Plant Circular RNA Database

Detail information of 2_circ_ag.9

			
						 General Information
					
						CircRNA Name
						2_circ_ag.9
					
						ID in PlantcircBase
						ath_circ_014118
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 9017698-9021658  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							2_circ_igg.10 2_circ_igg.11 2_circ_igg.12 2_circ_igg.13 						
					
						Support reads
						7
					
						Tissues
						seed, 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  
						
							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
						NA

General Information
CircRNA Name	2_circ_ag.9
ID in PlantcircBase	ath_circ_014118
Alias	NA
Organism	Arabidpsis thaliana
Position	chr2: 9017698-9021658 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	CIRI, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	2_circ_igg.10 2_circ_igg.11 2_circ_igg.12 2_circ_igg.13
Support reads	7
Tissues	seed, 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	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	NA

			
						 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  
						
							TGAGGAGTTCTCCTTTATGCTCGAGGAGCCTCCAGTCCATGAGAAATTGCACGTGGAAGTGTTT
AGCACCTCTTCTAGGATAGGTCTATTGCATCCCAAGgaaacactggggtatgtggatattccag
tggtggacgtggtgaacaacaaaaggatgaatcagaagtttcaccttattgattctaagaacgg
aaagatcc

									
								

					

						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
						
							GAAACACTGGGGTATGTGGATATTCCAGTGGTGGACGTGGTGAACAACAAAAGGATGAATCAGA
AGTTTCACCTTATTGATTCTAAGAACGGAAAGATCCAAATCGAGCTCGAGTGGCGAACTGCCTC
TTGATTTCTGAGTTGATTCGAGAACAAACAAAGAGATAATTGGTTTGATGTTGTTAAAAACTAT
GTGTTGTTGTACAAAATGGGCTTTAACTCTTAAAAACCAACATTCAGATTTGCAGAGCCTTCTT
TTATTTGGATTTGTGTGTCTTCGACTTCTCTTTTCTATGAAATTCGGTAGTGTGAGTGACTCTC
AGTTTCCACATCTCATTTTTTTAGTGAGAAGATTTTCTCAAATTACTATTGAACAGTATAATCA
TATTTTTTATTTGGCAAACTAACAGTATCTATCATATATGATCGAAGATCAATGCATATTCGAA
ACCGAATTTCTTGCTTCCATTGTTCTGTTTTTGAAGAGAACAAATGGAAAACTTGTTCTTGCAT
TCTGAAGCTGAAATATTGCGACTTTTAAAATGCATATATGCCCTAATAAATCGCGAGACCTGCT
TCTTGACATAACAATTTTATAGTTTGTGGTCAGCTAGTACTTTGTTATGGTTAACAATTTGTAT
AAAACTAACTAATAAACTGAGTTGATATTTTCTTAAATCTACTTTTCTCTTGGTTCAAGTTTCA
CGATCAATTCAAAATAATAAAATAATAGTTTTTTTTTTTTTTGGTAAAAGTAATAAAATAATAG
TTGGTCACCTTATATGTTAATCTTTTTATACAACTTCAAATTGATTAAAACAAATACATGATCA
AGTTGAACAATTATAAGTTGTATGTTTTATATATATCTTCTCTTCAAGTTCAACCTTTATCATA
GCAGAAGACGACGAACCAGAAAAAAGAAGATCAAACCGAAGGCTTTCCCATGGAGGAAACAAAA
CCAAAGAGGTGAGTCAAGTAAAACAATTTCTAATCTTCTTTATGAACAATTCCGTATGTATGTG
TTCAAGTATATGTATATTAGGGTTTTATTGTCGATTTGTTTCTACAGAGTTATCATTTACCTTA
CTTTTTTTTTTGTCGTTAATTGTAGGACAAATGAAGAATTTGCCAAGAGTCATGTTGAGGAGGC
TTTGAACATTCCTGGTACGTTCAAAACAGATGAGGGTAATTTTAAATTTAGCAAGAGTTTCATT
TCAACATTCGATCACAAATAAAACTAACAAACAATTGTGAATGGTTTTGTAGGTAGGGTTATAA
ATCCTGATTTCCTTTCTCAAGTGGCATCGGTTTGCAAGAAAGATAAACATTTGATCGTGGTTAG
ACTCTAATATTTAATTAGTGATGACATATATTAAATCACATTAGATTAAGATTTTACACAGACC
GTTTCCTTATACTAAATATGTTACCGTGAAGGCTTGTAACGCTGGAGGAAGTCGTGCTTGCGTT
GAACTTCTCAATGAGGTGAGTCTATATATACACACACACTTACACAATTAATAAGTATACCTAT
TCAAAAATATAAGTATGTCATGTTAGGGACTATAAGTAAATAAATAATAATTTCTAGTCTAATA
TGTTAATATCTTTAAAGTAGGGTAGTTAGGGTTTCTCAATAAGACAATAGACATATTCTCTTTA
CCCTCTGACGTGGTATCAGAGCTAGGGTTTTAAGAAACGGAAACAAAATAAAGGGAGAGATAAG
AGATCATGTGGACGACGACGACGGTGGTAACAAAGATTTGACGATAACCGGGTAATAAAGCTGT
GGAAGGCGACGGTGGGACTGGCCTCACGATGGCAGAAAAAGCCATGGCTTCCCCACTTTATCTC
CATTCTTCTGATGGACCAGAGAATTTGATAACTAATGTTCAACTGAAGGGTGAAAACTATGAAG
ATTGGGCAAAGCATGTGCGGAACGCCTCACGAACTAAACAAAAATTGGGATTCATTGATGGAAC
CTTGGAGAAACCTACCAAGGAAGATGATATGGAACAGTAGGAGGTTGTGAATACAATGCTAGTT
GCATGGATAATGAATACATTCGAGCCCACAGTACGCACTTCGATATCAAGGGTGGAGGAAGCCC
AAGTGTTGTGGGATGACTTAAAGCTGACGTTCTCGCCTGGGAATGAACCGTGAATCAGTGAGCT
TCGAGCTGATATCGCAAATTGTAGACAGAATGGAGACACGGTGATGACATACTATGGTAGGCTA
AAGAAGATGTGGGATGAATTGGCGATTTATAAAATGATACGAACATGTAGCTGCGGAGAGTTGG
CTTCACAATTGGAAGAAGATCGCAACAAGAACGCACAAACACGTTCCTAAATGGCTTGGATGCA
TCCCGATTTGGTATGGTATGTTGTACGATCACAAGCATAGAGCCTCTTCCTAAGTTGTCACAAG
GTTATCATAGAATAGTTTGGGAATAGTGGCGACAAACGATGAGAGGAAACAAAGAAGTAACGCA
TGAGGCTGTAGGGTTTGTTGTGAACGCTGTGCTATGAAGATGATGATTGGTGCAGGTGAAGAGT
GTGGGGATGTGTATGTGTTTCGAGGGGTGATAGGTGCGCTGATTTGATGTATGATCAAATTAAT
CCTAAGACCACTCTCTCAAATAAGAGATCGATTGTATTACTTTAGGGTCGAATTCCACAAAGCT
CTCAGATCACACAATAAACTAAGTTTTCGAATTAAACTAAACCAATAGATTATCAATTAAAAGA
CAAGAAAGAAGAAAATATCAAGTTGTAAATCAGATAGATAAAAATTCAGACTTACGATATTCTC
AAAAAATAGATGATTAGTAGATCTAATAATGGGTAGGATGTTATCGAAAAGTTCTTAGTCTAGT
TTGATGAAGAGGATTTTTTTCAATCTTTTAAGGCTGAATGGCAAATGAAACTCTGACTTCTTGG
TTGACCAATATATATGTATTTGGACCAATATATATGAAAGTTGTTTTGTCTTTTTGTTTTTACA
TTTCTGCTGGATCAAATATTCATTTGTAGTTTCATTGTTGCGTTAATTGTTTCAGGAGCAAATC
AAGGATCAAGTTGTGAACATGTAAATGCCTTTATCTTTTGAATAGTTAATCCATGTCTTAAATT
CAATAATATAAAGCAAATCTTAATTTTTAATCTGTAGAGCATTAAGAAGGCATGTTGGAATCCT
CCATGTGAAAGTTGTGAAGGCTGTGGTTCAAAGGAAAAAAGTTCAGATGGGCATGATAAATCCA
TACGTGCAAATCGAGCTCTCTGAAGATAAAATTTCATCTAAGAAGACAACTGTTAAACACAAGA
ATTTGAACCCTGAATGGAATGAGGAATTCAAATTCTCGGTCAGAGATCCCAAGACTCAGGTTCT
AGAATTCAATGTGTATGGCTGGGAAAAGGTAAAAAGCTATCCAAAGGGGTGACAAGTGACATGG
AGTAGGATATATATGTATTTTTTTTTTTTTTGCAACGCAGATTGGGAAGCACGATAAGATGGGT
ATGAATGTATTAGCTTTGAAAGAATTGGCGCCTGATGAACGTAAAGCATTCACCTTGGAACTGC
GTAAGACTCTGGACGGTGGTGAAGAAGGGCAGCCTGGCAAGTATAGGGGGAAGCTGGAGGTTGA
ACTCTTGTATAAGCCATTCACGGAGGAAGAAATGCAAGCGGTTCAGAAAGCTCCAGAAGGCACA
CCGGTTGCTGGAGGAATGCTTGTGGTAATAGTGCATTCGGCTGAGGATGTTGAAGGAAAGCATC
ATACCAATCCTTATGTGCACATCTACTTCAAAGGGGAGGAGAGAAAAACAAAGAATGTGAAGAA
GAACAAAGACCCAAAGTGGAATGAGGAGTTCTCCTTTATGCTCGAGGAGCCTCCAGTCCATGAG
AAATTGCACGTGGAAGTGTTTAGCACCTCTTCTAGGATAGGTCTATTGCATCCCAAG
						
					

			
		

Sequences
Splice junction sequence	TGAGGAGTTCTCCTTTATGCTCGAGGAGCCTCCAGTCCATGAGAAATTGCACGTGGAAGTGTTT AGCACCTCTTCTAGGATAGGTCTATTGCATCCCAAGgaaacactggggtatgtggatattccag tggtggacgtggtgaacaacaaaaggatgaatcagaagtttcaccttattgattctaagaacgg aaagatcc
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	GAAACACTGGGGTATGTGGATATTCCAGTGGTGGACGTGGTGAACAACAAAAGGATGAATCAGA AGTTTCACCTTATTGATTCTAAGAACGGAAAGATCCAAATCGAGCTCGAGTGGCGAACTGCCTC TTGATTTCTGAGTTGATTCGAGAACAAACAAAGAGATAATTGGTTTGATGTTGTTAAAAACTAT GTGTTGTTGTACAAAATGGGCTTTAACTCTTAAAAACCAACATTCAGATTTGCAGAGCCTTCTT TTATTTGGATTTGTGTGTCTTCGACTTCTCTTTTCTATGAAATTCGGTAGTGTGAGTGACTCTC AGTTTCCACATCTCATTTTTTTAGTGAGAAGATTTTCTCAAATTACTATTGAACAGTATAATCA TATTTTTTATTTGGCAAACTAACAGTATCTATCATATATGATCGAAGATCAATGCATATTCGAA ACCGAATTTCTTGCTTCCATTGTTCTGTTTTTGAAGAGAACAAATGGAAAACTTGTTCTTGCAT TCTGAAGCTGAAATATTGCGACTTTTAAAATGCATATATGCCCTAATAAATCGCGAGACCTGCT TCTTGACATAACAATTTTATAGTTTGTGGTCAGCTAGTACTTTGTTATGGTTAACAATTTGTAT AAAACTAACTAATAAACTGAGTTGATATTTTCTTAAATCTACTTTTCTCTTGGTTCAAGTTTCA CGATCAATTCAAAATAATAAAATAATAGTTTTTTTTTTTTTTGGTAAAAGTAATAAAATAATAG TTGGTCACCTTATATGTTAATCTTTTTATACAACTTCAAATTGATTAAAACAAATACATGATCA AGTTGAACAATTATAAGTTGTATGTTTTATATATATCTTCTCTTCAAGTTCAACCTTTATCATA GCAGAAGACGACGAACCAGAAAAAAGAAGATCAAACCGAAGGCTTTCCCATGGAGGAAACAAAA CCAAAGAGGTGAGTCAAGTAAAACAATTTCTAATCTTCTTTATGAACAATTCCGTATGTATGTG TTCAAGTATATGTATATTAGGGTTTTATTGTCGATTTGTTTCTACAGAGTTATCATTTACCTTA CTTTTTTTTTTGTCGTTAATTGTAGGACAAATGAAGAATTTGCCAAGAGTCATGTTGAGGAGGC TTTGAACATTCCTGGTACGTTCAAAACAGATGAGGGTAATTTTAAATTTAGCAAGAGTTTCATT TCAACATTCGATCACAAATAAAACTAACAAACAATTGTGAATGGTTTTGTAGGTAGGGTTATAA ATCCTGATTTCCTTTCTCAAGTGGCATCGGTTTGCAAGAAAGATAAACATTTGATCGTGGTTAG ACTCTAATATTTAATTAGTGATGACATATATTAAATCACATTAGATTAAGATTTTACACAGACC GTTTCCTTATACTAAATATGTTACCGTGAAGGCTTGTAACGCTGGAGGAAGTCGTGCTTGCGTT GAACTTCTCAATGAGGTGAGTCTATATATACACACACACTTACACAATTAATAAGTATACCTAT TCAAAAATATAAGTATGTCATGTTAGGGACTATAAGTAAATAAATAATAATTTCTAGTCTAATA TGTTAATATCTTTAAAGTAGGGTAGTTAGGGTTTCTCAATAAGACAATAGACATATTCTCTTTA CCCTCTGACGTGGTATCAGAGCTAGGGTTTTAAGAAACGGAAACAAAATAAAGGGAGAGATAAG AGATCATGTGGACGACGACGACGGTGGTAACAAAGATTTGACGATAACCGGGTAATAAAGCTGT GGAAGGCGACGGTGGGACTGGCCTCACGATGGCAGAAAAAGCCATGGCTTCCCCACTTTATCTC CATTCTTCTGATGGACCAGAGAATTTGATAACTAATGTTCAACTGAAGGGTGAAAACTATGAAG ATTGGGCAAAGCATGTGCGGAACGCCTCACGAACTAAACAAAAATTGGGATTCATTGATGGAAC CTTGGAGAAACCTACCAAGGAAGATGATATGGAACAGTAGGAGGTTGTGAATACAATGCTAGTT GCATGGATAATGAATACATTCGAGCCCACAGTACGCACTTCGATATCAAGGGTGGAGGAAGCCC AAGTGTTGTGGGATGACTTAAAGCTGACGTTCTCGCCTGGGAATGAACCGTGAATCAGTGAGCT TCGAGCTGATATCGCAAATTGTAGACAGAATGGAGACACGGTGATGACATACTATGGTAGGCTA AAGAAGATGTGGGATGAATTGGCGATTTATAAAATGATACGAACATGTAGCTGCGGAGAGTTGG CTTCACAATTGGAAGAAGATCGCAACAAGAACGCACAAACACGTTCCTAAATGGCTTGGATGCA TCCCGATTTGGTATGGTATGTTGTACGATCACAAGCATAGAGCCTCTTCCTAAGTTGTCACAAG GTTATCATAGAATAGTTTGGGAATAGTGGCGACAAACGATGAGAGGAAACAAAGAAGTAACGCA TGAGGCTGTAGGGTTTGTTGTGAACGCTGTGCTATGAAGATGATGATTGGTGCAGGTGAAGAGT GTGGGGATGTGTATGTGTTTCGAGGGGTGATAGGTGCGCTGATTTGATGTATGATCAAATTAAT CCTAAGACCACTCTCTCAAATAAGAGATCGATTGTATTACTTTAGGGTCGAATTCCACAAAGCT CTCAGATCACACAATAAACTAAGTTTTCGAATTAAACTAAACCAATAGATTATCAATTAAAAGA CAAGAAAGAAGAAAATATCAAGTTGTAAATCAGATAGATAAAAATTCAGACTTACGATATTCTC AAAAAATAGATGATTAGTAGATCTAATAATGGGTAGGATGTTATCGAAAAGTTCTTAGTCTAGT TTGATGAAGAGGATTTTTTTCAATCTTTTAAGGCTGAATGGCAAATGAAACTCTGACTTCTTGG TTGACCAATATATATGTATTTGGACCAATATATATGAAAGTTGTTTTGTCTTTTTGTTTTTACA TTTCTGCTGGATCAAATATTCATTTGTAGTTTCATTGTTGCGTTAATTGTTTCAGGAGCAAATC AAGGATCAAGTTGTGAACATGTAAATGCCTTTATCTTTTGAATAGTTAATCCATGTCTTAAATT CAATAATATAAAGCAAATCTTAATTTTTAATCTGTAGAGCATTAAGAAGGCATGTTGGAATCCT CCATGTGAAAGTTGTGAAGGCTGTGGTTCAAAGGAAAAAAGTTCAGATGGGCATGATAAATCCA TACGTGCAAATCGAGCTCTCTGAAGATAAAATTTCATCTAAGAAGACAACTGTTAAACACAAGA ATTTGAACCCTGAATGGAATGAGGAATTCAAATTCTCGGTCAGAGATCCCAAGACTCAGGTTCT AGAATTCAATGTGTATGGCTGGGAAAAGGTAAAAAGCTATCCAAAGGGGTGACAAGTGACATGG AGTAGGATATATATGTATTTTTTTTTTTTTTGCAACGCAGATTGGGAAGCACGATAAGATGGGT ATGAATGTATTAGCTTTGAAAGAATTGGCGCCTGATGAACGTAAAGCATTCACCTTGGAACTGC GTAAGACTCTGGACGGTGGTGAAGAAGGGCAGCCTGGCAAGTATAGGGGGAAGCTGGAGGTTGA ACTCTTGTATAAGCCATTCACGGAGGAAGAAATGCAAGCGGTTCAGAAAGCTCCAGAAGGCACA CCGGTTGCTGGAGGAATGCTTGTGGTAATAGTGCATTCGGCTGAGGATGTTGAAGGAAAGCATC ATACCAATCCTTATGTGCACATCTACTTCAAAGGGGAGGAGAGAAAAACAAAGAATGTGAAGAA GAACAAAGACCCAAAGTGGAATGAGGAGTTCTCCTTTATGCTCGAGGAGCCTCCAGTCCATGAG AAATTGCACGTGGAAGTGTTTAGCACCTCTTCTAGGATAGGTCTATTGCATCCCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.692739215

Conservation Information
Conserved circRNAs	NA
PMCS	0.692739215

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

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of 2_circ_ag.9

Address

Any questions?

Supported by