Plant Circular RNA Database

Detail information of PGSC0003DMG400014627_circ_igg.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400014627_circ_igg.1
					
						ID in PlantcircBase
						stu_circ_000745
					
						Alias
						chr06:544976|548388
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr6: 544977-548388  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
						
							PGSC0003DMG400014627_circ_igg.2 						
					
						Support reads
						NA
					
						Tissues
						stem
					
						Exon boundary  
						
							No-Yes							"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	PGSC0003DMG400014627_circ_igg.1
ID in PlantcircBase	stu_circ_000745
Alias	chr06:544976\|548388
Organism	Solanum tuberosum
Position	chr6: 544977-548388 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	PGSC0003DMG400014627_circ_igg.2
Support reads	NA
Tissues	stem
Exon boundary	No-Yes "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  
						
							CATACTGACATGATTGCCATTTTTTTTGGGTCATTGGGTAAGAGTTGGGTCCCTTTGTCTGCAT
ATGTGTGAGCTATGTATTGTGTAATGGCTCTTGACTaaaaagcttgagatctccatcttcaaaa
gcaggaacttgaccaaatggctgaattaacaatcaaaagacaattataagtatatactctttaa
tttaaaat

									
								

					

						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
						
							AAAAAGCTTGAGATCTCCATCTTCAAAAGCAGGAACTTGACCAAATGGCTGAATTAACAATCAA
AAGACAATTATAAGTATATACTCTTTAATTTAAAATTTGATTAATGAGCAAGAATAAGGCTATC
AACATTCATTTAAACAGAAAGTCTATCGAAAATAACATCTCTACACCAAATTAAAGGTAAATAT
CCTCACCACCCCACTCGTGGAATCACACTAAATATATGTTATTATTGTTTATCTAAAGTCCCAA
TTAATACGAATTCACCCAATTAATATAAAAAATGAATCCATCGGTTACCAATTCATTTGAATCC
AATATTTTCGATACAAAATATACGTGGTGTATATTTTTCTTCTATATACATGATGCAATTTTTT
GACGAAGAGGATCTATTCAAGACATGTATATATAAAATAATAAATCAAATCTATTCGAAACCAA
CAACTGTTAGAGAAAAGGGGAAAATGAAAAAACAATGTTATGATACGATAGAATATTTTACTGA
ATATGCTATCGTTGTATTTACATACATTTAGGGAAATGAATGGTTCCCTCTTGTGATCACCATT
TTGCAAATCAACATGAATAAGTTCAAAATCAAGATTTTTCTCTTTGAGTGTAGCTACAACTCTC
ACAACAGCAGGTGACAACATAGGGCCATGAACCTTGATAGCCATTATTACTACTAAAAAATGAA
ATTTGTATGACAAAAAAATGTTGAGTGATGAGTTGAAAGCATGTGTTGGGTGTAGTATATATAA
TAGACCAATAATTAATGTTATTTGCACTTTTTAGGAGTAAGTAAAAAAAAAAAGAAATTTCTAG
AATATTATATTATTATGAAGAATATTACGTATGGGCCTACATCACATAATGATGTAATAAACTA
TGTCCAAATATATATAATAATAATAATAATAATAATAATAATATAAAGCTGAATTAAATTTGTA
ATAAATGATTTTTGTATTTAAGTATTAAATTATTAAGAGAAATTTTCAATAATTTATATATTTA
GAAATTAGCATAAGTATTATTAATAAAAATAATTAACAATTAAAATATTTTAAGAAATCATATA
AAAAATTTGCGGTCAAATAAAAATTTGATTTTAACTCCCAAAATTCATTTATGCTACATAAATT
AGAACATAGGAAGTAAAGACATTTTCAATAGTTAAAGAGGCATTTGAATAATATTGTATATTTA
TAAATTACATTAAAAGTATTATAATTACAATAGTTAACAACTTAAATTACTTTAAAAAATTGCA
TAGAAAAAAATTGATCAATTCTTGAAATCTATTTGTGATACATAAATTAGAACAAATAAATAAT
ACATATTGAATTTTTTGCCCTTGTTCGAATGATCAAGAATTTGAAAACCATTGTTTTTTCCCGA
AAAACAAGTAACTTAAAAATGAGAAAAAGTCTTTCATATTAAGAACATGAAAAGTAAATTCCAC
TAATGATGTTTCATATTAGTTATATCATCTCCATTCTTCAACACACTCCATCCACGCCCCACCA
TCTCACACCTCCAACAATAACAATAACATACGTAGTATATTCTCACAAATGTGGCTATATGAAG
AATATAATGTGTGTAAATCTTACCCTTATTTTTTAGGGAATAGTAACACTATTTTCAATAGATC
CTCAACTAAAAATAAAAGTATTAATAATAAGGCTAATTAGTACTTTCTTGTATAAATCAATATG
ACTCACATTCTTTTTTAATCTGTTTGGATAAAATGACACTTTTTTTTTATATTTAGTATAATTT
AATTTTAAAGTGATCATTTTTATTTTGATGAAACAATTTATAGTTACAAATATTTATTATTTAT
TTTAAATCACAAATTTTATAAATCTTTCTTTCTTTCTCAAAATTCATGTTAAATCAAATTACAT
AACTAAAACCAAGAAAGTAACAAACAAAGTTGAAAAGAGAAAAAGAGCAAGCTGACTAAAAAGG
GTTGATGTCACTTAACTGAGTGGTGGGTGCAATATTGATAGGGGCCACCGCAATGTATTGGTTC
TTTTGTTTAAGAATTTTTTATTTTGTCACAATTATAATTGAATGAACATTGACATAATGATTCA
GATTTAATAAAGGGCTCCAATATGGGCTCTGGACACTGAGTGAAAAATTTATAGATTGAGAGTT
CGGTAAAAGCTAATATGTCACAATTTTACTCGAATTTTTATAAGGTAAAAGACACTATTTTCGA
TTGATAATTCACAATCTCTTTTTTTATTTAGACTTAGATCAGACAATGTGAAACTCAAAAAAAA
AAAGAAAAAAAAAAAAGAGTACCTTAAATTCACATTTAAATAATATTTGGAAATTATTTTTTCA
TAAAGAATTATATGTGGGCATTAAAGTTTGAGCACGTGGCGTTGAGTGTGATTGATTGTTGCAA
TGTCCAAACTTAATAATAGTGGTCACTTTTAAAAAGTTGGCCTTATAGCCATTTAAAATAATAT
CCCAAAACTATTGCATTTGAGTTTAATTTAATTTGTTGCATTTTGAAAATGACATTCGAAATGA
TGCTTCAATTGCGTTATAAGTAGAAGGAGCTGGTACAAAATCTTCTTATATAAGGCTCGAAAAA
TTAATCTAAGATCGCTATAGAAAGGAAAATCGAAGTCACAAAATGAACCTACTACAAGAGATTC
ATTGTCACAATTTCAAAAGAGTATTAAGTCGATACAATTCACACACACGAAGAATTCAATAAGA
GAGAACGTCTTACGATACAAGAAAGATAGGAAGAAAAAAAAGAGTGCACCACAAAGCAAAAAAT
TACAAAAGTGTTACTTATGGCCTAAATTTATTAACCTACTAGTAATACATAGGCCATATTTTGC
TCCTCAGCCTACGAGGTATTAGCAGCCGTTTCCAACTGTTGTTGCCCCTTCCTTCCAATGCGTT
ACTCACCCATCCGCCACAAATCTTACTGTTTTGACAACTCAAGTGTCTTACACCAAGCTGGCCT
AGCCAAAATATCAGCACACCAAGCACTAACATGAGGCCTAGCATCGAACAAGCTCTTCACTTTA
CTCCCCATCAAGTAGTGCAAAGACGGGGCGTGGTGCAAATCAGCTAGGGTAAAACTCTCACCAC
CCAAATATTTCGATTCCTTGAGTCTAGATTCATACACATCAAGAAGTTTCCCGAGTTTCTCTTC
GTTCTCTGCCACGACTGCATCATCAGTCACCATGCCCAACATTGGCTTAATCACAATCTCAAAG
CCTAGTTTTGAACCAATGGGGTCGAATTTCTGGGCTTCTACTTCCATCCATACTGACATGATTG
CCATTTTTTTTGGGTCATTGGGTAAGAGTTGGGTCCCTTTGTCTGCATATGTGTGAGCTATGTA
TTGTGTAATGGCTCTTGACT
						
					

			
		

Sequences
Splice junction sequence	CATACTGACATGATTGCCATTTTTTTTGGGTCATTGGGTAAGAGTTGGGTCCCTTTGTCTGCAT ATGTGTGAGCTATGTATTGTGTAATGGCTCTTGACTaaaaagcttgagatctccatcttcaaaa gcaggaacttgaccaaatggctgaattaacaatcaaaagacaattataagtatatactctttaa tttaaaat
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	AAAAAGCTTGAGATCTCCATCTTCAAAAGCAGGAACTTGACCAAATGGCTGAATTAACAATCAA AAGACAATTATAAGTATATACTCTTTAATTTAAAATTTGATTAATGAGCAAGAATAAGGCTATC AACATTCATTTAAACAGAAAGTCTATCGAAAATAACATCTCTACACCAAATTAAAGGTAAATAT CCTCACCACCCCACTCGTGGAATCACACTAAATATATGTTATTATTGTTTATCTAAAGTCCCAA TTAATACGAATTCACCCAATTAATATAAAAAATGAATCCATCGGTTACCAATTCATTTGAATCC AATATTTTCGATACAAAATATACGTGGTGTATATTTTTCTTCTATATACATGATGCAATTTTTT GACGAAGAGGATCTATTCAAGACATGTATATATAAAATAATAAATCAAATCTATTCGAAACCAA CAACTGTTAGAGAAAAGGGGAAAATGAAAAAACAATGTTATGATACGATAGAATATTTTACTGA ATATGCTATCGTTGTATTTACATACATTTAGGGAAATGAATGGTTCCCTCTTGTGATCACCATT TTGCAAATCAACATGAATAAGTTCAAAATCAAGATTTTTCTCTTTGAGTGTAGCTACAACTCTC ACAACAGCAGGTGACAACATAGGGCCATGAACCTTGATAGCCATTATTACTACTAAAAAATGAA ATTTGTATGACAAAAAAATGTTGAGTGATGAGTTGAAAGCATGTGTTGGGTGTAGTATATATAA TAGACCAATAATTAATGTTATTTGCACTTTTTAGGAGTAAGTAAAAAAAAAAAGAAATTTCTAG AATATTATATTATTATGAAGAATATTACGTATGGGCCTACATCACATAATGATGTAATAAACTA TGTCCAAATATATATAATAATAATAATAATAATAATAATAATATAAAGCTGAATTAAATTTGTA ATAAATGATTTTTGTATTTAAGTATTAAATTATTAAGAGAAATTTTCAATAATTTATATATTTA GAAATTAGCATAAGTATTATTAATAAAAATAATTAACAATTAAAATATTTTAAGAAATCATATA AAAAATTTGCGGTCAAATAAAAATTTGATTTTAACTCCCAAAATTCATTTATGCTACATAAATT AGAACATAGGAAGTAAAGACATTTTCAATAGTTAAAGAGGCATTTGAATAATATTGTATATTTA TAAATTACATTAAAAGTATTATAATTACAATAGTTAACAACTTAAATTACTTTAAAAAATTGCA TAGAAAAAAATTGATCAATTCTTGAAATCTATTTGTGATACATAAATTAGAACAAATAAATAAT ACATATTGAATTTTTTGCCCTTGTTCGAATGATCAAGAATTTGAAAACCATTGTTTTTTCCCGA AAAACAAGTAACTTAAAAATGAGAAAAAGTCTTTCATATTAAGAACATGAAAAGTAAATTCCAC TAATGATGTTTCATATTAGTTATATCATCTCCATTCTTCAACACACTCCATCCACGCCCCACCA TCTCACACCTCCAACAATAACAATAACATACGTAGTATATTCTCACAAATGTGGCTATATGAAG AATATAATGTGTGTAAATCTTACCCTTATTTTTTAGGGAATAGTAACACTATTTTCAATAGATC CTCAACTAAAAATAAAAGTATTAATAATAAGGCTAATTAGTACTTTCTTGTATAAATCAATATG ACTCACATTCTTTTTTAATCTGTTTGGATAAAATGACACTTTTTTTTTATATTTAGTATAATTT AATTTTAAAGTGATCATTTTTATTTTGATGAAACAATTTATAGTTACAAATATTTATTATTTAT TTTAAATCACAAATTTTATAAATCTTTCTTTCTTTCTCAAAATTCATGTTAAATCAAATTACAT AACTAAAACCAAGAAAGTAACAAACAAAGTTGAAAAGAGAAAAAGAGCAAGCTGACTAAAAAGG GTTGATGTCACTTAACTGAGTGGTGGGTGCAATATTGATAGGGGCCACCGCAATGTATTGGTTC TTTTGTTTAAGAATTTTTTATTTTGTCACAATTATAATTGAATGAACATTGACATAATGATTCA GATTTAATAAAGGGCTCCAATATGGGCTCTGGACACTGAGTGAAAAATTTATAGATTGAGAGTT CGGTAAAAGCTAATATGTCACAATTTTACTCGAATTTTTATAAGGTAAAAGACACTATTTTCGA TTGATAATTCACAATCTCTTTTTTTATTTAGACTTAGATCAGACAATGTGAAACTCAAAAAAAA AAAGAAAAAAAAAAAAGAGTACCTTAAATTCACATTTAAATAATATTTGGAAATTATTTTTTCA TAAAGAATTATATGTGGGCATTAAAGTTTGAGCACGTGGCGTTGAGTGTGATTGATTGTTGCAA TGTCCAAACTTAATAATAGTGGTCACTTTTAAAAAGTTGGCCTTATAGCCATTTAAAATAATAT CCCAAAACTATTGCATTTGAGTTTAATTTAATTTGTTGCATTTTGAAAATGACATTCGAAATGA TGCTTCAATTGCGTTATAAGTAGAAGGAGCTGGTACAAAATCTTCTTATATAAGGCTCGAAAAA TTAATCTAAGATCGCTATAGAAAGGAAAATCGAAGTCACAAAATGAACCTACTACAAGAGATTC ATTGTCACAATTTCAAAAGAGTATTAAGTCGATACAATTCACACACACGAAGAATTCAATAAGA GAGAACGTCTTACGATACAAGAAAGATAGGAAGAAAAAAAAGAGTGCACCACAAAGCAAAAAAT TACAAAAGTGTTACTTATGGCCTAAATTTATTAACCTACTAGTAATACATAGGCCATATTTTGC TCCTCAGCCTACGAGGTATTAGCAGCCGTTTCCAACTGTTGTTGCCCCTTCCTTCCAATGCGTT ACTCACCCATCCGCCACAAATCTTACTGTTTTGACAACTCAAGTGTCTTACACCAAGCTGGCCT AGCCAAAATATCAGCACACCAAGCACTAACATGAGGCCTAGCATCGAACAAGCTCTTCACTTTA CTCCCCATCAAGTAGTGCAAAGACGGGGCGTGGTGCAAATCAGCTAGGGTAAAACTCTCACCAC CCAAATATTTCGATTCCTTGAGTCTAGATTCATACACATCAAGAAGTTTCCCGAGTTTCTCTTC GTTCTCTGCCACGACTGCATCATCAGTCACCATGCCCAACATTGGCTTAATCACAATCTCAAAG CCTAGTTTTGAACCAATGGGGTCGAATTTCTGGGCTTCTACTTCCATCCATACTGACATGATTG CCATTTTTTTTGGGTCATTGGGTAAGAGTTGGGTCCCTTTGTCTGCATATGTGTGAGCTATGTA TTGTGTAATGGCTCTTGACT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.647590358

Conservation Information
Conserved circRNAs	NA
PMCS	0.647590358

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							stu-miR1886g-3p 						
					
						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-miR1886g-3p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhou et al., 2018

circRNA

Detail information of PGSC0003DMG400014627_circ_igg.1

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