Plant Circular RNA Database

Detail information of PGSC0003DMG400013291_circ_ag.4

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400013291_circ_ag.4
					
						ID in PlantcircBase
						stu_circ_001501
					
						Alias
						chr11:365659|369713
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr11: 365660-369713  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							PGSC0003DMG400013291_circ_ag.1 PGSC0003DMG400013291_circ_ag.2 PGSC0003DMG400013291_circ_ag.3 PGSC0003DMG400013291_circ_ag.5 						
					
						Support reads
						NA
					
						Tissues
						stem
					
						Exon boundary  
						
							No-No							"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-CC							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	PGSC0003DMG400013291_circ_ag.4
ID in PlantcircBase	stu_circ_001501
Alias	chr11:365659\|369713
Organism	Solanum tuberosum
Position	chr11: 365660-369713 JBrowse»
Reference genome	3.0.38
Type	ag-circRNA
Identification method	CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	PGSC0003DMG400013291_circ_ag.1 PGSC0003DMG400013291_circ_ag.2 PGSC0003DMG400013291_circ_ag.3 PGSC0003DMG400013291_circ_ag.5
Support reads	NA
Tissues	stem
Exon boundary	No-No "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-CC 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  
						
							ATTTTCGTTCATTCTTAATTTTTCGTGTCATCTTTCTTTGGAGCGATTACTGGTTTCTCAATTG
CTAAGTATTGATTGAAGAGACTCAAAAAAAAATTATcggtgtaatcccacatgtgggtctaggg
aggagggtggtgtgtacgcagccttgcccctaccctgtgaaggtagataggttgtttccgatag
atcctcgt

									
								

					

						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
						
							CGGTGTAATCCCACATGTGGGTCTAGGGAGGAGGGTGGTGTGTACGCAGCCTTGCCCCTACCCT
GTGAAGGTAGATAGGTTGTTTCCGATAGATCCTCGTCTCAAGTAAAGCATAACCAAATCAAATA
CATCAGCAGAGAAGTCATGCTCAAAATAATGAAGAAGAGAACAATAGCAACAACAAATAATACG
AAAACCAAAGCAAAGAAAACATAGGTAATACTGAAGTCGAAGAATACGGTAGTATGAGAGTACT
AATAACAACAAGGATAAGTAACTAGCCAACGCTCAACTACCTACTAATGTTCCACCCTAATCTC
CATCCCCATCCTCCATATCTTCCTATCTAGTCTCATATCATCGGTAAGCTGCAATCTGCATGTG
TGCTAGTAATTTGATGAAATCATGAAATTTTCAAGATTTATCTTTTCTAAACTCTTAATTGAAA
TTGTTTGATATTTGAATACCTTAAAAAAAAATTGTATGATCACATTTTCTTTTTTATCTAGCCC
ATGGCAACTCAGGAAATACTTATGAACATCCTCAATAGGTTACCTGAACGCTCTCTTTTTTTAT
TCACATACAACAACATACCCAATGTAATCCCACAAAGTGAGAAATGAGGAGGATAAAGTGTACG
CAAACCTTAACCCTACCTGGTGTTAAGGAATATTGGAATGCATTTTCTTTATTATACATGATCC
CGGGCTTTTTCACGCCATACAAACTATAGGTTTGAGGATGGTGAACTCCTAATTCAATTCATAC
ATTTTAATATTTTACAACATCAAAGGACCATTTGGATTTTGGCCATACAGTTCAGACTGTTTTC
ATTCAAAAACAACTCAACAGTAAGTAAGAAATCACAACTCACCGGATCAATATCCATCATTATT
TGATGCCTCCCCCAACTTGAAAAGCTTTGCCTCTTCTTCTATTGAGCTTCAATTTGAATTCTAG
GGTTTTTTTATATAGCAGAAGGATTGCGCGGTTTGGGAAATTGGGAATGATAGATGGGCCGGTT
CGGGTTCTCCTCTCTAAATTCAAGTTTTTGCACCGGTCGGATTCTCCCTATTTTCGGGTCTCTT
CCAAATTATATGGTTCAAATCTTAATGAGTCGTGATTTAAAGTTATTGAATTTTAAATCAGCAA
CATATACATAGTCGATGAATTCTCAAGAATATAAAATTTTCCACTAAAGCAATTGAGTTCAATG
AACTAGTAGGCGACATTCTAACTTTACCCTCGACTCTAATTCTTTTCGTATATTTGATATGTAA
TTTCTTATTTCTTTTTTGCAGTGGCATATAATTTACTTTTAACATTATATTTAGTATAATTAAA
TATTTGCTTATGTATGATTGAACCACTTTCTGTTGTTTTTTTGGTTACCATGTTACAACCTCTA
GTTCGGGTCGGGTCATTTTTAGTATACCATATGCAAAGTGAATTACCCAACAGTGATTGCAAGT
AATCACATACGAGATACGACCTATACACAATCATAACATGCTTTTCTAGGCCGCTAAGTCAGGA
ATAGAGTGTTAACGGTAGACATTACATCATGTTCAATGGAATAACGCTAATAGTCAAATAATAG
CAATATACATGCCATAAGAAGCATAATCCATTAAGATCTGCCAAAAAGAGGAATTAAAGCCTTA
ACATATATCTTTCAAACAAAAGCATCAATAAGGTGTTAAGGTCTTCATTACGACCAACCTACTT
TAACTCATCAAAATCTCAACAATAACAACAAGAAGAAGAAGCTATCAATATCTCACAAGAGCGG
TAAGCTCCTGAAGTAATATAACAAGACGTACATTCAAATTATCTCTTGTGAGAATTTCAGTTAC
TGTGCTGGGGAATATTGGAAAAACAAATGTCATTCCTGATGATAACAGAAGCAATGCACTCTTG
TCAATTTCTCACATTCAACAAGCTGAGGAAACCTCTGTTCCTTACACAATGCGTATAGATTCTT
TCTGTAGACACCTAAGAGTTAACAAAAGATATACATGTTTCATTTCTCCAAAACATCTCTGGTT
TCTTTCAAGCCAACTACTCCACATGATGGATAGACGAACACTTCTTTCTCCAAGATATCTGCTG
GTATTAATTTCATGTCCCCCAGACCTGCCAGCTAAAGATGACATTGTACTCCAATACTGGTGAT
AAACTAAGAAGAATACGAGAGTTGTAACATAACAAGAAAAGAAGAAAAAGAGTGTCTCAATCAT
ACATAAGAAACTAATATGTAAGTGATCTTGGAGAAATCAAGCTTTCTGTAAAAGCATGTGCATC
TAATATGATATCACATTGAGGCCATGCTCCAAATGGTCCACTACGTGTCCTTAATCAACCCCCA
ACACCGCACCTGAATAGCACTTCACCATCCGCAAACCTATATTTCGGTATAGCAATAACAATAT
AAGGATCTTCGATAGATAGCAATGGAATCCAAGATTCCTTGATACCATACTCTTTCAATACCCA
TAACTTAATAGTATGCTTACTCTGATCATAAAGAGAATTAGAATGAACACAAAGCATTCCATCC
AACACTGTAATGCCAAAAACATCCCTCGAGACTGAAATTTCCTCCTGTAAGGGAATCTCTCCGT
ACACTTCATTTGAAATACTAAACGAAACCACCACAGCATAATTTCGTGAAATACCAATCCAATG
AAATGCCGCATGTACAAATGTCAAAAACTGCACAGCAAACATCAGAGAGTAAATGCCATGAGGA
TGCTTATCACTTCTTCTCCAAGAGCCACCTTTCAGTGCAAGAATTTCACAAGGTAAATCGAAAC
CCTGATAAATCTGAACAATCCTATACTCACCACTGGTTGAGTCATAACCCAAACCAAAACAAGG
ACTTTTGTCCAGTGGAAATTCTGGAGAAGGAAGTACAATTGATTCTCTTGTGGAGGGGTTCCAC
AGAAAAAATGTGGAGTGTTCATTCAAATTATCAGGAACCTCCATAACAGCCAAGCCATCATAAC
AACAATGGATTGTGCATTGCAATGGTGTAGGGTTTGAAGGGAAATCGAGTTTTTGTACATCCTC
AACCAGCTGAACCGGCGACAAAGGACAACAATACATGGAACATATACCATTCTTACGGCACCTT
AGGCTAGTAAGAAGTTTTTGAGAATCTTGATCATTCTTGGCACGACTGAGATGCTTCATCTTAA
AGTATGGCTCGGAGATCAACGTTTCCCAAAATTTTGACACACATTTGAATCGAAGTAGAGACTG
CACAGGTAACCTGCTAAGGATGTCCATAAGTATTACCTCTGGGAAGTGAACTGCCATGGCCTAG
ATAGGACAAGAAAGAGCGATCAGACAATTTTTTTTCAAGTATTCATATATTAGACATTTCAACC
AAGAGTTCAGAAAAGATAAACCTGAATTTGTTTTATTTCTTCTATCTACTATTTAGTAACAAAT
ATAGAATTGAATATTTCAAGTGGAGAATACTGAAATTACTCGGCTCTTGGCAGTGGCACCAAGT
ACACATGCCAAGCATCTAAGTCCCAACCAACAACAATTAAAAATACTCAATTGTAAGTAACACA
ACTCAGAAATCAGAACTTACATCAACATCCATCTGGTCTGTGTTATCATTTGATGGCTCCACAA
CGCTCTTCCCTGATTTAATTAAAAAATTAAGTCTGGTTATAAAGAAAAACACACACACACACAC
AGAGAGAGAGAGAAGACTTAGGATGTAGCTGGTGAAATAGTCGAGGTGCATAAACACACACACA
CACACAACAGCAGCTGCACAAAACAAACAGATACCTTTGGAGATCTGATTAAACTTTTGGATTG
CATCAATTCCATTGCTAATAAGAATTTGATTGAAAAGATCAACCTCTAACTTTGGAGTTGCAAT
GGACTTCTTCTTCTGTTTTTGTATCTCTGGAGCATAACTACTATCTGCTAATTTTCGTTCATTC
TTAATTTTTCGTGTCATCTTTCTTTGGAGCGATTACTGGTTTCTCAATTGCTAAGTATTGATTG
AAGAGACTCAAAAAAAAATTAT
						
					

			
		

Sequences
Splice junction sequence	ATTTTCGTTCATTCTTAATTTTTCGTGTCATCTTTCTTTGGAGCGATTACTGGTTTCTCAATTG CTAAGTATTGATTGAAGAGACTCAAAAAAAAATTATcggtgtaatcccacatgtgggtctaggg aggagggtggtgtgtacgcagccttgcccctaccctgtgaaggtagataggttgtttccgatag atcctcgt
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	CGGTGTAATCCCACATGTGGGTCTAGGGAGGAGGGTGGTGTGTACGCAGCCTTGCCCCTACCCT GTGAAGGTAGATAGGTTGTTTCCGATAGATCCTCGTCTCAAGTAAAGCATAACCAAATCAAATA CATCAGCAGAGAAGTCATGCTCAAAATAATGAAGAAGAGAACAATAGCAACAACAAATAATACG AAAACCAAAGCAAAGAAAACATAGGTAATACTGAAGTCGAAGAATACGGTAGTATGAGAGTACT AATAACAACAAGGATAAGTAACTAGCCAACGCTCAACTACCTACTAATGTTCCACCCTAATCTC CATCCCCATCCTCCATATCTTCCTATCTAGTCTCATATCATCGGTAAGCTGCAATCTGCATGTG TGCTAGTAATTTGATGAAATCATGAAATTTTCAAGATTTATCTTTTCTAAACTCTTAATTGAAA TTGTTTGATATTTGAATACCTTAAAAAAAAATTGTATGATCACATTTTCTTTTTTATCTAGCCC ATGGCAACTCAGGAAATACTTATGAACATCCTCAATAGGTTACCTGAACGCTCTCTTTTTTTAT TCACATACAACAACATACCCAATGTAATCCCACAAAGTGAGAAATGAGGAGGATAAAGTGTACG CAAACCTTAACCCTACCTGGTGTTAAGGAATATTGGAATGCATTTTCTTTATTATACATGATCC CGGGCTTTTTCACGCCATACAAACTATAGGTTTGAGGATGGTGAACTCCTAATTCAATTCATAC ATTTTAATATTTTACAACATCAAAGGACCATTTGGATTTTGGCCATACAGTTCAGACTGTTTTC ATTCAAAAACAACTCAACAGTAAGTAAGAAATCACAACTCACCGGATCAATATCCATCATTATT TGATGCCTCCCCCAACTTGAAAAGCTTTGCCTCTTCTTCTATTGAGCTTCAATTTGAATTCTAG GGTTTTTTTATATAGCAGAAGGATTGCGCGGTTTGGGAAATTGGGAATGATAGATGGGCCGGTT CGGGTTCTCCTCTCTAAATTCAAGTTTTTGCACCGGTCGGATTCTCCCTATTTTCGGGTCTCTT CCAAATTATATGGTTCAAATCTTAATGAGTCGTGATTTAAAGTTATTGAATTTTAAATCAGCAA CATATACATAGTCGATGAATTCTCAAGAATATAAAATTTTCCACTAAAGCAATTGAGTTCAATG AACTAGTAGGCGACATTCTAACTTTACCCTCGACTCTAATTCTTTTCGTATATTTGATATGTAA TTTCTTATTTCTTTTTTGCAGTGGCATATAATTTACTTTTAACATTATATTTAGTATAATTAAA TATTTGCTTATGTATGATTGAACCACTTTCTGTTGTTTTTTTGGTTACCATGTTACAACCTCTA GTTCGGGTCGGGTCATTTTTAGTATACCATATGCAAAGTGAATTACCCAACAGTGATTGCAAGT AATCACATACGAGATACGACCTATACACAATCATAACATGCTTTTCTAGGCCGCTAAGTCAGGA ATAGAGTGTTAACGGTAGACATTACATCATGTTCAATGGAATAACGCTAATAGTCAAATAATAG CAATATACATGCCATAAGAAGCATAATCCATTAAGATCTGCCAAAAAGAGGAATTAAAGCCTTA ACATATATCTTTCAAACAAAAGCATCAATAAGGTGTTAAGGTCTTCATTACGACCAACCTACTT TAACTCATCAAAATCTCAACAATAACAACAAGAAGAAGAAGCTATCAATATCTCACAAGAGCGG TAAGCTCCTGAAGTAATATAACAAGACGTACATTCAAATTATCTCTTGTGAGAATTTCAGTTAC TGTGCTGGGGAATATTGGAAAAACAAATGTCATTCCTGATGATAACAGAAGCAATGCACTCTTG TCAATTTCTCACATTCAACAAGCTGAGGAAACCTCTGTTCCTTACACAATGCGTATAGATTCTT TCTGTAGACACCTAAGAGTTAACAAAAGATATACATGTTTCATTTCTCCAAAACATCTCTGGTT TCTTTCAAGCCAACTACTCCACATGATGGATAGACGAACACTTCTTTCTCCAAGATATCTGCTG GTATTAATTTCATGTCCCCCAGACCTGCCAGCTAAAGATGACATTGTACTCCAATACTGGTGAT AAACTAAGAAGAATACGAGAGTTGTAACATAACAAGAAAAGAAGAAAAAGAGTGTCTCAATCAT ACATAAGAAACTAATATGTAAGTGATCTTGGAGAAATCAAGCTTTCTGTAAAAGCATGTGCATC TAATATGATATCACATTGAGGCCATGCTCCAAATGGTCCACTACGTGTCCTTAATCAACCCCCA ACACCGCACCTGAATAGCACTTCACCATCCGCAAACCTATATTTCGGTATAGCAATAACAATAT AAGGATCTTCGATAGATAGCAATGGAATCCAAGATTCCTTGATACCATACTCTTTCAATACCCA TAACTTAATAGTATGCTTACTCTGATCATAAAGAGAATTAGAATGAACACAAAGCATTCCATCC AACACTGTAATGCCAAAAACATCCCTCGAGACTGAAATTTCCTCCTGTAAGGGAATCTCTCCGT ACACTTCATTTGAAATACTAAACGAAACCACCACAGCATAATTTCGTGAAATACCAATCCAATG AAATGCCGCATGTACAAATGTCAAAAACTGCACAGCAAACATCAGAGAGTAAATGCCATGAGGA TGCTTATCACTTCTTCTCCAAGAGCCACCTTTCAGTGCAAGAATTTCACAAGGTAAATCGAAAC CCTGATAAATCTGAACAATCCTATACTCACCACTGGTTGAGTCATAACCCAAACCAAAACAAGG ACTTTTGTCCAGTGGAAATTCTGGAGAAGGAAGTACAATTGATTCTCTTGTGGAGGGGTTCCAC AGAAAAAATGTGGAGTGTTCATTCAAATTATCAGGAACCTCCATAACAGCCAAGCCATCATAAC AACAATGGATTGTGCATTGCAATGGTGTAGGGTTTGAAGGGAAATCGAGTTTTTGTACATCCTC AACCAGCTGAACCGGCGACAAAGGACAACAATACATGGAACATATACCATTCTTACGGCACCTT AGGCTAGTAAGAAGTTTTTGAGAATCTTGATCATTCTTGGCACGACTGAGATGCTTCATCTTAA AGTATGGCTCGGAGATCAACGTTTCCCAAAATTTTGACACACATTTGAATCGAAGTAGAGACTG CACAGGTAACCTGCTAAGGATGTCCATAAGTATTACCTCTGGGAAGTGAACTGCCATGGCCTAG ATAGGACAAGAAAGAGCGATCAGACAATTTTTTTTCAAGTATTCATATATTAGACATTTCAACC AAGAGTTCAGAAAAGATAAACCTGAATTTGTTTTATTTCTTCTATCTACTATTTAGTAACAAAT ATAGAATTGAATATTTCAAGTGGAGAATACTGAAATTACTCGGCTCTTGGCAGTGGCACCAAGT ACACATGCCAAGCATCTAAGTCCCAACCAACAACAATTAAAAATACTCAATTGTAAGTAACACA ACTCAGAAATCAGAACTTACATCAACATCCATCTGGTCTGTGTTATCATTTGATGGCTCCACAA CGCTCTTCCCTGATTTAATTAAAAAATTAAGTCTGGTTATAAAGAAAAACACACACACACACAC AGAGAGAGAGAGAAGACTTAGGATGTAGCTGGTGAAATAGTCGAGGTGCATAAACACACACACA CACACAACAGCAGCTGCACAAAACAAACAGATACCTTTGGAGATCTGATTAAACTTTTGGATTG CATCAATTCCATTGCTAATAAGAATTTGATTGAAAAGATCAACCTCTAACTTTGGAGTTGCAAT GGACTTCTTCTTCTGTTTTTGTATCTCTGGAGCATAACTACTATCTGCTAATTTTCGTTCATTC TTAATTTTTCGTGTCATCTTTCTTTGGAGCGATTACTGGTTTCTCAATTGCTAAGTATTGATTG AAGAGACTCAAAAAAAAATTAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.126302773

Conservation Information
Conserved circRNAs	NA
PMCS	0.126302773

			
						 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
						Zhou et al., 2018

circRNA

Detail information of PGSC0003DMG400013291_circ_ag.4

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