Plant Circular RNA Database

Detail information of PGSC0003DMG400015225_circ_ig.2

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400015225_circ_ig.2
					
						ID in PlantcircBase
						stu_circ_000461
					
						Alias
						chr03:51590209|51594408
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr3: 51490210-51494410  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							PGSC0003DMG400046688_circ_igg.1 PGSC0003DMG400046688_circ_igg.2 PGSC0003DMG400015225_circ_igg.1 PGSC0003DMG400015225_circ_igg.2 PGSC0003DMG400015225_circ_igg.3 PGSC0003DMG400015225_circ_ig.1 						
					
						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
						NA

General Information
CircRNA Name	PGSC0003DMG400015225_circ_ig.2
ID in PlantcircBase	stu_circ_000461
Alias	chr03:51590209\|51594408
Organism	Solanum tuberosum
Position	chr3: 51490210-51494410 JBrowse»
Reference genome	3.0.38
Type	ig-circRNA
Identification method	CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	PGSC0003DMG400046688_circ_igg.1 PGSC0003DMG400046688_circ_igg.2 PGSC0003DMG400015225_circ_igg.1 PGSC0003DMG400015225_circ_igg.2 PGSC0003DMG400015225_circ_igg.3 PGSC0003DMG400015225_circ_ig.1
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	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  
						
							GAACTATGACTTATGATAAGGTCTTAGAGGAGAAACAGGTGAAAAAGAAAAAGGATGGTCATGG
TACTTTGGTGGAGCCACATGTTGAGAGGACAAATGTctgggtataaaaaaggcttggatgaatg
gcgtcaaagtcaacctacttctgaggatgatagcttaacccaattgccagacgatgatgaagct
tcaatatt

									
								

					

						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
						
							CTGGGTATAAAAAAGGCTTGGATGAATGGCGTCAAAGTCAACCTACTTCTGAGGATGATAGCTT
AACCCAATTGCCAGACGATGATGAAGCTTCAATATTGTCGAAGAAGATTGGTGGATTAAAGAAA
GGTAAAGCACGCGTCCTTGGATCAGAGCATTGCGTAGGCTGTGTCACGTTTGGATTTGCTTCTG
CTTCTTTAAGTTCTGGGCAGAATCAGGAAGAGATAGATTCAGAGATAAAATCATTGCGGATACA
AGTACAAGAGCTATTGAAAAAGCAAAAAGCAGACCGTTTAAGACTTGATGGACTGGAGAATCTA
GTGGTTCAGCTCATAGACAATTGCCGATCTGAAGAGTCTGACAATGATGAGTCTGATGGAGAAA
AATAGTTTGTTGTGCTTTTGATGTTGAAGCAATACTTGTTTGATTTCGTTTGGATATTACCTGA
ATGGACCATTCAAGGTCTTTGGATGTTTTAGACTTGATTTTGTATGCTACTTGAATGGTGTTTT
GGATGTTTTAGTTATAAACGTTTATGTTTAATTGTTCGAATTTTTGGAGATTTGATTGTTGGGC
ACAAACCATTTATGTTATTAAGCATAAAAGAGAGTGGTGGAAAAAAAAGTGTGTCACGGAAGAT
AAAACAGGATAAGTAACTATTATGTGAACATTAATAGTTAATCATTTTTCAAATTTTCTTCAAT
AAGCTCGATAAGATGGAATTTTCTTAAGTTTAAACCTGATTTACCAATAAGAAATACTTAAAAC
TTATTGCACAAATGACAAAATACCATAGACAAAAACTTTTCGCACTCTATATTTGTATCAAACC
ACACTAAGTATCAAATAGCAAATTGTACTGAAGCCGAAGCACCTGCCCAGTTTAGTAAGTTTTC
TCCACTGCATTACTAAGGAACAGAGGAAGAAGAATACTACTACCAAAATAAGCCATTTCAGAAG
AACAACACCAAACAAAAAAAATCTTTTCGACATTCCAATGGAAAAAGTGCGCGAAAATCGACGC
TGCATTTATAAGTCATTACCGACACAGATTTCCGACGGCAGCCGTCGCAAAACTTAAATATATA
TTGGGAACAAAACCCTCATTTTTTCTCAATTATCACTTCCTCGCCTCACTTTTTTTCTCTACTC
TTTCCTTGGCGATTCACCTCTTAGGACAGCCAAATAAAGCCGTCCAGTAGCGCCGCCGTTGACG
GCAGCACCACCGCTCAGTCGAGGTAAGTGGATTTTTTCCTTCTTCCACAGTTTTTCTCCAGGTT
TACTATTTGTATGAGATTTTGAATAGATCTGGATAGATATCACCATTTTCTTCAAAGGTCCGTG
TAGAATTTTGCTTTGATTAAGTTTTGTTCTTCTTTCTGGGTGTTGCTCATATGAAAATATTAAC
TTGAATCGTTATAGTCTCTCTGCTTTGACTACTTAACTTCCCAACTTTGTTTATTGTATTTAGC
ATTAATGATTTTGGAACTTTGTTAATTTTATCTAACACAAAAGATATAACCATCTATGTATTCT
TTTCGGGGGATTGAGCAGAAGATGTTTGATTACCCGGAAGGGTAGCTGAGTTCTTGTTCAAAAC
CCCCGGCTTATTTATGATCAAATGTATCTATGAAGAACTTATCCTTCAGTCTTTACTTGTAGCT
CAAATCAACAAGATTATGAGGAAGATACATCCATGCCACACAAGAATGGAGATTCAATTGATGA
ACATAAAACAAGCGAGAAATAATTACTTGATGAAAATGAAACGAGCAATATAAAAAATTTAATG
ATGAATTTAAAGCAAGGGAAAAATTAGTATGTTAGTTTTTTTATCTTCTTTAGTCATATAATAG
GTTGAAGAAGTAACAACTTTATTAGTATTCTTAAATTATTATTATTTTTAACTATGCTTGTATT
ATTCAGATGACATCTCAGGAGAATGATCGTCCACAAAGTGCTAGTGCAGTGAAACGTAAATCTA
AGGGAAAGAAAAAAGTTTCTGAGACTACAGGTTACACTACCTCTCTACTTATATGCCTCTTACA
TGTATACAGGAAGTCTTTTTGAATAACAATCATTTGAAATGATCATTAAAATCATGCATGACCA
CAACCTTTAAATCAACATCTTTTCGATAAATGAAATGTTTTATACATGCATGTCATATGAGAAA
TCATAAATTACAACGCAAAAAGAAAAACTATTGTCTATGGAACTTCTATAACGCATAGTGAAAT
AGTCAACCAAGACAGGCTCTAGTACTCAAAAGAATGAAGTAAATGTCTTTCTAAGATGTGGAGA
TCTTGCTCGAGCCTGAGTAAAGAATGAAGTAAATGTACTTAAAGATTCTGATATTTCTTTATGT
CCACAAGGTATGAATGAATTTTGCTTATACCATTTCAATGCTTTTGCTATTTTGGTCTTCCCCT
TTGCGTGTTGCATTGTCCATTGAAAGAAATTGGTCCAAGCAATTGGCGTAACATAACATAACTG
TGATCAGTTGAGTAATTTGGTCAAGAAACACCTAGCATAATGACACTTAACAAATATATGATCC
CTTGTTTCATCTTCCAGCTGGCAAAACATACATTTAGGAGTCGTTTGAGTGTATAAGAATAATG
CAAAATATAGTGTATTAGTAATGCTTGTATTAGTTATGATTGCATTAGTTATGCTGAGATTTTT
CTTATGTAGTGTTTGGTTTGATGTACTAAAAATATCATGCATTGCATAACTTTTTAAAAAAATA
TATTTGTTTATAAAAATACCCTCCACAAATATAGTGGAGAGGATGTGGAGAAGTTTTTAAGGGA
TAATTGTGCCTTTAATCTTGCCAATACATGCATTAGAACCCATTGCATTACAATGCATAGAAAT
CCATGGTATTACTAATACACTCCTCAATACACAATAGAGTGTATTACTTATACAAACATTAGTT
ATACATAGGTTGAAAAAGTGTACCAAACAAGGTACTAGTAATACCTAAAGCTAATGCATGCATT
ATTTTCTCCAATACACTCTACCAAACGACCCCTTAGTCACCAATCGATCAATTGTTAGCAGTCT
TCCATGGCATTGCAAATTCGCAACCACATTGTGAATTTTGCGTTGGATTTTGCATAATTTTGAA
ACATTAACCCTCTCCAATTCATTCTTGGGTTATCTGGCAGTAGTTACGACTTACGAGTAGATCT
AGTGGATTAGATTTTTATGGGCTATGAACTGTGAACTTGTCCTTTAGGCACATTGAACTATCCC
AAGGTCTTCTTGTCCTTGGGTGGACCCTTACATACTTCAAGGCGAGAATAATTATACTCTTAAG
CTCATAATTTTTCTCACATTAATTATCAAAATTTATGGATCTTTACAGGTACACAGTGTCAAAA
GTTTGTAGAGGTTGGAATGCTGGATGGTTTTGGGAAGCTAGTTATCGCTCCTGCTGAGACTAAT
GGGTAAACAATACTTATGTTAGTTTTTGGTTATTGAATATATGTTTTTACATATGTTAAATTTA
ATGCAGGTTTTTTCCCTCCATCGAATCTATGAATGTGATTATGGATTCTATAAAGTCATTTTAT
CTTGATGCTTGGAGTTCCTGGGGCGAGATACCTGTCTTTGACAGAGAGCAGATGTGGAATCACT
TTAGGGTACAAATAAATCATTTCTTTATATTATTTATCAAATTACTTTTTTTTCATCTAATGTT
ATTAATTATTTGCAGACGAAGTGTGCATGGTATCCCGAACATGATTATAAGATGTTTTGTAATT
TTGAGCTAAATGCTATGTATATGTTTAACGATATCTTGGAGAGTGCTTTGGAAAAGAGTCAGAA
GCCCGATTGGATGCCAGAAGGTATATGGGCTAGTCTTGATGAAAAGCGGACCCCTGCAAAATTT
CAAAAGACGAGCATCGACGCAAAGGCACAACGGGCTTCCAACAAGGGTGACTCGTTGCACATCG
GGGGTTCAGCTAGTATGGGGACTCATCAAAGGAAATCGGTAACTTGTTTATTGAATTTTCCTTG
ATTTTTACTAAATGCTGTTGAACTTTAACCAAGTCATATTTTTTGTTTTGCAGGAAAAGAAAAA
GGGGAGAACTATGACTTATGATAAGGTCTTAGAGGAGAAACAGGTGAAAAAGAAAAAGGATGGT
CATGGTACTTTGGTGGAGCCACATGTTGAGAGGACAAATGT
						
					

			
		

Sequences
Splice junction sequence	GAACTATGACTTATGATAAGGTCTTAGAGGAGAAACAGGTGAAAAAGAAAAAGGATGGTCATGG TACTTTGGTGGAGCCACATGTTGAGAGGACAAATGTctgggtataaaaaaggcttggatgaatg gcgtcaaagtcaacctacttctgaggatgatagcttaacccaattgccagacgatgatgaagct tcaatatt
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	CTGGGTATAAAAAAGGCTTGGATGAATGGCGTCAAAGTCAACCTACTTCTGAGGATGATAGCTT AACCCAATTGCCAGACGATGATGAAGCTTCAATATTGTCGAAGAAGATTGGTGGATTAAAGAAA GGTAAAGCACGCGTCCTTGGATCAGAGCATTGCGTAGGCTGTGTCACGTTTGGATTTGCTTCTG CTTCTTTAAGTTCTGGGCAGAATCAGGAAGAGATAGATTCAGAGATAAAATCATTGCGGATACA AGTACAAGAGCTATTGAAAAAGCAAAAAGCAGACCGTTTAAGACTTGATGGACTGGAGAATCTA GTGGTTCAGCTCATAGACAATTGCCGATCTGAAGAGTCTGACAATGATGAGTCTGATGGAGAAA AATAGTTTGTTGTGCTTTTGATGTTGAAGCAATACTTGTTTGATTTCGTTTGGATATTACCTGA ATGGACCATTCAAGGTCTTTGGATGTTTTAGACTTGATTTTGTATGCTACTTGAATGGTGTTTT GGATGTTTTAGTTATAAACGTTTATGTTTAATTGTTCGAATTTTTGGAGATTTGATTGTTGGGC ACAAACCATTTATGTTATTAAGCATAAAAGAGAGTGGTGGAAAAAAAAGTGTGTCACGGAAGAT AAAACAGGATAAGTAACTATTATGTGAACATTAATAGTTAATCATTTTTCAAATTTTCTTCAAT AAGCTCGATAAGATGGAATTTTCTTAAGTTTAAACCTGATTTACCAATAAGAAATACTTAAAAC TTATTGCACAAATGACAAAATACCATAGACAAAAACTTTTCGCACTCTATATTTGTATCAAACC ACACTAAGTATCAAATAGCAAATTGTACTGAAGCCGAAGCACCTGCCCAGTTTAGTAAGTTTTC TCCACTGCATTACTAAGGAACAGAGGAAGAAGAATACTACTACCAAAATAAGCCATTTCAGAAG AACAACACCAAACAAAAAAAATCTTTTCGACATTCCAATGGAAAAAGTGCGCGAAAATCGACGC TGCATTTATAAGTCATTACCGACACAGATTTCCGACGGCAGCCGTCGCAAAACTTAAATATATA TTGGGAACAAAACCCTCATTTTTTCTCAATTATCACTTCCTCGCCTCACTTTTTTTCTCTACTC TTTCCTTGGCGATTCACCTCTTAGGACAGCCAAATAAAGCCGTCCAGTAGCGCCGCCGTTGACG GCAGCACCACCGCTCAGTCGAGGTAAGTGGATTTTTTCCTTCTTCCACAGTTTTTCTCCAGGTT TACTATTTGTATGAGATTTTGAATAGATCTGGATAGATATCACCATTTTCTTCAAAGGTCCGTG TAGAATTTTGCTTTGATTAAGTTTTGTTCTTCTTTCTGGGTGTTGCTCATATGAAAATATTAAC TTGAATCGTTATAGTCTCTCTGCTTTGACTACTTAACTTCCCAACTTTGTTTATTGTATTTAGC ATTAATGATTTTGGAACTTTGTTAATTTTATCTAACACAAAAGATATAACCATCTATGTATTCT TTTCGGGGGATTGAGCAGAAGATGTTTGATTACCCGGAAGGGTAGCTGAGTTCTTGTTCAAAAC CCCCGGCTTATTTATGATCAAATGTATCTATGAAGAACTTATCCTTCAGTCTTTACTTGTAGCT CAAATCAACAAGATTATGAGGAAGATACATCCATGCCACACAAGAATGGAGATTCAATTGATGA ACATAAAACAAGCGAGAAATAATTACTTGATGAAAATGAAACGAGCAATATAAAAAATTTAATG ATGAATTTAAAGCAAGGGAAAAATTAGTATGTTAGTTTTTTTATCTTCTTTAGTCATATAATAG GTTGAAGAAGTAACAACTTTATTAGTATTCTTAAATTATTATTATTTTTAACTATGCTTGTATT ATTCAGATGACATCTCAGGAGAATGATCGTCCACAAAGTGCTAGTGCAGTGAAACGTAAATCTA AGGGAAAGAAAAAAGTTTCTGAGACTACAGGTTACACTACCTCTCTACTTATATGCCTCTTACA TGTATACAGGAAGTCTTTTTGAATAACAATCATTTGAAATGATCATTAAAATCATGCATGACCA CAACCTTTAAATCAACATCTTTTCGATAAATGAAATGTTTTATACATGCATGTCATATGAGAAA TCATAAATTACAACGCAAAAAGAAAAACTATTGTCTATGGAACTTCTATAACGCATAGTGAAAT AGTCAACCAAGACAGGCTCTAGTACTCAAAAGAATGAAGTAAATGTCTTTCTAAGATGTGGAGA TCTTGCTCGAGCCTGAGTAAAGAATGAAGTAAATGTACTTAAAGATTCTGATATTTCTTTATGT CCACAAGGTATGAATGAATTTTGCTTATACCATTTCAATGCTTTTGCTATTTTGGTCTTCCCCT TTGCGTGTTGCATTGTCCATTGAAAGAAATTGGTCCAAGCAATTGGCGTAACATAACATAACTG TGATCAGTTGAGTAATTTGGTCAAGAAACACCTAGCATAATGACACTTAACAAATATATGATCC CTTGTTTCATCTTCCAGCTGGCAAAACATACATTTAGGAGTCGTTTGAGTGTATAAGAATAATG CAAAATATAGTGTATTAGTAATGCTTGTATTAGTTATGATTGCATTAGTTATGCTGAGATTTTT CTTATGTAGTGTTTGGTTTGATGTACTAAAAATATCATGCATTGCATAACTTTTTAAAAAAATA TATTTGTTTATAAAAATACCCTCCACAAATATAGTGGAGAGGATGTGGAGAAGTTTTTAAGGGA TAATTGTGCCTTTAATCTTGCCAATACATGCATTAGAACCCATTGCATTACAATGCATAGAAAT CCATGGTATTACTAATACACTCCTCAATACACAATAGAGTGTATTACTTATACAAACATTAGTT ATACATAGGTTGAAAAAGTGTACCAAACAAGGTACTAGTAATACCTAAAGCTAATGCATGCATT ATTTTCTCCAATACACTCTACCAAACGACCCCTTAGTCACCAATCGATCAATTGTTAGCAGTCT TCCATGGCATTGCAAATTCGCAACCACATTGTGAATTTTGCGTTGGATTTTGCATAATTTTGAA ACATTAACCCTCTCCAATTCATTCTTGGGTTATCTGGCAGTAGTTACGACTTACGAGTAGATCT AGTGGATTAGATTTTTATGGGCTATGAACTGTGAACTTGTCCTTTAGGCACATTGAACTATCCC AAGGTCTTCTTGTCCTTGGGTGGACCCTTACATACTTCAAGGCGAGAATAATTATACTCTTAAG CTCATAATTTTTCTCACATTAATTATCAAAATTTATGGATCTTTACAGGTACACAGTGTCAAAA GTTTGTAGAGGTTGGAATGCTGGATGGTTTTGGGAAGCTAGTTATCGCTCCTGCTGAGACTAAT GGGTAAACAATACTTATGTTAGTTTTTGGTTATTGAATATATGTTTTTACATATGTTAAATTTA ATGCAGGTTTTTTCCCTCCATCGAATCTATGAATGTGATTATGGATTCTATAAAGTCATTTTAT CTTGATGCTTGGAGTTCCTGGGGCGAGATACCTGTCTTTGACAGAGAGCAGATGTGGAATCACT TTAGGGTACAAATAAATCATTTCTTTATATTATTTATCAAATTACTTTTTTTTCATCTAATGTT ATTAATTATTTGCAGACGAAGTGTGCATGGTATCCCGAACATGATTATAAGATGTTTTGTAATT TTGAGCTAAATGCTATGTATATGTTTAACGATATCTTGGAGAGTGCTTTGGAAAAGAGTCAGAA GCCCGATTGGATGCCAGAAGGTATATGGGCTAGTCTTGATGAAAAGCGGACCCCTGCAAAATTT CAAAAGACGAGCATCGACGCAAAGGCACAACGGGCTTCCAACAAGGGTGACTCGTTGCACATCG GGGGTTCAGCTAGTATGGGGACTCATCAAAGGAAATCGGTAACTTGTTTATTGAATTTTCCTTG ATTTTTACTAAATGCTGTTGAACTTTAACCAAGTCATATTTTTTGTTTTGCAGGAAAAGAAAAA GGGGAGAACTATGACTTATGATAAGGTCTTAGAGGAGAAACAGGTGAAAAAGAAAAAGGATGGT CATGGTACTTTGGTGGAGCCACATGTTGAGAGGACAAATGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.096147082

Conservation Information
Conserved circRNAs	NA
PMCS	0.096147082

			
						 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 PGSC0003DMG400015225_circ_ig.2

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