Plant Circular RNA Database

Detail information of PGSC0003DMG400014627_circ_igg.2

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400014627_circ_igg.2
					
						ID in PlantcircBase
						stu_circ_000746
					
						Alias
						chr06:545514|548908
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr6: 545515-548908  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.1 						
					
						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-CA							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.2
ID in PlantcircBase	stu_circ_000746
Alias	chr06:545514\|548908
Organism	Solanum tuberosum
Position	chr6: 545515-548908 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.1
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-CA 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  
						
							TTAAAGACACATGTCCCTCAACCTTTAGGCATAGATTAAGGGGGAACTTACCAAAAAGCTTGAG
ATCTCCATCTTCAAAAGCTGGAACTTGACCAAATGGtttagggaaatgaatggttccctcttgt
gatcaccattttgcaaatcaacatgaataagttcaaaatcaagatttttctctttgagtgtagc
tacaactc

									
								

					

						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
						
							TTTAGGGAAATGAATGGTTCCCTCTTGTGATCACCATTTTGCAAATCAACATGAATAAGTTCAA
AATCAAGATTTTTCTCTTTGAGTGTAGCTACAACTCTCACAACAGCAGGTGACAACATAGGGCC
ATGAACCTTGATAGCCATTATTACTACTAAAAAATGAAATTTGTATGACAAAAAAATGTTGAGT
GATGAGTTGAAAGCATGTGTTGGGTGTAGTATATATAATAGACCAATAATTAATGTTATTTGCA
CTTTTTAGGAGTAAGTAAAAAAAAAAAGAAATTTCTAGAATATTATATTATTATGAAGAATATT
ACGTATGGGCCTACATCACATAATGATGTAATAAACTATGTCCAAATATATATAATAATAATAA
TAATAATAATAATAATATAAAGCTGAATTAAATTTGTAATAAATGATTTTTGTATTTAAGTATT
AAATTATTAAGAGAAATTTTCAATAATTTATATATTTAGAAATTAGCATAAGTATTATTAATAA
AAATAATTAACAATTAAAATATTTTAAGAAATCATATAAAAAATTTGCGGTCAAATAAAAATTT
GATTTTAACTCCCAAAATTCATTTATGCTACATAAATTAGAACATAGGAAGTAAAGACATTTTC
AATAGTTAAAGAGGCATTTGAATAATATTGTATATTTATAAATTACATTAAAAGTATTATAATT
ACAATAGTTAACAACTTAAATTACTTTAAAAAATTGCATAGAAAAAAATTGATCAATTCTTGAA
ATCTATTTGTGATACATAAATTAGAACAAATAAATAATACATATTGAATTTTTTGCCCTTGTTC
GAATGATCAAGAATTTGAAAACCATTGTTTTTTCCCGAAAAACAAGTAACTTAAAAATGAGAAA
AAGTCTTTCATATTAAGAACATGAAAAGTAAATTCCACTAATGATGTTTCATATTAGTTATATC
ATCTCCATTCTTCAACACACTCCATCCACGCCCCACCATCTCACACCTCCAACAATAACAATAA
CATACGTAGTATATTCTCACAAATGTGGCTATATGAAGAATATAATGTGTGTAAATCTTACCCT
TATTTTTTAGGGAATAGTAACACTATTTTCAATAGATCCTCAACTAAAAATAAAAGTATTAATA
ATAAGGCTAATTAGTACTTTCTTGTATAAATCAATATGACTCACATTCTTTTTTAATCTGTTTG
GATAAAATGACACTTTTTTTTTATATTTAGTATAATTTAATTTTAAAGTGATCATTTTTATTTT
GATGAAACAATTTATAGTTACAAATATTTATTATTTATTTTAAATCACAAATTTTATAAATCTT
TCTTTCTTTCTCAAAATTCATGTTAAATCAAATTACATAACTAAAACCAAGAAAGTAACAAACA
AAGTTGAAAAGAGAAAAAGAGCAAGCTGACTAAAAAGGGTTGATGTCACTTAACTGAGTGGTGG
GTGCAATATTGATAGGGGCCACCGCAATGTATTGGTTCTTTTGTTTAAGAATTTTTTATTTTGT
CACAATTATAATTGAATGAACATTGACATAATGATTCAGATTTAATAAAGGGCTCCAATATGGG
CTCTGGACACTGAGTGAAAAATTTATAGATTGAGAGTTCGGTAAAAGCTAATATGTCACAATTT
TACTCGAATTTTTATAAGGTAAAAGACACTATTTTCGATTGATAATTCACAATCTCTTTTTTTA
TTTAGACTTAGATCAGACAATGTGAAACTCAAAAAAAAAAAGAAAAAAAAAAAAGAGTACCTTA
AATTCACATTTAAATAATATTTGGAAATTATTTTTTCATAAAGAATTATATGTGGGCATTAAAG
TTTGAGCACGTGGCGTTGAGTGTGATTGATTGTTGCAATGTCCAAACTTAATAATAGTGGTCAC
TTTTAAAAAGTTGGCCTTATAGCCATTTAAAATAATATCCCAAAACTATTGCATTTGAGTTTAA
TTTAATTTGTTGCATTTTGAAAATGACATTCGAAATGATGCTTCAATTGCGTTATAAGTAGAAG
GAGCTGGTACAAAATCTTCTTATATAAGGCTCGAAAAATTAATCTAAGATCGCTATAGAAAGGA
AAATCGAAGTCACAAAATGAACCTACTACAAGAGATTCATTGTCACAATTTCAAAAGAGTATTA
AGTCGATACAATTCACACACACGAAGAATTCAATAAGAGAGAACGTCTTACGATACAAGAAAGA
TAGGAAGAAAAAAAAGAGTGCACCACAAAGCAAAAAATTACAAAAGTGTTACTTATGGCCTAAA
TTTATTAACCTACTAGTAATACATAGGCCATATTTTGCTCCTCAGCCTACGAGGTATTAGCAGC
CGTTTCCAACTGTTGTTGCCCCTTCCTTCCAATGCGTTACTCACCCATCCGCCACAAATCTTAC
TGTTTTGACAACTCAAGTGTCTTACACCAAGCTGGCCTAGCCAAAATATCAGCACACCAAGCAC
TAACATGAGGCCTAGCATCGAACAAGCTCTTCACTTTACTCCCCATCAAGTAGTGCAAAGACGG
GGCGTGGTGCAAATCAGCTAGGGTAAAACTCTCACCACCCAAATATTTCGATTCCTTGAGTCTA
GATTCATACACATCAAGAAGTTTCCCGAGTTTCTCTTCGTTCTCTGCCACGACTGCATCATCAG
TCACCATGCCCAACATTGGCTTAATCACAATCTCAAAGCCTAGTTTTGAACCAATGGGGTCGAA
TTTCTGGGCTTCTACTTCCATCCATACTGACATGATTGCCATTTTTTTTGGGTCATTGGGTAAG
AGTTGGGTCCCTTTGTCTGCATATGTGTGAGCTATGTATTGTGTAATGGCTCTTGACTCTGCAT
TCACAATAATTCATATATCAAAACCAAAGAAAGAAGTGTGTTTCAAGTGAATTCAATATTAATT
ATGTGATGATTTTCATTGAATTGGGGAAAGATTTCATGGTACTTATATGCCAAGCATCTATCGG
AAACAACCTCTCTATCTTCAAATCAACAAAAATCAACAAGGTAGAAGGTCAAGTTAAATTTTGA
ACCACTCAACGACTAAGTCAACCACTAATCTTACATTCAGGAGGTTCAAATCAATATACACACA
TAAAATAATTAAAAAATATCCCATATATATAATGTAATTTTTTGCCAAACGACTACCTCTTAGC
CATTCCTGATCCTAAAAGGATATGTCCGGTCTTCTATTGTTCTTCATTTAAATACTAGACATAG
TTCACTTGGCGTAGGGATCGAACTTGTGAGTTAAAGACACATGTCCCTCAACCTTTAGGCATAG
ATTAAGGGGGAACTTACCAAAAAGCTTGAGATCTCCATCTTCAAAAGCTGGAACTTGACCAAAT
GG
						
					

			
		

Sequences
Splice junction sequence	TTAAAGACACATGTCCCTCAACCTTTAGGCATAGATTAAGGGGGAACTTACCAAAAAGCTTGAG ATCTCCATCTTCAAAAGCTGGAACTTGACCAAATGGtttagggaaatgaatggttccctcttgt gatcaccattttgcaaatcaacatgaataagttcaaaatcaagatttttctctttgagtgtagc tacaactc
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	TTTAGGGAAATGAATGGTTCCCTCTTGTGATCACCATTTTGCAAATCAACATGAATAAGTTCAA AATCAAGATTTTTCTCTTTGAGTGTAGCTACAACTCTCACAACAGCAGGTGACAACATAGGGCC ATGAACCTTGATAGCCATTATTACTACTAAAAAATGAAATTTGTATGACAAAAAAATGTTGAGT GATGAGTTGAAAGCATGTGTTGGGTGTAGTATATATAATAGACCAATAATTAATGTTATTTGCA CTTTTTAGGAGTAAGTAAAAAAAAAAAGAAATTTCTAGAATATTATATTATTATGAAGAATATT ACGTATGGGCCTACATCACATAATGATGTAATAAACTATGTCCAAATATATATAATAATAATAA TAATAATAATAATAATATAAAGCTGAATTAAATTTGTAATAAATGATTTTTGTATTTAAGTATT AAATTATTAAGAGAAATTTTCAATAATTTATATATTTAGAAATTAGCATAAGTATTATTAATAA AAATAATTAACAATTAAAATATTTTAAGAAATCATATAAAAAATTTGCGGTCAAATAAAAATTT GATTTTAACTCCCAAAATTCATTTATGCTACATAAATTAGAACATAGGAAGTAAAGACATTTTC AATAGTTAAAGAGGCATTTGAATAATATTGTATATTTATAAATTACATTAAAAGTATTATAATT ACAATAGTTAACAACTTAAATTACTTTAAAAAATTGCATAGAAAAAAATTGATCAATTCTTGAA ATCTATTTGTGATACATAAATTAGAACAAATAAATAATACATATTGAATTTTTTGCCCTTGTTC GAATGATCAAGAATTTGAAAACCATTGTTTTTTCCCGAAAAACAAGTAACTTAAAAATGAGAAA AAGTCTTTCATATTAAGAACATGAAAAGTAAATTCCACTAATGATGTTTCATATTAGTTATATC ATCTCCATTCTTCAACACACTCCATCCACGCCCCACCATCTCACACCTCCAACAATAACAATAA CATACGTAGTATATTCTCACAAATGTGGCTATATGAAGAATATAATGTGTGTAAATCTTACCCT TATTTTTTAGGGAATAGTAACACTATTTTCAATAGATCCTCAACTAAAAATAAAAGTATTAATA ATAAGGCTAATTAGTACTTTCTTGTATAAATCAATATGACTCACATTCTTTTTTAATCTGTTTG GATAAAATGACACTTTTTTTTTATATTTAGTATAATTTAATTTTAAAGTGATCATTTTTATTTT GATGAAACAATTTATAGTTACAAATATTTATTATTTATTTTAAATCACAAATTTTATAAATCTT TCTTTCTTTCTCAAAATTCATGTTAAATCAAATTACATAACTAAAACCAAGAAAGTAACAAACA AAGTTGAAAAGAGAAAAAGAGCAAGCTGACTAAAAAGGGTTGATGTCACTTAACTGAGTGGTGG GTGCAATATTGATAGGGGCCACCGCAATGTATTGGTTCTTTTGTTTAAGAATTTTTTATTTTGT CACAATTATAATTGAATGAACATTGACATAATGATTCAGATTTAATAAAGGGCTCCAATATGGG CTCTGGACACTGAGTGAAAAATTTATAGATTGAGAGTTCGGTAAAAGCTAATATGTCACAATTT TACTCGAATTTTTATAAGGTAAAAGACACTATTTTCGATTGATAATTCACAATCTCTTTTTTTA TTTAGACTTAGATCAGACAATGTGAAACTCAAAAAAAAAAAGAAAAAAAAAAAAGAGTACCTTA AATTCACATTTAAATAATATTTGGAAATTATTTTTTCATAAAGAATTATATGTGGGCATTAAAG TTTGAGCACGTGGCGTTGAGTGTGATTGATTGTTGCAATGTCCAAACTTAATAATAGTGGTCAC TTTTAAAAAGTTGGCCTTATAGCCATTTAAAATAATATCCCAAAACTATTGCATTTGAGTTTAA TTTAATTTGTTGCATTTTGAAAATGACATTCGAAATGATGCTTCAATTGCGTTATAAGTAGAAG GAGCTGGTACAAAATCTTCTTATATAAGGCTCGAAAAATTAATCTAAGATCGCTATAGAAAGGA AAATCGAAGTCACAAAATGAACCTACTACAAGAGATTCATTGTCACAATTTCAAAAGAGTATTA AGTCGATACAATTCACACACACGAAGAATTCAATAAGAGAGAACGTCTTACGATACAAGAAAGA TAGGAAGAAAAAAAAGAGTGCACCACAAAGCAAAAAATTACAAAAGTGTTACTTATGGCCTAAA TTTATTAACCTACTAGTAATACATAGGCCATATTTTGCTCCTCAGCCTACGAGGTATTAGCAGC CGTTTCCAACTGTTGTTGCCCCTTCCTTCCAATGCGTTACTCACCCATCCGCCACAAATCTTAC TGTTTTGACAACTCAAGTGTCTTACACCAAGCTGGCCTAGCCAAAATATCAGCACACCAAGCAC TAACATGAGGCCTAGCATCGAACAAGCTCTTCACTTTACTCCCCATCAAGTAGTGCAAAGACGG GGCGTGGTGCAAATCAGCTAGGGTAAAACTCTCACCACCCAAATATTTCGATTCCTTGAGTCTA GATTCATACACATCAAGAAGTTTCCCGAGTTTCTCTTCGTTCTCTGCCACGACTGCATCATCAG TCACCATGCCCAACATTGGCTTAATCACAATCTCAAAGCCTAGTTTTGAACCAATGGGGTCGAA TTTCTGGGCTTCTACTTCCATCCATACTGACATGATTGCCATTTTTTTTGGGTCATTGGGTAAG AGTTGGGTCCCTTTGTCTGCATATGTGTGAGCTATGTATTGTGTAATGGCTCTTGACTCTGCAT TCACAATAATTCATATATCAAAACCAAAGAAAGAAGTGTGTTTCAAGTGAATTCAATATTAATT ATGTGATGATTTTCATTGAATTGGGGAAAGATTTCATGGTACTTATATGCCAAGCATCTATCGG AAACAACCTCTCTATCTTCAAATCAACAAAAATCAACAAGGTAGAAGGTCAAGTTAAATTTTGA ACCACTCAACGACTAAGTCAACCACTAATCTTACATTCAGGAGGTTCAAATCAATATACACACA TAAAATAATTAAAAAATATCCCATATATATAATGTAATTTTTTGCCAAACGACTACCTCTTAGC CATTCCTGATCCTAAAAGGATATGTCCGGTCTTCTATTGTTCTTCATTTAAATACTAGACATAG TTCACTTGGCGTAGGGATCGAACTTGTGAGTTAAAGACACATGTCCCTCAACCTTTAGGCATAG ATTAAGGGGGAACTTACCAAAAAGCTTGAGATCTCCATCTTCAAAAGCTGGAACTTGACCAAAT GG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.116797253

Conservation Information
Conserved circRNAs	NA
PMCS	0.116797253

			
						 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.2

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