Plant Circular RNA Database

Detail information of PGSC0003DMG400007243_circ_g.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400007243_circ_g.1
					
						ID in PlantcircBase
						stu_circ_000272
					
						Alias
						chr02:30931870|30934895
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr2: 30931871-30934895  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							PGSC0003DMG400007243						
					
						Parent gene annotation
						
							Protein kinase-coding resistance protein
							
						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  
						
							GT-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
						PGSC0003DMT400018699:1
PGSC0003DMT400018698:1

General Information
CircRNA Name	PGSC0003DMG400007243_circ_g.1
ID in PlantcircBase	stu_circ_000272
Alias	chr02:30931870\|30934895
Organism	Solanum tuberosum
Position	chr2: 30931871-30934895 JBrowse»
Reference genome	3.0.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	PGSC0003DMG400007243
Parent gene annotation	Protein kinase-coding resistance protein
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	GT-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	PGSC0003DMT400018699:1 PGSC0003DMT400018698:1

			
						 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  
						
							TTTCATATCTGCTGGAAGAGCATGCGGCTGAAGTTCCTTTCTGTTGGAAGATTGCTGGGATGAT
GATTTCAAGAACCTCTGCATGAAGTATGAAAAAGAGaccaaggaatgaggttgtccagccacaa
actctctgatttgagatcttgaagtcccagatagaaaccaactaggatcttgtagctgatctta
ataccaat

									
								

					

						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
						
							ACCAAGGAATGAGGTTGTCCAGCCACAAACTCTCTGATTTGAGATCTTGAAGTCCCAGATAGAA
ACCAACTAGGATCTTGTAGCTGATCTTAATACCAATTTTCCAGACGCGAACTTCACATTTATAA
ATATATACAGCATTTCATCATTCCTCGGTATGTACTCAAATAACATCATTTTGTGACTTGTAAC
ATGATTGGATTGGCTATTTTTGCTCGTCTTATTTCAGAGCCCATTAATGTGTTGAATCGTCCAT
GCTGTAAAGTTTTGGAAACGATGCCTGAAGGACAATGTGTTCCTGGAGAAACTCCATGCTTGCG
TAGGAAGAATTTATCTTTTCTATGATAATTTTCATCCAACAGAGAGGCCGAGTAAAGTTCATGT
GTTTCACCATTTGATTGATTACGTTTAATAAGTTTTACTTATGATCTTCCCATTTAGGGAGTTT
CGGATTTTGTTTCTTAGATTGATTTATTAATTGTACACCTACAATATATTTAGCTCTTAGTCTT
GGAATAATACATTCAATGAGGAAATTATTGTCTCTACATTTTACATTTCCTAAGCCATGAATGA
CTAGAAACAGCTCGAGCCTAATGACAACAACTTTACCAATTACGTTAATACTCTCCTTCTTAAG
CTAGAGTCAAAGGATTAAAAGGCACCATTGTTTGTTAAAAGGGTCATGCGTATTATAAAGAAAG
TTTGTTCCTCTCATCCTCTTCTTCTATTTGTGTGATTTCTGGTCTTCATCCTCCCCTGTTATCT
TTTCGATTTCCTTTTACGACTGATATTATTTTCTTGTAGTTGTAATTTGTGTTCTCAGTATTAT
AATACATATCATTGTGGTGTTGGTAATTTGAGTTGGTACATGTTTCTTTCTTGATCTTCATCCT
CCCCTGCTCATATTGATCTTTGAATGAGATCTTTTTGAAGTGAAAATATAAGCAAATTTATGTT
ATAACATATTTCTTGGAGTAAATTTGAAAGATTTTGAGAAATGGAGAGCCTTAATTAAAAATAC
AAGTAAAAAATCCTCAGCTTTTCAGGGTCGACCTATTTTTGGGTTCAAAACCAATCACTTGAAC
TTGACTGCAACTAGTAGAATTTTTTTTTATTCCTTTGCTCTTCTAATTTCTATTCGTTATCGCT
AACTGCATGAAGCAGCAAGTATTGATCACTAATTATCGTATTCTGTGTATCTTGAGAAATGAGA
TTATTTTTGTTCGGAGATCATCTCCTCTCTTAAGGAATGCTCCGATTTATTTTTCCAGTTACAT
CTTTAAACAGAGTATCGTTTTTCTATTTTTTCCTATCTTCTTTTGAGTAATGCTAATTTTTCTG
GACCTGTTCCTTTCAGTCAGGGATGCAACAACCCGAATCTGAAAAGTTAATCATGTGGCACTTA
TATACTTTGAATGGCAGAGCCTTGAAACAACTAGTTAAGGAAACTGGATACCGCAGCAACAGAG
ATGTTAATGGTCAAATAGCAAAATTACAAAAAACACTGATGAGTAAAAACAGTTGAAGATTATA
ATGTAAATGCTAAAAGAAATGGTCTTAATAAAAACACTTGAAGATTATGATGAATAAGCTAAAA
CCTGGTCAAAATCTATGAGTAACCACCTCTAGTAGTCTTAGCATGGTGTTAAGGGAATAGTAAG
AGGACTGATGAGTAAGTCTTTTACATGCAAGGACTACGTATTGTTATTTATACACGAGAGCATG
TTTTCCTTTCTATATGCTGGTAAATACTATGGCTACTTTATAATCACTTCTCTAGCATAACTTC
TCATTTTTCTGGAAGTCGTATTGGATATCGGCACTTTAAGGTATGGTTACTTCTTTTATCACTA
AAGTATTGGTTCTGCAAATGGAGAATTCTCAAGGCTTCAGGAAAAGTTTACCACACTAAAAAGT
AACCTTTTAGAACGGAACTACTACTGCCAAATGAATTCTTCTGATTCCAGCAAAAAATGATTTT
ACCTCTCATCTGTTTTTTTTCATCATAGCATGAATGTTTTTCTTGATTCATGGACTAAATAATG
CAGGTGATTCAACATAGAATACTACCACTACCTTTCATTGCAAAAGAAGATTTCTTTACTTTCA
ACATTAAGTCAACTGCCAACAACTCTTGCTTTATCTGAAAGGTTTGGGTAAATCTCAACTTGGA
ATCTGTCTGTTTTGAGGTTCCAGTTACTTTCCTCACTGGGGTAATGCAAGTCATAATCTTGGAG
GATGAGTATAGGAGTATATATTTAGGTGCAAACAAATGCATTCGCCTATTCTGTTATTCTATGT
TTTGCACTTGTAGCACACTATTACTAGCAAGTTGCTGTCATCTAATGCTTGCTTCAGTTTCAAC
CTTAATTTTAAGGAGCTGGGTAAGCCTTTGATCTCCTAATGAGTACTTGAATAGGATCTTCTAA
CATTTTTGGCGCTTGATATCAAGAAAACTAGATTATCTAGCTAGTTGTCAAAAATAAATAAATA
AATAAAGAACCTCTAGCTAAGGTAGGATCCTTTTTGTATTGCCAAGTTAGAATCTCCTTTGTAT
TCGACAAATCAATGTCATTAAATGGAATTGCTGTGTGTTCAAATGAATGACATTGTGAGTATGT
TGAGTGTTTCTGTGCCTGTTTAGAATTCTAAAGTGCAGAGGTGAAAGTCTTCTTTTTAATTTTT
TTCTTACCATGTATGCTGCATATACATGCTTTGTGCTGTCTATCTTGAGACATGCTGCTAAACT
TGAATTTCTGGGTTCAAGGAAGAACCACGGAAAGGTTTGGTTGATATGTGTATGTGTGTGTACG
CATATATAATGTCACAGAAATTCTGATCTGCTAGTTCTAAGCATTTCTGTTCTCCTTTCACATA
CAAGGCTTACATATACTCGGCAATTCAACTAGACATCACTAAGATTTTCATATCTGCTGGAAGA
GCATGCGGCTGAAGTTCCTTTCTGTTGGAAGATTGCTGGGATGATGATTTCAAGAACCTCTGCA
TGAAGTATGAAAAAGAG
						
					

			
		

Sequences
Splice junction sequence	TTTCATATCTGCTGGAAGAGCATGCGGCTGAAGTTCCTTTCTGTTGGAAGATTGCTGGGATGAT GATTTCAAGAACCTCTGCATGAAGTATGAAAAAGAGaccaaggaatgaggttgtccagccacaa actctctgatttgagatcttgaagtcccagatagaaaccaactaggatcttgtagctgatctta ataccaat
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	ACCAAGGAATGAGGTTGTCCAGCCACAAACTCTCTGATTTGAGATCTTGAAGTCCCAGATAGAA ACCAACTAGGATCTTGTAGCTGATCTTAATACCAATTTTCCAGACGCGAACTTCACATTTATAA ATATATACAGCATTTCATCATTCCTCGGTATGTACTCAAATAACATCATTTTGTGACTTGTAAC ATGATTGGATTGGCTATTTTTGCTCGTCTTATTTCAGAGCCCATTAATGTGTTGAATCGTCCAT GCTGTAAAGTTTTGGAAACGATGCCTGAAGGACAATGTGTTCCTGGAGAAACTCCATGCTTGCG TAGGAAGAATTTATCTTTTCTATGATAATTTTCATCCAACAGAGAGGCCGAGTAAAGTTCATGT GTTTCACCATTTGATTGATTACGTTTAATAAGTTTTACTTATGATCTTCCCATTTAGGGAGTTT CGGATTTTGTTTCTTAGATTGATTTATTAATTGTACACCTACAATATATTTAGCTCTTAGTCTT GGAATAATACATTCAATGAGGAAATTATTGTCTCTACATTTTACATTTCCTAAGCCATGAATGA CTAGAAACAGCTCGAGCCTAATGACAACAACTTTACCAATTACGTTAATACTCTCCTTCTTAAG CTAGAGTCAAAGGATTAAAAGGCACCATTGTTTGTTAAAAGGGTCATGCGTATTATAAAGAAAG TTTGTTCCTCTCATCCTCTTCTTCTATTTGTGTGATTTCTGGTCTTCATCCTCCCCTGTTATCT TTTCGATTTCCTTTTACGACTGATATTATTTTCTTGTAGTTGTAATTTGTGTTCTCAGTATTAT AATACATATCATTGTGGTGTTGGTAATTTGAGTTGGTACATGTTTCTTTCTTGATCTTCATCCT CCCCTGCTCATATTGATCTTTGAATGAGATCTTTTTGAAGTGAAAATATAAGCAAATTTATGTT ATAACATATTTCTTGGAGTAAATTTGAAAGATTTTGAGAAATGGAGAGCCTTAATTAAAAATAC AAGTAAAAAATCCTCAGCTTTTCAGGGTCGACCTATTTTTGGGTTCAAAACCAATCACTTGAAC TTGACTGCAACTAGTAGAATTTTTTTTTATTCCTTTGCTCTTCTAATTTCTATTCGTTATCGCT AACTGCATGAAGCAGCAAGTATTGATCACTAATTATCGTATTCTGTGTATCTTGAGAAATGAGA TTATTTTTGTTCGGAGATCATCTCCTCTCTTAAGGAATGCTCCGATTTATTTTTCCAGTTACAT CTTTAAACAGAGTATCGTTTTTCTATTTTTTCCTATCTTCTTTTGAGTAATGCTAATTTTTCTG GACCTGTTCCTTTCAGTCAGGGATGCAACAACCCGAATCTGAAAAGTTAATCATGTGGCACTTA TATACTTTGAATGGCAGAGCCTTGAAACAACTAGTTAAGGAAACTGGATACCGCAGCAACAGAG ATGTTAATGGTCAAATAGCAAAATTACAAAAAACACTGATGAGTAAAAACAGTTGAAGATTATA ATGTAAATGCTAAAAGAAATGGTCTTAATAAAAACACTTGAAGATTATGATGAATAAGCTAAAA CCTGGTCAAAATCTATGAGTAACCACCTCTAGTAGTCTTAGCATGGTGTTAAGGGAATAGTAAG AGGACTGATGAGTAAGTCTTTTACATGCAAGGACTACGTATTGTTATTTATACACGAGAGCATG TTTTCCTTTCTATATGCTGGTAAATACTATGGCTACTTTATAATCACTTCTCTAGCATAACTTC TCATTTTTCTGGAAGTCGTATTGGATATCGGCACTTTAAGGTATGGTTACTTCTTTTATCACTA AAGTATTGGTTCTGCAAATGGAGAATTCTCAAGGCTTCAGGAAAAGTTTACCACACTAAAAAGT AACCTTTTAGAACGGAACTACTACTGCCAAATGAATTCTTCTGATTCCAGCAAAAAATGATTTT ACCTCTCATCTGTTTTTTTTCATCATAGCATGAATGTTTTTCTTGATTCATGGACTAAATAATG CAGGTGATTCAACATAGAATACTACCACTACCTTTCATTGCAAAAGAAGATTTCTTTACTTTCA ACATTAAGTCAACTGCCAACAACTCTTGCTTTATCTGAAAGGTTTGGGTAAATCTCAACTTGGA ATCTGTCTGTTTTGAGGTTCCAGTTACTTTCCTCACTGGGGTAATGCAAGTCATAATCTTGGAG GATGAGTATAGGAGTATATATTTAGGTGCAAACAAATGCATTCGCCTATTCTGTTATTCTATGT TTTGCACTTGTAGCACACTATTACTAGCAAGTTGCTGTCATCTAATGCTTGCTTCAGTTTCAAC CTTAATTTTAAGGAGCTGGGTAAGCCTTTGATCTCCTAATGAGTACTTGAATAGGATCTTCTAA CATTTTTGGCGCTTGATATCAAGAAAACTAGATTATCTAGCTAGTTGTCAAAAATAAATAAATA AATAAAGAACCTCTAGCTAAGGTAGGATCCTTTTTGTATTGCCAAGTTAGAATCTCCTTTGTAT TCGACAAATCAATGTCATTAAATGGAATTGCTGTGTGTTCAAATGAATGACATTGTGAGTATGT TGAGTGTTTCTGTGCCTGTTTAGAATTCTAAAGTGCAGAGGTGAAAGTCTTCTTTTTAATTTTT TTCTTACCATGTATGCTGCATATACATGCTTTGTGCTGTCTATCTTGAGACATGCTGCTAAACT TGAATTTCTGGGTTCAAGGAAGAACCACGGAAAGGTTTGGTTGATATGTGTATGTGTGTGTACG CATATATAATGTCACAGAAATTCTGATCTGCTAGTTCTAAGCATTTCTGTTCTCCTTTCACATA CAAGGCTTACATATACTCGGCAATTCAACTAGACATCACTAAGATTTTCATATCTGCTGGAAGA GCATGCGGCTGAAGTTCCTTTCTGTTGGAAGATTGCTGGGATGATGATTTCAAGAACCTCTGCA TGAAGTATGAAAAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.126806623

Conservation Information
Conserved circRNAs	NA
PMCS	0.126806623

			
						 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 PGSC0003DMG400007243_circ_g.1

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