Plant Circular RNA Database

Detail information of PGSC0003DMG400026212_circ_g.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400026212_circ_g.1
					
						ID in PlantcircBase
						stu_circ_001082
					
						Alias
						chr08:50934898|50937994
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr8: 50934899-50937996  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							ei-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							PGSC0003DMG400026212						
					
						Parent gene annotation
						
							Conserved gene of unknown function
							
						Parent gene strand
						+
					
						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  
						
							AA-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
						PGSC0003DMT400067430:1
PGSC0003DMT400067431:1

General Information
CircRNA Name	PGSC0003DMG400026212_circ_g.1
ID in PlantcircBase	stu_circ_001082
Alias	chr08:50934898\|50937994
Organism	Solanum tuberosum
Position	chr8: 50934899-50937996 JBrowse»
Reference genome	3.0.38
Type	ei-circRNA
Identification method	CIRI2
Parent gene	PGSC0003DMG400026212
Parent gene annotation	Conserved gene of unknown function
Parent gene strand	+
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	AA-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	PGSC0003DMT400067430:1 PGSC0003DMT400067431:1

			
						 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  
						
							TGTTACTCCCAAATTGGTCGCCATGATCAACTCAAAGCGAATTATTCGCCTTATTCAAGGCTGC
GGACGCACCGTTCCTCGTAATTTTAAGTGCGGAAGTtattaccactccaccttaatcttgagat
gcatgtttaattaattatggtattagtatgtactatgctctgcataattatggtattcagttat
taactaag

									
								

					

						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
						
							TATTACCACTCCACCTTAATCTTGAGATGCATGTTTAATTAATTATGGTATTAGTATGTACTAT
GCTCTGCATAATTATGGTATTCAGTTATTAACTAAGAGAAACATGTTTGTACTTTTTTTTTTGG
GTTACTATGGACCATTTGGAATAAGTCCCTTTTTTGGATGGTTATTACGTGTTGATTCATAATA
TATCATGTTGTATTATACGCTTTTGAATTCGATTTATTTTGATAGAAAGAAGAACCAGAATTGG
TCTTGGGCCTGTAGTAGGAGATACCATAGTGACTTGGCTTTGGGGTGGGTTCTCCGTGGACAAT
GCCACCTTAAATCGTTTTTTAAGTTGTATTGTATGTATAATATTGTATTGTTTAAATAACAATA
TTTGAATAAATATATTGTTTTACGTCGTTACACTGTGTCACACAACAACAATTGGAGCTACTAT
ATAAAAAATAGAGTAAAAGTAAAAATAGACAACATAAGAAAATAAATAAATAAAGTAACAAAAT
TATCACATCAAATCAATCATTAGGTAAAATAATACTTTTCATCATTATCTAATAATGAATTGAA
CGATATGATAATCATCCAAACATGGCTGTGTTGTTACTCTAAAAATCTTTGATTCAGTTCTTTT
ATATTTATGTATGAATGTATGAATATACTAGATATTTGATATAAAATATATTGATTAATACACT
GAATGATATTGATTTTAAATACACAATAATATAAAATTGACAAGTAAATATATAAAATTGTGAA
ACTCAAATGCATAGTAATTAATAGTTGTGTTGATAGTGATAATTGCTTAAACATAGTAAGTAAT
ATATTTAAACTTTATATTCATTAAAATAACGCGCCTAAACGGATAAATATATCCATCGATATTG
AGATTAATTTAGAGTAAATATATATTTATTAAAAAGTAGTGCATATATTCTTGTCATTTAATAA
ATAGTGCATATATATTTTCATCATCTAATACGTAATATATAAACATATATAAACACTATATTTT
GATAGTTATAAACATATATAAACACTATAGTGTTGATAGTTAATAAAATTTTTTTAAAAGGAAT
AATTTCAGAAACCTCCCCTCAGGTTTCACTCCGTAACACTCACCTCCCTCATGATTTACGATAT
TATGCTTACCTCCCTTATTTTAATTTATTTGTAACAATTCTTTTAGCCCATTTATTATTAATGT
ACAAAATCATAATTTGACCAAATTTCCCTTTTAAATATACCCATTGTTTAATTAATTTATAACA
TCTTTTCTGAAAATTTCTACCAAAAAAAAGAGAGAGTACAATTAAATATTATCCTTGATAAAAA
ATCTCCAATTCAAAATTATTTTATTCCATCCAAAATTTCTACCCAAAGTGGGAGACTAGACTCC
TATGATAAAAGAACAAAGTCATACTAGTCATTAGTCAATAAGATATTAAAAGGAAGTTGCGCAC
TCCTTACCTATCAAGTGGCAAATCTAGGTAGGACTAAAGGGATTCAAAACTTTTTTTTTTTTTT
TTTTTGGATGAAAAATGATATTTTCTTCGTCCAAAAAGAATGTTATTTTACTATAATTACAAAT
AATTTAACTTAAAAATTTCTTCTCTATTCTTAACAAAATTATTTATAACCACATAAATATTAAT
GATTCTTTTAAATCGAAAGTTTTAAAAGTCTTTATTTTTTTTCTTAAACATCGTGTCAACTCAA
TTGGTGCCACATAAATTGGAACAGAAGAAGTATTTTTTAATTCCTTCTAGAAGCTTTTATATTT
TTACTGTCTTGATGACTCGAACTCACAATGTTAAGATTGAAAGTGACGGATACTTAGCATCTAT
ATGGTTTCCTTCTATTTTCTTCGTATTCTGAACACGTTTAATACAAGACTTGGCTCCACCATAA
CTACCCACTAATTATTAAGTCCTATAAATAGATGGGATATAAAATTAAGTAACTTATTTGTTAC
AAAAAATAATTTAGCAATTTATGTGACACTTAAATAAATTTTCCACCGACAAAAAGAGACTAAA
ATTAAATCTTTTTTCTCACTATCCTACTTAATTAATTATAATACGAATAACATAAAATTGAATA
TAAAGATTATAATATAATAGTCAAAGATTTATCTATCCTTAATAAAAAAAATCTCCGATTCAAA
TTATTTTATTCCATTCTACCCAAAGTGGAAGACTTTGACTCCTATGATAAAGAACGAAGTCATA
CTAGTCATTATCCAACAAGAAATTGAGAGGAAGTTGCGCGCTACTTACCTATCAAGCGCAGAGC
GTAGGTAGAACCAAAGAGATTCAAATTTTTGTTCGAATCGTTTTATTTTATGTGATACATTTTT
CTAATTCATTCAAAAAATGTCACTTTACTATAATTAGAAATAATTTAACTTTAAAATTTCTTTT
CTATTCTTAACAAAATGATTTATAACCACATAAATATTAAGGATTCTTTTAAATCGAAAGTTTC
AAAAGTCTTTATTTATTTTTTCTTAAACATCGTGTCAACTCAAATGGTGCCACATAAATTGGGA
CAGAAGGAGTATTTTTTTATTCCTTCTAGAAGCTTTTATCTTTTTACTGTCTTGATGACTCGAA
CTCATAATGTTAAGCATCTAAAAAGTTTCCTTCGATTTCTTCGTATTCTGAACATGCTTAATAT
AATACAAGACGTGGCTCCACCACAACTACCCACTAATTATTAAGTCCTATAAATAGATGGGATA
TAATGTATATGGTGAAGTGAATCATAAAATTATGATGAATAAAATGATATGGAGTATGGTATTG
GTAATGATATTATTATATGGTTTGGAGATAAAAATAGTAAAGGGAGAGGTGAGTGAATCAGTTT
GTAGAGAAGAAAGGAATCTTGGTAAAAAAGCATGTCTGTCTGTATTGTTTGGAAGTAATCCATC
GGCAAAATGCTGTGAAAGAGCTAGAGTTACTCATTGGGAATGTCTTTGCCCAATTGTTACTCCC
AAATTGGTCGCCATGATCAACTCAAAGCGAATTATTCGCCTTATTCAAGGCTGCGGACGCACCG
TTCCTCGTAATTTTAAGTGCGGAAGT
						
					

			
		

Sequences
Splice junction sequence	TGTTACTCCCAAATTGGTCGCCATGATCAACTCAAAGCGAATTATTCGCCTTATTCAAGGCTGC GGACGCACCGTTCCTCGTAATTTTAAGTGCGGAAGTtattaccactccaccttaatcttgagat gcatgtttaattaattatggtattagtatgtactatgctctgcataattatggtattcagttat taactaag
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	TATTACCACTCCACCTTAATCTTGAGATGCATGTTTAATTAATTATGGTATTAGTATGTACTAT GCTCTGCATAATTATGGTATTCAGTTATTAACTAAGAGAAACATGTTTGTACTTTTTTTTTTGG GTTACTATGGACCATTTGGAATAAGTCCCTTTTTTGGATGGTTATTACGTGTTGATTCATAATA TATCATGTTGTATTATACGCTTTTGAATTCGATTTATTTTGATAGAAAGAAGAACCAGAATTGG TCTTGGGCCTGTAGTAGGAGATACCATAGTGACTTGGCTTTGGGGTGGGTTCTCCGTGGACAAT GCCACCTTAAATCGTTTTTTAAGTTGTATTGTATGTATAATATTGTATTGTTTAAATAACAATA TTTGAATAAATATATTGTTTTACGTCGTTACACTGTGTCACACAACAACAATTGGAGCTACTAT ATAAAAAATAGAGTAAAAGTAAAAATAGACAACATAAGAAAATAAATAAATAAAGTAACAAAAT TATCACATCAAATCAATCATTAGGTAAAATAATACTTTTCATCATTATCTAATAATGAATTGAA CGATATGATAATCATCCAAACATGGCTGTGTTGTTACTCTAAAAATCTTTGATTCAGTTCTTTT ATATTTATGTATGAATGTATGAATATACTAGATATTTGATATAAAATATATTGATTAATACACT GAATGATATTGATTTTAAATACACAATAATATAAAATTGACAAGTAAATATATAAAATTGTGAA ACTCAAATGCATAGTAATTAATAGTTGTGTTGATAGTGATAATTGCTTAAACATAGTAAGTAAT ATATTTAAACTTTATATTCATTAAAATAACGCGCCTAAACGGATAAATATATCCATCGATATTG AGATTAATTTAGAGTAAATATATATTTATTAAAAAGTAGTGCATATATTCTTGTCATTTAATAA ATAGTGCATATATATTTTCATCATCTAATACGTAATATATAAACATATATAAACACTATATTTT GATAGTTATAAACATATATAAACACTATAGTGTTGATAGTTAATAAAATTTTTTTAAAAGGAAT AATTTCAGAAACCTCCCCTCAGGTTTCACTCCGTAACACTCACCTCCCTCATGATTTACGATAT TATGCTTACCTCCCTTATTTTAATTTATTTGTAACAATTCTTTTAGCCCATTTATTATTAATGT ACAAAATCATAATTTGACCAAATTTCCCTTTTAAATATACCCATTGTTTAATTAATTTATAACA TCTTTTCTGAAAATTTCTACCAAAAAAAAGAGAGAGTACAATTAAATATTATCCTTGATAAAAA ATCTCCAATTCAAAATTATTTTATTCCATCCAAAATTTCTACCCAAAGTGGGAGACTAGACTCC TATGATAAAAGAACAAAGTCATACTAGTCATTAGTCAATAAGATATTAAAAGGAAGTTGCGCAC TCCTTACCTATCAAGTGGCAAATCTAGGTAGGACTAAAGGGATTCAAAACTTTTTTTTTTTTTT TTTTTGGATGAAAAATGATATTTTCTTCGTCCAAAAAGAATGTTATTTTACTATAATTACAAAT AATTTAACTTAAAAATTTCTTCTCTATTCTTAACAAAATTATTTATAACCACATAAATATTAAT GATTCTTTTAAATCGAAAGTTTTAAAAGTCTTTATTTTTTTTCTTAAACATCGTGTCAACTCAA TTGGTGCCACATAAATTGGAACAGAAGAAGTATTTTTTAATTCCTTCTAGAAGCTTTTATATTT TTACTGTCTTGATGACTCGAACTCACAATGTTAAGATTGAAAGTGACGGATACTTAGCATCTAT ATGGTTTCCTTCTATTTTCTTCGTATTCTGAACACGTTTAATACAAGACTTGGCTCCACCATAA CTACCCACTAATTATTAAGTCCTATAAATAGATGGGATATAAAATTAAGTAACTTATTTGTTAC AAAAAATAATTTAGCAATTTATGTGACACTTAAATAAATTTTCCACCGACAAAAAGAGACTAAA ATTAAATCTTTTTTCTCACTATCCTACTTAATTAATTATAATACGAATAACATAAAATTGAATA TAAAGATTATAATATAATAGTCAAAGATTTATCTATCCTTAATAAAAAAAATCTCCGATTCAAA TTATTTTATTCCATTCTACCCAAAGTGGAAGACTTTGACTCCTATGATAAAGAACGAAGTCATA CTAGTCATTATCCAACAAGAAATTGAGAGGAAGTTGCGCGCTACTTACCTATCAAGCGCAGAGC GTAGGTAGAACCAAAGAGATTCAAATTTTTGTTCGAATCGTTTTATTTTATGTGATACATTTTT CTAATTCATTCAAAAAATGTCACTTTACTATAATTAGAAATAATTTAACTTTAAAATTTCTTTT CTATTCTTAACAAAATGATTTATAACCACATAAATATTAAGGATTCTTTTAAATCGAAAGTTTC AAAAGTCTTTATTTATTTTTTCTTAAACATCGTGTCAACTCAAATGGTGCCACATAAATTGGGA CAGAAGGAGTATTTTTTTATTCCTTCTAGAAGCTTTTATCTTTTTACTGTCTTGATGACTCGAA CTCATAATGTTAAGCATCTAAAAAGTTTCCTTCGATTTCTTCGTATTCTGAACATGCTTAATAT AATACAAGACGTGGCTCCACCACAACTACCCACTAATTATTAAGTCCTATAAATAGATGGGATA TAATGTATATGGTGAAGTGAATCATAAAATTATGATGAATAAAATGATATGGAGTATGGTATTG GTAATGATATTATTATATGGTTTGGAGATAAAAATAGTAAAGGGAGAGGTGAGTGAATCAGTTT GTAGAGAAGAAAGGAATCTTGGTAAAAAAGCATGTCTGTCTGTATTGTTTGGAAGTAATCCATC GGCAAAATGCTGTGAAAGAGCTAGAGTTACTCATTGGGAATGTCTTTGCCCAATTGTTACTCCC AAATTGGTCGCCATGATCAACTCAAAGCGAATTATTCGCCTTATTCAAGGCTGCGGACGCACCG TTCCTCGTAATTTTAAGTGCGGAAGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.106975597

Conservation Information
Conserved circRNAs	NA
PMCS	0.106975597

			
						 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 PGSC0003DMG400026212_circ_g.1

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