Plant Circular RNA Database

Detail information of PGSC0003DMG400005262_circ_igg.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400005262_circ_igg.1
					
						ID in PlantcircBase
						stu_circ_000422
					
						Alias
						chr03:36365799|36370321
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr3: 36365800-36370321  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							NA						
					
						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	PGSC0003DMG400005262_circ_igg.1
ID in PlantcircBase	stu_circ_000422
Alias	chr03:36365799\|36370321
Organism	Solanum tuberosum
Position	chr3: 36365800-36370321 JBrowse»
Reference genome	3.0.38
Type	igg-circRNA
Identification method	CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	NA
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  
						
							TTACCTACAAAACATCTTACAGGCAGGCTTGATCCTTATGTTGAGGTTAAACTTGGGAATAATA
AGGATAAGACTCGTCATTTCGAGAAGACTACAAATCttaaacgcaagaagaaccctaacttgaa
gaagaacaatcaatagaaattctttcttgagattcttgaattagattcttgaaaattcgattac
cgagagtt

									
								

					

						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
						
							TTAAACGCAAGAAGAACCCTAACTTGAAGAAGAACAATCAATAGAAATTCTTTCTTGAGATTCT
TGAATTAGATTCTTGAAAATTCGATTACCGAGAGTTAAGAATTATATTAATGATTCATGATTAT
AAGAAGGAATTTGAATTGGAAAGATTGAAATCTTTGGAGAAGGATTTACCTTAGAAAATCTTGT
TAAAGATTTGAAAGAATATTGCTTTAAGAAGAATCTTGCTTGAAAATCTTATGCTTTGATTTTC
CTTAGCATTTTATCTTAGGTTTGAGAGAGGAGAGGGAGGAGTTAAAGATGAGAATATGATTGTT
TATGGCTTTAGAGAAGTTGAGAAAATCGTTTTAAGGTTTTCCTAGTGGTATAAGGACAAGATTT
TTTTTTAAATTTTTTTTTCCCCGTCGGTTAAAATGAAACTGCACTGCATTATTTAGTAAAATGA
TCATAACTCTCTTCTCCAAACTTGGAATGATACGAAATTGGTGGTGTTGGAAAGAAGACTCATA
GTACAATAAATAAGCATAATACATATGATACGATACATTATAAAATAATATGTAACGGTCAACC
GAACAAGGTGTAAGTAAGTGCAGGTAAAGAAGGTGATAAGGGTCAATTCTCATACATTTATGGG
GAAAAGGACAAATATACTCTCGAACTATCAAAAATAGTATATCAATACCTTTCGTTATACTTTA
AGGTCGTATATATCCTTACCATCATTCTTTTGGGTTGTGTATATCCTTGAAGTTAACAAATGGA
CACGTGGCTTCATCTAAATGATTTACCCGATTTTATTTATTTTTTACCCAAAAGTTTAAAATCC
ACCCGACCCACAACCAAAATGGGTGGTGCCAAAATCCACTCTTCATTTTCATCAAAAAACCATC
CCTCTTCTTCTCAACCCACCATGACCATGGAATCAAGAACTCATTTTGAAGAAAGAAGATGACT
TGTTCACTAAAACTACTCTCTTCTTCACTTTCACTTCAAACTTTGTATCTTCCCCATTCCATCC
AGTTTCAACATGTAACATCCCTTCAAGTTTTGTCAATTTGGTGTCTTTCGAATTCTTTAAATCT
GTAGACTTTATGCTTGCTAACAAAAAAAAGAAAACTTCATCTTTATTTAGCTTAGTAGGAATCT
ATGTTATTGGGTGTTTTGTACATTATCTATTTCAAGAATATTTTCAATCCCTTTCAACAATAAC
AAATCGATTTGAACTTTAAATTTTTGATTTTATTGTAGACCCACTTTAAAGCTTGAAGCTTTGT
CCATCAATGGTGTAGTATTTTCTCAACTCCTTTCAACAATAAACAAATAGATTTGAGCTTGAAT
TTTTTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNTGTAAAAGTAAAAAGTTGTTCTACTTTTTATAGTTCCTAAGTAA
CTAAAAGGACAAAAGTTACTTAGGACAAAATTGTGTGTGAATGTTTTATATATATAAAAAAATG
AATTAAAACTGAAATGTGGCTATAGGGATTCGATCCCGGGTTGGCTGGGAAAATTGAACCCCCT
CAGCCACTCGGCTAAGCTTCAACTTGTGTTAGTGGGTTCAAAATTTAATATATACATATAAAAT
TTTAAAAACTGATTAAATATACATATATATACAGTGTTATTTTTCAACGAAGTGGGTTCATATG
AACCCACTTGAACCACTATAGGTCCGCCCCTGCTTTCAACAATAATAAATTGATTTGAACAAAC
AAAAAATTAAATTGGTTTCTTGATTTTGATTGAAATAATATGCTTCTGTGTTTTTGTTTGTGAG
ATTTGAAGAATGGTGCCAATGAAAATGAATTGAAGAACATTTTTCCTTGTATTTGATATTTAGT
GGAGATGAACAACTATGCTTTTTATTTTAATTTTAAATGTCATGGTATTTTAATTTGGGTCATG
GGTGGGTAAGTTATGAAAAATGGGTGGGTTCTCAATTTTTTGGATAAATAAAAAAATAAAATCA
GGTAAATTATTTAGATGATGCCATGTGTCAATCTGTTAGTCTCAAGGGTATAGACGATCCAAAA
TATTGACGGTAAGGGTATATACAACCTTAAATTATAACGAAAGGTATTAACATACCATTTATGA
TAATTCGGGGCTATATTTATCCTTTTTCCCTACATTTATTGTAAATGTGAAATACTTATACAAA
TAAAAATGTGGAAAAGATAAAAAAAAACAAAAAAGATGCATGATTGTTTGTCTGCTTGGCTAGT
TAAGCATGAGCTCGTTCATAAATTTTTGGGCCTTGATTATCAAGAAATAGAGACTAAAATTATG
TAAAAAATAGGAGTTATAATTCACAATTTAAAATAACTAAAAATTATATAAAATTTAGGTGACT
CTGCAATTTTCGTTTGTGTTACATAAATTGAGACAAACTATGAAACATGTATTGGACATGATCC
AAACTCCTATATCTAATAAAAAAAATTACTTCAAGTAGTCAACTTGATGAAATGATTAAGTAGC
TTAACTGTTGCTTCTATATTTTTAATAAAATTAAAATAAATAGAAGGATAAGACATATTGAATT
GAATTTAATATGAAAAAGTCTTTTGACTTGCGATCAAAAGAATAATCATACTCTATGTATAAGG
TCACCTAAAAAATAATAATTTAAATTCATATATAGATAATACCAATAATTAAATTAATCATATG
CAAGAAAATATAAGTAGTTCAAAACCATTATTTGAATAATAGGTAAATACTAAATAAAAATAAT
AATTAAAATATTTTAGTAAACAAATGCATATAAGATGATAATAAAAATTATGCGAGGATATTTA
TAATTTTGATTAATCCGTAAAATAAATAAAGTAAATGATTAAATAATGCTAAAAGTTATTGATA
TCAAATTTAGACAATGAATTAAACTTATATATTAGTTTATTTTTCGTAAGTACTAACTATGTTA
ATTTGACAAGGTATGACATATGCTAATATTTTTTCATATAAATGTTATAACTTATAAAAATCAA
TTTGCAACAAGTTAAATCTTGAAATATTCAATAAACTTATATATTTGTAATTACGTTTGTCAAC
TTATTAAAGTAATATATTCGGGGGCGAATGTATTAGAAAAAAAAGGGTATGTGAATTTGTGATC
GCTTCGTAGAATTTTATATATATATATATATGCGTGTGTGTAATATTATTTTCATTAACCCATA
CTAAAAGAAGACTAAACAACACACTTGATTGAAAGTTAAATTATTTAGCTAGGGATTAATTCTC
ACTAAATACATCTTCTTTCTTTTTTAAATGGTGTACCAATGCTTGCTAGATAGATATACTAGTT
ATTTTATAACAATGGAAATGTATTGAAAAGAAGTAAAGAAAAGCAACAAAGACCCTATCCCTTT
CAATGAAAGTTACTTAGGATAAACATGGGTTGTGATGAAGTGGTGATTGTTTCACCCTTAATTA
GATGTTTCGATTCCAGCTGTGGATATGGAGAAGATCTTGTTGGGATGCCACCTTGATTGGGATT
GCAGTGTATGATTCGAATTTAGTTGGGGTTTCAATGCAGGCTCCGAACCACAAAAACCAAAAAA
CAGAAAGTCACTTCCAAGAAATATCTTTAGAGGAAAACTTTACTTCTATTAAATATGTTGTGCT
TATATTGACTATGTTGTTCATTACTATAGTCTATATACAGTATATGTTATTTTTCTAGTTGAGA
GAATCATTTTATCAAAATTTTGTTCAATATTGTTGCTCCAAAACCAATTGAATTGGATATATAG
AACTCAAGTTGTGTCTGAAATTTTTTATGTGTGCAGGATTGAAGCATTCAGATCAAATAGTTCT
GCCAGTTTTCCAAGGTTCTGTTCTCTCTATTTAGCCCTTGAGTGCTTCCATTTGTGCCTAAAGA
TTTATTTTTGTTTTCTTATTTCTGGTTACCTTGTCTAAGCCTGTCTTTGGGTTTGTGAATATTA
ACGTTGTATTGAGTTGTCCCTCTTTGCTAGTAACTTCTGATATCCTTTTAGTTTTGGTTATTGA
TCAATGTAGTATTAGTAAGGTTTTGACTTTGTGTAAACTGAACAAGAAAAAAAGAAAATTCATT
CAAGAAGATTAGGGGTTATTAGCTTGAGCAAATGCAATATCTTTTTGTCCGGGTGGTGAAGGCT
AGAGATTTACCTACAAAACATCTTACAGGCAGGCTTGATCCTTATGTTGAGGTTAAACTTGGGA
ATAATAAGGATAAGACTCGTCATTTCGAGAAGACTACAAATC
						
					

			
		

Sequences
Splice junction sequence	TTACCTACAAAACATCTTACAGGCAGGCTTGATCCTTATGTTGAGGTTAAACTTGGGAATAATA AGGATAAGACTCGTCATTTCGAGAAGACTACAAATCttaaacgcaagaagaaccctaacttgaa gaagaacaatcaatagaaattctttcttgagattcttgaattagattcttgaaaattcgattac cgagagtt
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	TTAAACGCAAGAAGAACCCTAACTTGAAGAAGAACAATCAATAGAAATTCTTTCTTGAGATTCT TGAATTAGATTCTTGAAAATTCGATTACCGAGAGTTAAGAATTATATTAATGATTCATGATTAT AAGAAGGAATTTGAATTGGAAAGATTGAAATCTTTGGAGAAGGATTTACCTTAGAAAATCTTGT TAAAGATTTGAAAGAATATTGCTTTAAGAAGAATCTTGCTTGAAAATCTTATGCTTTGATTTTC CTTAGCATTTTATCTTAGGTTTGAGAGAGGAGAGGGAGGAGTTAAAGATGAGAATATGATTGTT TATGGCTTTAGAGAAGTTGAGAAAATCGTTTTAAGGTTTTCCTAGTGGTATAAGGACAAGATTT TTTTTTAAATTTTTTTTTCCCCGTCGGTTAAAATGAAACTGCACTGCATTATTTAGTAAAATGA TCATAACTCTCTTCTCCAAACTTGGAATGATACGAAATTGGTGGTGTTGGAAAGAAGACTCATA GTACAATAAATAAGCATAATACATATGATACGATACATTATAAAATAATATGTAACGGTCAACC GAACAAGGTGTAAGTAAGTGCAGGTAAAGAAGGTGATAAGGGTCAATTCTCATACATTTATGGG GAAAAGGACAAATATACTCTCGAACTATCAAAAATAGTATATCAATACCTTTCGTTATACTTTA AGGTCGTATATATCCTTACCATCATTCTTTTGGGTTGTGTATATCCTTGAAGTTAACAAATGGA CACGTGGCTTCATCTAAATGATTTACCCGATTTTATTTATTTTTTACCCAAAAGTTTAAAATCC ACCCGACCCACAACCAAAATGGGTGGTGCCAAAATCCACTCTTCATTTTCATCAAAAAACCATC CCTCTTCTTCTCAACCCACCATGACCATGGAATCAAGAACTCATTTTGAAGAAAGAAGATGACT TGTTCACTAAAACTACTCTCTTCTTCACTTTCACTTCAAACTTTGTATCTTCCCCATTCCATCC AGTTTCAACATGTAACATCCCTTCAAGTTTTGTCAATTTGGTGTCTTTCGAATTCTTTAAATCT GTAGACTTTATGCTTGCTAACAAAAAAAAGAAAACTTCATCTTTATTTAGCTTAGTAGGAATCT ATGTTATTGGGTGTTTTGTACATTATCTATTTCAAGAATATTTTCAATCCCTTTCAACAATAAC AAATCGATTTGAACTTTAAATTTTTGATTTTATTGTAGACCCACTTTAAAGCTTGAAGCTTTGT CCATCAATGGTGTAGTATTTTCTCAACTCCTTTCAACAATAAACAAATAGATTTGAGCTTGAAT TTTTTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNTGTAAAAGTAAAAAGTTGTTCTACTTTTTATAGTTCCTAAGTAA CTAAAAGGACAAAAGTTACTTAGGACAAAATTGTGTGTGAATGTTTTATATATATAAAAAAATG AATTAAAACTGAAATGTGGCTATAGGGATTCGATCCCGGGTTGGCTGGGAAAATTGAACCCCCT CAGCCACTCGGCTAAGCTTCAACTTGTGTTAGTGGGTTCAAAATTTAATATATACATATAAAAT TTTAAAAACTGATTAAATATACATATATATACAGTGTTATTTTTCAACGAAGTGGGTTCATATG AACCCACTTGAACCACTATAGGTCCGCCCCTGCTTTCAACAATAATAAATTGATTTGAACAAAC AAAAAATTAAATTGGTTTCTTGATTTTGATTGAAATAATATGCTTCTGTGTTTTTGTTTGTGAG ATTTGAAGAATGGTGCCAATGAAAATGAATTGAAGAACATTTTTCCTTGTATTTGATATTTAGT GGAGATGAACAACTATGCTTTTTATTTTAATTTTAAATGTCATGGTATTTTAATTTGGGTCATG GGTGGGTAAGTTATGAAAAATGGGTGGGTTCTCAATTTTTTGGATAAATAAAAAAATAAAATCA GGTAAATTATTTAGATGATGCCATGTGTCAATCTGTTAGTCTCAAGGGTATAGACGATCCAAAA TATTGACGGTAAGGGTATATACAACCTTAAATTATAACGAAAGGTATTAACATACCATTTATGA TAATTCGGGGCTATATTTATCCTTTTTCCCTACATTTATTGTAAATGTGAAATACTTATACAAA TAAAAATGTGGAAAAGATAAAAAAAAACAAAAAAGATGCATGATTGTTTGTCTGCTTGGCTAGT TAAGCATGAGCTCGTTCATAAATTTTTGGGCCTTGATTATCAAGAAATAGAGACTAAAATTATG TAAAAAATAGGAGTTATAATTCACAATTTAAAATAACTAAAAATTATATAAAATTTAGGTGACT CTGCAATTTTCGTTTGTGTTACATAAATTGAGACAAACTATGAAACATGTATTGGACATGATCC AAACTCCTATATCTAATAAAAAAAATTACTTCAAGTAGTCAACTTGATGAAATGATTAAGTAGC TTAACTGTTGCTTCTATATTTTTAATAAAATTAAAATAAATAGAAGGATAAGACATATTGAATT GAATTTAATATGAAAAAGTCTTTTGACTTGCGATCAAAAGAATAATCATACTCTATGTATAAGG TCACCTAAAAAATAATAATTTAAATTCATATATAGATAATACCAATAATTAAATTAATCATATG CAAGAAAATATAAGTAGTTCAAAACCATTATTTGAATAATAGGTAAATACTAAATAAAAATAAT AATTAAAATATTTTAGTAAACAAATGCATATAAGATGATAATAAAAATTATGCGAGGATATTTA TAATTTTGATTAATCCGTAAAATAAATAAAGTAAATGATTAAATAATGCTAAAAGTTATTGATA TCAAATTTAGACAATGAATTAAACTTATATATTAGTTTATTTTTCGTAAGTACTAACTATGTTA ATTTGACAAGGTATGACATATGCTAATATTTTTTCATATAAATGTTATAACTTATAAAAATCAA TTTGCAACAAGTTAAATCTTGAAATATTCAATAAACTTATATATTTGTAATTACGTTTGTCAAC TTATTAAAGTAATATATTCGGGGGCGAATGTATTAGAAAAAAAAGGGTATGTGAATTTGTGATC GCTTCGTAGAATTTTATATATATATATATATGCGTGTGTGTAATATTATTTTCATTAACCCATA CTAAAAGAAGACTAAACAACACACTTGATTGAAAGTTAAATTATTTAGCTAGGGATTAATTCTC ACTAAATACATCTTCTTTCTTTTTTAAATGGTGTACCAATGCTTGCTAGATAGATATACTAGTT ATTTTATAACAATGGAAATGTATTGAAAAGAAGTAAAGAAAAGCAACAAAGACCCTATCCCTTT CAATGAAAGTTACTTAGGATAAACATGGGTTGTGATGAAGTGGTGATTGTTTCACCCTTAATTA GATGTTTCGATTCCAGCTGTGGATATGGAGAAGATCTTGTTGGGATGCCACCTTGATTGGGATT GCAGTGTATGATTCGAATTTAGTTGGGGTTTCAATGCAGGCTCCGAACCACAAAAACCAAAAAA CAGAAAGTCACTTCCAAGAAATATCTTTAGAGGAAAACTTTACTTCTATTAAATATGTTGTGCT TATATTGACTATGTTGTTCATTACTATAGTCTATATACAGTATATGTTATTTTTCTAGTTGAGA GAATCATTTTATCAAAATTTTGTTCAATATTGTTGCTCCAAAACCAATTGAATTGGATATATAG AACTCAAGTTGTGTCTGAAATTTTTTATGTGTGCAGGATTGAAGCATTCAGATCAAATAGTTCT GCCAGTTTTCCAAGGTTCTGTTCTCTCTATTTAGCCCTTGAGTGCTTCCATTTGTGCCTAAAGA TTTATTTTTGTTTTCTTATTTCTGGTTACCTTGTCTAAGCCTGTCTTTGGGTTTGTGAATATTA ACGTTGTATTGAGTTGTCCCTCTTTGCTAGTAACTTCTGATATCCTTTTAGTTTTGGTTATTGA TCAATGTAGTATTAGTAAGGTTTTGACTTTGTGTAAACTGAACAAGAAAAAAAGAAAATTCATT CAAGAAGATTAGGGGTTATTAGCTTGAGCAAATGCAATATCTTTTTGTCCGGGTGGTGAAGGCT AGAGATTTACCTACAAAACATCTTACAGGCAGGCTTGATCCTTATGTTGAGGTTAAACTTGGGA ATAATAAGGATAAGACTCGTCATTTCGAGAAGACTACAAATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.07416768

Conservation Information
Conserved circRNAs	NA
PMCS	0.07416768

			
						 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 PGSC0003DMG400005262_circ_igg.1

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