATGTAGCAAATCAAAAGAATCAAAAACCACAAGCTGTTGTAA
AGCCTGAGGCGCAGAAAGAAGCTCTTCCCATCGAAGTTCCTCCCTTGTCTGTGGATGAGGTTAA
AGAAAAGACTGACAATTTTGGATCTAAGTCTCTGATTGGTGAGGGTTCTTATGGAAGGGTATAT
TATGCAACTCTAAATGATGGGAAAGCAGTTGCTTTGAAGAAACTCGATGTTGCACCTGAAGCTG
AAACAAACACCGAGTTCCTGAATCAGGTTATAAATTTTGCTTCAATCCCCCTTCCCTTCATTTC
CTTCTATCTTCAGAAAAGAAATTCTTTACAATCTCTTGCTTCCTTCTTCTTAGGTTTCCATGGT
TTCAAGACTAAAACATGAGAATCTCATTCAACTGGTTGGTTATTGTGTTGATGAAAACCTCCGT
GTTCTTGCTTATGAGTTTGCAACAATGGGATCACTGCACGACATTCTACATGGTATGAGGAGCT
TCCACGCTCATTCTTGTTAGAAAACTTCCTTGCTTGGGAAAAATATAGAAAACAGAATCGATTT
CTTGATGGAATGTGTTACTATTATAGGTAGGAAGGGAGTTCAAGGAGCACAGCCAGGTCCAACA
CTTGACTGGTTAACGAGGGTGAAGATAGCTGTTGAGGCAGCTAGGGGTTTAGAATACCTTCATG
AGAAGGTTCAGCCTCCTGTAATACATAGAGACATAAGATCTAGCAATGTTCTCCTTTTTGAAGA
CTATCAAGCAAAAGTTGCAGATTTTAATCTCTCAAATCAAGCTCCTGATAATGCTGCTCGTCTT
CACTCTACGAGAGTTTTAGGCACCTTTGGCTATCACGCTCCAGAGTAATCTTCCTTAAACCCTT
AAAACTTTTGTTGCGTCCAAATGAAATTATGAGCAAGGCAGCTAAAATGTTTCTTTCCATTTGC
AGATATGCTATGACAGGACAGTTAACGCAGAAGAGTGACGTGTATAGCTTTGGGGTTGTTCTTC
TAGAGCTTTTGACAGGAAGGAAACCTGTAGATCATACAATGCCACGCGGCCAACAGAGTCTTGT
AACTTGGGTATGTTTGTTATCTGCTCGCTGTCCAAATCTGTATCCTGCTCTGTTTCTATCTCAT
GTCTTACAAATTGAAGTGTGCTGTCTATTATTCAGGCTACACCGAGACTCAGTGAAGATAAAGT
GAAGCAATGTGTTGATCCAAAGTTAAAAGGAGAATATCCTCCTAAATCAGTAGCCAAG
						
					

			
		

Sequences
Splice junction sequence	GTCTATTATTCAGGCTACACCGAGACTCAGTGAAGATAAAGTGAAGCAATGTGTTGATCCAAAG TTAAAAGGAGAATATCCTCCTAAATCAGTAGCCAAGgtactaagaagctgtggaggatctatat ttgaaagaagagaacaaggatgcgtaggtggatctgttgtggggataaaaaaggagattcagat ttatcaaa
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: 1016 Transcript exons: 13096352-13096492,13096764-13097017,13097109-13097235,13 097338-13097611,13097698-13097830,13097923-13098009 GTACTAAGAAGCTGTGGAGGATCTATATTTGAAAGAAGAGAACAAGGATGCGTAGGTGGATCTG TTGTGGGGATAAAAAAGGAGATTCAGATTTATCAAATGAAGAGGTGCATTTGAAAAGTCCATGG CAAAATTCTGAGGCAAATCAAAAGAATCAAAAACCACAAGCTGTTGTAAAGCCTGAGGCGCAGA AAGAAGCTCTTCCCATCGAAGTTCCTCCCTTGTCTGTGGATGAGGTTAAAGAAAAGACTGACAA TTTTGGATCTAAGTCTCTGATTGGTGAGGGTTCTTATGGAAGGGTATATTATGCAACTCTAAAT GATGGGAAAGCAGTTGCTTTGAAGAAACTCGATGTTGCACCTGAAGCTGAAACAAACACCGAGT TCCTGAATCAGGTTTCCATGGTTTCAAGACTAAAACATGAGAATCTCATTCAACTGGTTGGTTA TTGTGTTGATGAAAACCTCCGTGTTCTTGCTTATGAGTTTGCAACAATGGGATCACTGCACGAC ATTCTACATGGTAGGAAGGGAGTTCAAGGAGCACAGCCAGGTCCAACACTTGACTGGTTAACGA GGGTGAAGATAGCTGTTGAGGCAGCTAGGGGTTTAGAATACCTTCATGAGAAGGTTCAGCCTCC TGTAATACATAGAGACATAAGATCTAGCAATGTTCTCCTTTTTGAAGACTATCAAGCAAAAGTT GCAGATTTTAATCTCTCAAATCAAGCTCCTGATAATGCTGCTCGTCTTCACTCTACGAGAGTTT TAGGCACCTTTGGCTATCACGCTCCAGAATATGCTATGACAGGACAGTTAACGCAGAAGAGTGA CGTGTATAGCTTTGGGGTTGTTCTTCTAGAGCTTTTGACAGGAAGGAAACCTGTAGATCATACA ATGCCACGCGGCCAACAGAGTCTTGTAACTTGGGCTACACCGAGACTCAGTGAAGATAAAGTGA AGCAATGTGTTGATCCAAAGTTAAAAGGAGAATATCCTCCTAAATCAGTAGCCAAG
Genomic sequence	GTACTAAGAAGCTGTGGAGGATCTATATTTGAAAGAAGAGAACAAGGATGCGTAGGTGGATCTG TTGTGGGGATAAAAAAGGAGATTCAGATTTATCAAATGAAGAGGTGCATTTGAAAAGTCCATGG CAAAATTCTGAGGGTATGTTGCAGACCCAGAGATCACTTAACTTACTGATACTTATTGTCTATG TATGGTTCGGATTTGATAATCTATTGGGAATATGATTTTGGTGGTATTGTTTGCGTACTAAATA TAGGCTTAAGCTTTCAGAGTTTTTATAATTAGTATCATAGTTTCCCACATAAGAATTAGTATTT GACTGTTTTGAAGGAGTGAACTTGTAACATTTGATGAATATCTGTAATGGTTCTAATAAGAATA TGGTATTTGCATGTTATCACGTATGTAGCAAATCAAAAGAATCAAAAACCACAAGCTGTTGTAA AGCCTGAGGCGCAGAAAGAAGCTCTTCCCATCGAAGTTCCTCCCTTGTCTGTGGATGAGGTTAA AGAAAAGACTGACAATTTTGGATCTAAGTCTCTGATTGGTGAGGGTTCTTATGGAAGGGTATAT TATGCAACTCTAAATGATGGGAAAGCAGTTGCTTTGAAGAAACTCGATGTTGCACCTGAAGCTG AAACAAACACCGAGTTCCTGAATCAGGTTATAAATTTTGCTTCAATCCCCCTTCCCTTCATTTC CTTCTATCTTCAGAAAAGAAATTCTTTACAATCTCTTGCTTCCTTCTTCTTAGGTTTCCATGGT TTCAAGACTAAAACATGAGAATCTCATTCAACTGGTTGGTTATTGTGTTGATGAAAACCTCCGT GTTCTTGCTTATGAGTTTGCAACAATGGGATCACTGCACGACATTCTACATGGTATGAGGAGCT TCCACGCTCATTCTTGTTAGAAAACTTCCTTGCTTGGGAAAAATATAGAAAACAGAATCGATTT CTTGATGGAATGTGTTACTATTATAGGTAGGAAGGGAGTTCAAGGAGCACAGCCAGGTCCAACA CTTGACTGGTTAACGAGGGTGAAGATAGCTGTTGAGGCAGCTAGGGGTTTAGAATACCTTCATG AGAAGGTTCAGCCTCCTGTAATACATAGAGACATAAGATCTAGCAATGTTCTCCTTTTTGAAGA CTATCAAGCAAAAGTTGCAGATTTTAATCTCTCAAATCAAGCTCCTGATAATGCTGCTCGTCTT CACTCTACGAGAGTTTTAGGCACCTTTGGCTATCACGCTCCAGAGTAATCTTCCTTAAACCCTT AAAACTTTTGTTGCGTCCAAATGAAATTATGAGCAAGGCAGCTAAAATGTTTCTTTCCATTTGC AGATATGCTATGACAGGACAGTTAACGCAGAAGAGTGACGTGTATAGCTTTGGGGTTGTTCTTC TAGAGCTTTTGACAGGAAGGAAACCTGTAGATCATACAATGCCACGCGGCCAACAGAGTCTTGT AACTTGGGTATGTTTGTTATCTGCTCGCTGTCCAAATCTGTATCCTGCTCTGTTTCTATCTCAT GTCTTACAAATTGAAGTGTGCTGTCTATTATTCAGGCTACACCGAGACTCAGTGAAGATAAAGT GAAGCAATGTGTTGATCCAAAGTTAAAAGGAGAATATCCTCCTAAATCAGTAGCCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.263664262

Conservation Information
Conserved circRNAs	NA
PMCS	0.263664262

			
						 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 AT2G30740_circ_g.2

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