Plant Circular RNA Database

Detail information of PGSC0003DMG400007074_circ_g.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400007074_circ_g.1
					
						ID in PlantcircBase
						stu_circ_000968
					
						Alias
						chr07:52590014|52594157
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr7: 52590015-52594157  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							PGSC0003DMG400007074						
					
						Parent gene annotation
						
							CYP72A58
							
						Parent gene strand
						+
					
						Alternative splicing
						
							PGSC0003DMG400007074_circ_igg.1 PGSC0003DMG400007074_circ_ag.1 PGSC0003DMG400007074_circ_igg.2 PGSC0003DMG400007074_circ_ag.2 PGSC0003DMG400007074_circ_ag.3 						
					
						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  
						
							GT-GG							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
						PGSC0003DMT400018220:1
PGSC0003DMT400018223:1
PGSC0003DMT400018224:2
PGSC0003DMT400018225:1
PGSC0003DMT400018222:4
PGSC0003DMT400018219:2

General Information
CircRNA Name	PGSC0003DMG400007074_circ_g.1
ID in PlantcircBase	stu_circ_000968
Alias	chr07:52590014\|52594157
Organism	Solanum tuberosum
Position	chr7: 52590015-52594157 JBrowse»
Reference genome	3.0.38
Type	ui-circRNA
Identification method	CIRI2
Parent gene	PGSC0003DMG400007074
Parent gene annotation	CYP72A58
Parent gene strand	+
Alternative splicing	PGSC0003DMG400007074_circ_igg.1 PGSC0003DMG400007074_circ_ag.1 PGSC0003DMG400007074_circ_igg.2 PGSC0003DMG400007074_circ_ag.2 PGSC0003DMG400007074_circ_ag.3
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	GT-GG 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	PGSC0003DMT400018220:1 PGSC0003DMT400018223:1 PGSC0003DMT400018224:2 PGSC0003DMT400018225:1 PGSC0003DMT400018222:4 PGSC0003DMT400018219:2

			
						 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  
						
							CTAATACAAATAAGCAGTTTAGCTAGAAGCTCCTTGGTGTATGCAGTTTGTTTCAACTTTTTTT
CGAATTCGATGAAATTGTAATGAGCCTGTTCTCCTGcaaaaaaagttttatatggatgggtcca
agaccacaaatactaatcatggatcctgagcttataaaggaagtactctcgaaaaactatgtgt
atcaaaag

									
								

					

						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
						
							CAAAAAAAGTTTTATATGGATGGGTCCAAGACCACAAATACTAATCATGGATCCTGAGCTTATA
AAGGAAGTACTCTCGAAAAACTATGTGTATCAAAAGCCTCATGGAAATCCATTAGGCACCTTAT
TTGTACAAGGATTAGTAAGCTATGAGAAAGACAAATGGGCTAAACATAGAAAAATCATCAATCC
CGCGTTCCATCTAGAGAAGTTAAAGGTTTGTCATTCAACTTCGTGATTGGTCAACCAGAAACTA
TTATGTTGGGTAATTCTTACTCTATGTGTGCTCTTGCTTCTATCCCCTTTGATTTGCCTTCCTT
ATCGTTCAATCTAAACTTTTATGTCATATGACTATTTTGAGTAATATGATATCTGCTGCCTGAC
TTGATGTAGACAATAGTGGTTCTATAGGGACGAATCTCGCTTGGATCATGATTCAATGTTCTAG
ATTGTTCTTCCACCAATCCATATATAATATGTTCGCTCTTGCTTCTTTATTGTTTTAAATTTGG
TCTTGTATGTTCCACATATGACTATATTGAGTGATTTCTGCTACCTAGCTTAAGTTAGACAATC
AGAGAATGATTTTATGATTCAAAGAAGTCGAATCTTGTTTGGATCATCATTTGTCAGGACTCTC
TTTGCGTAAGTTCCTTGGCTTGGACAGAGTACTTATTTAGTCCATGTTGTTCCTAATTATGTTC
AAGTGTTAGTGTTATTGACATTTTCCCTGGTTCACCATTTTCTCAAACAGCATATGCTTCCAGC
TTTTTACTTGAGCTGTAGTGAGATGCTGAGCAAATGGGAAGACGTTGTTCAAGTTGAAGGCTCT
CATGAGATAGATGTATGGCCTCACCTGCAGCAATTGACTTGTGATGTGATCTCTCGGACAGCTT
TTGGCAGTAGTTATGAAGAAGGTAGAAAGATTTTTGAACTTCAACAGGAACAGGCTCAGCATTT
TCTCGAAGTTATACGCTCAGTTTATATCCCAGGATGGAGGTAACTTAATTCTCCTAAGAGTTTG
GAAAATGTAGCTATTGGAAATGCAAATTGATTAGTTCTATTTTTTTGTGAATGCATTTTGGTTT
TGTGTTTCATAAAACAATTTCAAAGATTTTTGCCAACAAAGAGGAACAGAAGAATGAAGGAAAT
AAAAAAGGATGTTCGGTCCTCAATTAGAGGTATTATCGATAAAAGATTGAAGGCAATGGAAGCT
GGGAACGCGGATAATGAGGATCTATTGGGCATATTGCTGGAATCGAATTTTAAAGAAATTGAAC
TGCACGGAAATAAGGACTTTGGAATGAGCATTGAAGAAGTCATTGAAGAATGCAAGCTATTCTA
TTTTGCTGGCGCAGAAACTACATCAGTGTGGATTCTGTGGACTCTGGTGTTGTTGAGCAGATAT
CCAGATTGGCAGGCACGGGCCAGAGAAGAAGTCTTGCAAGTGTTTGGGAGTCGGAAACCAGATT
TTGATGGCTTAAATCATCTAAAAGTTGTAAGTATTCTTGTTGTTTGGTTCAATTTCTATGCCAT
GGGTACTCTCGTTGTTATTTCTACAAGCACGTGTGAATTTCTTTTGATTATCTCGTTCATGGTT
GCTTAACTGATAGAGGAGCATTTCTGTTACAGGTGTGAATTTCTTTTGATTATCTCGTTCATGC
TTGCTTAACTGATAGAGGAGCATTTCTGTTACAGGTAACGATGATCTTGTACGAGTCGTTAAGG
CTATATTCCCCAATAACAGTACTTGCCCGACGAATTTATGAAGACATTACGCTAGGAGAAGTAT
CTCTACCAACTGGTGTGCTAGTCTCATTGCCAATTATCTTATTGCATCATGATAAAGATATATG
GGGTGAAGATGCAAACAAGTTCAATCCAGAGAGATTTAGAGAAGGAATATCAAGTGCAACAAAG
GGTCAAGTTACATATTTTCCATTTGCTTGGGGTCCAAGAATATGCATTGGACAAAATTTTGCCA
TGTTAGAGGCAAAGATGACTGTGTGTATGATCCTACAAAGCTTCTTTTTTGAATTGTCTCCATC
CTACACACATGCTCCTCAGTCCTTGGTAACCACTCAGCCTCAGTATGGTGCTCCACTTATTTTC
CACAAACTATAATTTCATATTCTGTGAAGAGTTCATTCAGACTCGATTCATGGGTGGAGTTACA
ATATTAAATATGGGTTCAGAAACAGTTTCTCTATTTCATAAAGATAGGGGATTATGTGGTGTAC
TCTCCACTCTCCCCTGACCCTCACATTGGGTATGTTGTTTTTGTTGTTCAGACAAACTCAGTAG
TTTTGGTTTAAATCTTGCATTTGTTTCGGGAAATCCATTAAAAATACTATACATGGGAATCCGT
GCTAGCACGAGCCTAATATATGTTGCTCTCTTAATATCAAATTATGTGATATAGTTGAAATTTG
GAGAAGTACCCCTATTTTTTATATGGTTGTTAAATATTTTAAGCTGTCTACATTATTATGTTTC
AATAATTTTTAAAATATTCACCGAACTATTTTTTCAATTACTAATTCTTTGTGAAAATAATAAG
AAAATACTCTCTTCCAAGACACTAATCATTTTTGACTTTGTCGATTTCTTTTGCCTTTTCATAA
AATAAAATAGATACATATTTTCCATACGTAGTAGATTCAAATCGAAAAATCAAATCTAAATAAT
TTTGATTCTCACATTAATAAACTGAAAATCAAATTGAATAAATAGAACTCGATGTCAGCCGCTA
AAATTAATAAGATGAGGAAAAAAAGTGAATGATTTTGATTTACATGCGATGATTTTTTCAGTGG
CAGGCTAAGTGTACGACTATTGTACATTGCTGGGATGTGTGGAGGGTGGGGATTCAATCTATGT
TTTTTAGGATTATAATTACAAAAAAGTCCTCAGATATTTGCCTTTGCTCATCAATGTCTTAATT
TCCCACAAACATGGTAGATATAAATATATAGTAGTAATTTATATGCACACATAAATTTAATTCA
AACAAAATGGACAAAATTCAAATATTAGTAACAATATGTTGTTGTGTCATAGCAGTTGCTCTGT
TTGTGTGTCTATGGAAAGTACTAAATTGGGTTTGGTTCAGACCAAAGAAGTTGGAGAAATTGTT
GAGGAAACAAGGGCTAAAAGGGAATTCATACAGAATATTGTATGGTGATATGAAAGATTTTTCT
GGGATGATTAAAGAAGCAAATTCAAAGCCTATGAATATTTCTAATGATGATTTATCCCCAAGAT
TGGTGCCTTTCTTTCTTGAAATCATCAAGAAATATGGTAAGTTTTCGAACTCTGATAACGGGTA
AAGTTGTTGGCATGTGATTAGGAAGTTGTAGATTCTAGCTGTGGAAACAGTCTCTTGCAGAAAT
GTAGGAGCTTAGTGCAAACCCATAGCTAATATTGTAGCTCCGCAATCATCAAGTAACTTAGATA
AGGAGTTTAATTATACAATCAGGTTACTTATTCTACAATTACAAGCAAATTTCCTGGTAAATAT
TAGTAACTGATAGAAAACTAAAAATAAAGTAGGGGTGGCAAAATCAAACGCAACCCATCCAATT
CGTTTAAGTTGACCCGCTCATTCATGAAGTTAATGAGTTTTGAACTTGACATCCATAGCCCTTT
TTTAGTTATTGAGCAACTCTTGAAGTTGATGTCATGTAATAAGAAAATCACGGGGTTCAAGTCG
TAGAACCAACCTTATGTAGACGTGCACTTTCCGTAGAAATGTGGGTAACCTTGCTTACAATAGA
CTCTTGTAGTTCGTTCCTTTACACACCTGTGCATAGCAGGAGCTTTAGTGGATCGGACTACCTT
ATACTAACTACTAATCAGTGATATAATGATACAAGTAGTTAGATTAGATTCATTAATTTGTTAT
CCATTCACAAATCTCTCATTCATTTTCACACACAGAGTTAGGATTTGAAGTTCAAGCTTTTTGA
ACTTGAAGTTGTACCCATAGTTCTCTTTAGTTACAAGGTTTGCAATTAAATATCTATACATATT
TATTGAACTTCCTAATACAAATAAGCAGTTTAGCTAGAAGCTCCTTGGTGTATGCAGTTTGTTT
CAACTTTTTTTCGAATTCGATGAAATTGTAATGAGCCTGTTCTCCTG
						
					

			
		

Sequences
Splice junction sequence	CTAATACAAATAAGCAGTTTAGCTAGAAGCTCCTTGGTGTATGCAGTTTGTTTCAACTTTTTTT CGAATTCGATGAAATTGTAATGAGCCTGTTCTCCTGcaaaaaaagttttatatggatgggtcca agaccacaaatactaatcatggatcctgagcttataaaggaagtactctcgaaaaactatgtgt atcaaaag
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	CAAAAAAAGTTTTATATGGATGGGTCCAAGACCACAAATACTAATCATGGATCCTGAGCTTATA AAGGAAGTACTCTCGAAAAACTATGTGTATCAAAAGCCTCATGGAAATCCATTAGGCACCTTAT TTGTACAAGGATTAGTAAGCTATGAGAAAGACAAATGGGCTAAACATAGAAAAATCATCAATCC CGCGTTCCATCTAGAGAAGTTAAAGGTTTGTCATTCAACTTCGTGATTGGTCAACCAGAAACTA TTATGTTGGGTAATTCTTACTCTATGTGTGCTCTTGCTTCTATCCCCTTTGATTTGCCTTCCTT ATCGTTCAATCTAAACTTTTATGTCATATGACTATTTTGAGTAATATGATATCTGCTGCCTGAC TTGATGTAGACAATAGTGGTTCTATAGGGACGAATCTCGCTTGGATCATGATTCAATGTTCTAG ATTGTTCTTCCACCAATCCATATATAATATGTTCGCTCTTGCTTCTTTATTGTTTTAAATTTGG TCTTGTATGTTCCACATATGACTATATTGAGTGATTTCTGCTACCTAGCTTAAGTTAGACAATC AGAGAATGATTTTATGATTCAAAGAAGTCGAATCTTGTTTGGATCATCATTTGTCAGGACTCTC TTTGCGTAAGTTCCTTGGCTTGGACAGAGTACTTATTTAGTCCATGTTGTTCCTAATTATGTTC AAGTGTTAGTGTTATTGACATTTTCCCTGGTTCACCATTTTCTCAAACAGCATATGCTTCCAGC TTTTTACTTGAGCTGTAGTGAGATGCTGAGCAAATGGGAAGACGTTGTTCAAGTTGAAGGCTCT CATGAGATAGATGTATGGCCTCACCTGCAGCAATTGACTTGTGATGTGATCTCTCGGACAGCTT TTGGCAGTAGTTATGAAGAAGGTAGAAAGATTTTTGAACTTCAACAGGAACAGGCTCAGCATTT TCTCGAAGTTATACGCTCAGTTTATATCCCAGGATGGAGGTAACTTAATTCTCCTAAGAGTTTG GAAAATGTAGCTATTGGAAATGCAAATTGATTAGTTCTATTTTTTTGTGAATGCATTTTGGTTT TGTGTTTCATAAAACAATTTCAAAGATTTTTGCCAACAAAGAGGAACAGAAGAATGAAGGAAAT AAAAAAGGATGTTCGGTCCTCAATTAGAGGTATTATCGATAAAAGATTGAAGGCAATGGAAGCT GGGAACGCGGATAATGAGGATCTATTGGGCATATTGCTGGAATCGAATTTTAAAGAAATTGAAC TGCACGGAAATAAGGACTTTGGAATGAGCATTGAAGAAGTCATTGAAGAATGCAAGCTATTCTA TTTTGCTGGCGCAGAAACTACATCAGTGTGGATTCTGTGGACTCTGGTGTTGTTGAGCAGATAT CCAGATTGGCAGGCACGGGCCAGAGAAGAAGTCTTGCAAGTGTTTGGGAGTCGGAAACCAGATT TTGATGGCTTAAATCATCTAAAAGTTGTAAGTATTCTTGTTGTTTGGTTCAATTTCTATGCCAT GGGTACTCTCGTTGTTATTTCTACAAGCACGTGTGAATTTCTTTTGATTATCTCGTTCATGGTT GCTTAACTGATAGAGGAGCATTTCTGTTACAGGTGTGAATTTCTTTTGATTATCTCGTTCATGC TTGCTTAACTGATAGAGGAGCATTTCTGTTACAGGTAACGATGATCTTGTACGAGTCGTTAAGG CTATATTCCCCAATAACAGTACTTGCCCGACGAATTTATGAAGACATTACGCTAGGAGAAGTAT CTCTACCAACTGGTGTGCTAGTCTCATTGCCAATTATCTTATTGCATCATGATAAAGATATATG GGGTGAAGATGCAAACAAGTTCAATCCAGAGAGATTTAGAGAAGGAATATCAAGTGCAACAAAG GGTCAAGTTACATATTTTCCATTTGCTTGGGGTCCAAGAATATGCATTGGACAAAATTTTGCCA TGTTAGAGGCAAAGATGACTGTGTGTATGATCCTACAAAGCTTCTTTTTTGAATTGTCTCCATC CTACACACATGCTCCTCAGTCCTTGGTAACCACTCAGCCTCAGTATGGTGCTCCACTTATTTTC CACAAACTATAATTTCATATTCTGTGAAGAGTTCATTCAGACTCGATTCATGGGTGGAGTTACA ATATTAAATATGGGTTCAGAAACAGTTTCTCTATTTCATAAAGATAGGGGATTATGTGGTGTAC TCTCCACTCTCCCCTGACCCTCACATTGGGTATGTTGTTTTTGTTGTTCAGACAAACTCAGTAG TTTTGGTTTAAATCTTGCATTTGTTTCGGGAAATCCATTAAAAATACTATACATGGGAATCCGT GCTAGCACGAGCCTAATATATGTTGCTCTCTTAATATCAAATTATGTGATATAGTTGAAATTTG GAGAAGTACCCCTATTTTTTATATGGTTGTTAAATATTTTAAGCTGTCTACATTATTATGTTTC AATAATTTTTAAAATATTCACCGAACTATTTTTTCAATTACTAATTCTTTGTGAAAATAATAAG AAAATACTCTCTTCCAAGACACTAATCATTTTTGACTTTGTCGATTTCTTTTGCCTTTTCATAA AATAAAATAGATACATATTTTCCATACGTAGTAGATTCAAATCGAAAAATCAAATCTAAATAAT TTTGATTCTCACATTAATAAACTGAAAATCAAATTGAATAAATAGAACTCGATGTCAGCCGCTA AAATTAATAAGATGAGGAAAAAAAGTGAATGATTTTGATTTACATGCGATGATTTTTTCAGTGG CAGGCTAAGTGTACGACTATTGTACATTGCTGGGATGTGTGGAGGGTGGGGATTCAATCTATGT TTTTTAGGATTATAATTACAAAAAAGTCCTCAGATATTTGCCTTTGCTCATCAATGTCTTAATT TCCCACAAACATGGTAGATATAAATATATAGTAGTAATTTATATGCACACATAAATTTAATTCA AACAAAATGGACAAAATTCAAATATTAGTAACAATATGTTGTTGTGTCATAGCAGTTGCTCTGT TTGTGTGTCTATGGAAAGTACTAAATTGGGTTTGGTTCAGACCAAAGAAGTTGGAGAAATTGTT GAGGAAACAAGGGCTAAAAGGGAATTCATACAGAATATTGTATGGTGATATGAAAGATTTTTCT GGGATGATTAAAGAAGCAAATTCAAAGCCTATGAATATTTCTAATGATGATTTATCCCCAAGAT TGGTGCCTTTCTTTCTTGAAATCATCAAGAAATATGGTAAGTTTTCGAACTCTGATAACGGGTA AAGTTGTTGGCATGTGATTAGGAAGTTGTAGATTCTAGCTGTGGAAACAGTCTCTTGCAGAAAT GTAGGAGCTTAGTGCAAACCCATAGCTAATATTGTAGCTCCGCAATCATCAAGTAACTTAGATA AGGAGTTTAATTATACAATCAGGTTACTTATTCTACAATTACAAGCAAATTTCCTGGTAAATAT TAGTAACTGATAGAAAACTAAAAATAAAGTAGGGGTGGCAAAATCAAACGCAACCCATCCAATT CGTTTAAGTTGACCCGCTCATTCATGAAGTTAATGAGTTTTGAACTTGACATCCATAGCCCTTT TTTAGTTATTGAGCAACTCTTGAAGTTGATGTCATGTAATAAGAAAATCACGGGGTTCAAGTCG TAGAACCAACCTTATGTAGACGTGCACTTTCCGTAGAAATGTGGGTAACCTTGCTTACAATAGA CTCTTGTAGTTCGTTCCTTTACACACCTGTGCATAGCAGGAGCTTTAGTGGATCGGACTACCTT ATACTAACTACTAATCAGTGATATAATGATACAAGTAGTTAGATTAGATTCATTAATTTGTTAT CCATTCACAAATCTCTCATTCATTTTCACACACAGAGTTAGGATTTGAAGTTCAAGCTTTTTGA ACTTGAAGTTGTACCCATAGTTCTCTTTAGTTACAAGGTTTGCAATTAAATATCTATACATATT TATTGAACTTCCTAATACAAATAAGCAGTTTAGCTAGAAGCTCCTTGGTGTATGCAGTTTGTTT CAACTTTTTTTCGAATTCGATGAAATTGTAATGAGCCTGTTCTCCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.649035459

Conservation Information
Conserved circRNAs	NA
PMCS	0.649035459

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							stu-miR396-5p 						
					
						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	stu-miR396-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhou et al., 2018

circRNA

Detail information of PGSC0003DMG400007074_circ_g.1

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