Plant Circular RNA Database

Detail information of PGSC0003DMG400016605_circ_ig.2

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400016605_circ_ig.2
					
						ID in PlantcircBase
						stu_circ_001200
					
						Alias
						chr09:60451353|60455532
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr9: 60451354-60455534  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
						
							PGSC0003DMG400016605_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  
						
							TA-GC							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	PGSC0003DMG400016605_circ_ig.2
ID in PlantcircBase	stu_circ_001200
Alias	chr09:60451353\|60455532
Organism	Solanum tuberosum
Position	chr9: 60451354-60455534 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	PGSC0003DMG400016605_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	TA-GC 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  
						
							TTGGAATCGGGATTGTAGCATACAGTCCACTAGGGCGTGGATTTTTGTCATCTGGACCAAAGCT
TCTTGAGGACTGCTCAAATGAAGATTTCCGAAAGGTatctaccgaggtttcagggcgaaaatct
tgagcataacaaaaaattttacgagaggatttgtcaaatggcagctaagaagggatgcaccccc
tctcaact

									
								

					

						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
						
							ATCTACCGAGGTTTCAGGGCGAAAATCTTGAGCATAACAAAAAATTTTACGAGAGGATTTGTCA
AATGGCAGCTAAGAAGGGATGCACCCCCTCTCAACTCGCGTTGGCCTGGGTGCATCACCAAGGA
AACGACGTGTGCCCCATCCCGGGCACCACTAAGATTGAAAACTTCAATCAGAACATTGGAGCTC
TGTCCATAAAGCTAACATCAGAAGACATGGCAGAGCTTGAATCTATTGCTTCAGCTAATGCAGT
CCAGGGTGATAGGTACGGTTCGGTTGCGCCTACCTACAAAGACTCAGAAACTCCACCCCTTTCA
GCATGGAAGGCTATATAAATGATGAGTTGTTCTTGTGTTGTGCAGTGTATGCAATGAGAAAGTT
TGTTTTTCTTTTTTTCTGTTTCAAAACTATTATGCCACTTGCTGATGGTTCAAATAATAAAATC
AATTCTCTGTTTGTGGACTTTTACCTATGGAGTAAAATATTGATACCGATTGGGGTTTGTATTA
GTTATTTGACCTATCCGTAACCTATTTCCTACCAAATATCGTATAAGTTATACCAAAATTAATA
TATGAATAACTTAAAAAGTATATTAAGTTAGGCAATCAACATTTCATATCCACCATACAAACAT
ATATATTAATTCAGATTGTACAAAGTTACAAAAGCAAATTAATATCCACGATTGAAACATATAC
ACTAATTTCAATTTGCACAACATTATAAAAATGATTTCATGTTCAGTTGTCGACATATATACTA
ATTCAGATTTGCATCAAGTTACAAAAACGATTTCACATTTAGGATTCAAAAGTACATATTAATT
CAAATTTGCACAAAGTTACAAAAGCGATCTTTTGTCCAAAATTCGAACACACACTAATTCCGAT
TTGCACAAAGTTACAGAAACAATTTCACATGCAGAATTCGAACATACATACTAGTTTAGATTTA
CACAAAGTTACAAAAGCGATTTCATATTCATACTAATTCAAACTTGCACAAAGTTACAAAAATG
ATTCCATATTCGAGATTCAAAGTTCAAACGTACATACTAATTTAAATTTGCACAAAAGTTATAA
AAGTTATTTCATATACAAGATTGGAACTAACATACATATTCAAACTCACACAAAGTTACATAAA
CGATTTCATATCAAGGATTTAATCATACATACTAATTTAAATTTACACAAATTTATAAAAACAA
TTTCATATCCAGGATTCGAACTTTCCGAACGAAAGTACACACTCAGCCACAACTTTGGTGGTTT
GTCATTTGTCAATACCTCATCTAATTAACAACCTCTCTATATATACAATACAATATCCACTTGC
TCAATTACGTGCATATTTGCAGAGTAATAAGCTTAAGCTGAATCACAACAATGGCGGTAGAGGG
AACAAAAGTGGGAAGAATCAAATTGGGTTCAGAGGGATTAGAAGTATCTGCTCAAGGACTTGGT
TGTATGGGTATGTCCGCTTTTTACGGGCCGCCCAAACCCGAACCCGATATGATCCAACTCATCC
ACCACGCCATTAACTCCGGCGTCACTTTTCTCGATACTTCCGATGTATATGGACCCCACACTAA
CGAGATCCTCCTTGGCAAGGTATCAATTTGTTAATTTCTTTGAGTTTTATGCAATAGGATGTAT
GTACCTAATGTTAAATATGTTGTACATTTTTTTTTCTTTTTGGTGATTGGCTTTTCTTGTGCTT
GAGCTGAACTGTTTTCTGGATTTCTATGCATTTATGCATTGATTTTATTGTACCGTATGCCTGT
TCTGTTGTACCTTTTGGTTTTGGAGTTTTGGTGTTTGAGCTGGAATAATTGTAACATATGCAAA
ATGTGCTGGTTCATAAAGCTTAAAAGACTTGTACTTTTTGCACCCATGGGTGTAGTCTAATGGT
CAATGAAATGAATTGAGAACACGAGGTCTCAGGTTCAATCGAGACACCATGGTTATCAATAATA
TAGAAAGGACTCTACTCTTTGTTTTAGGTTGGGTAGGAGTTGGTGCTATACTTTACATGTTTTA
AGTCTCTTGAGTTGGACCTTACCTAGAAATGTAGTTCATGGTTCTTCAAACCTTGTATATTTTC
TGGGGTGCTAGCATAAGCGAATTCAAAATTTGAACTTTATGTCCCATCTGTCCTAGCTTAGGTG
CATAGAGTTATCTGATACCTGTTGCTGGTGGGAGGTAGTAGGTATCCTGTGGAATTAGTCGAGG
TATGCGAAAGCTAGGCCGGACACCACGGTCACGAAACAAAAAAAATTGAACTTTATGGGTTCAC
ACTCAAATTTTATCATATGCCATCTAATTTACTGGTTCAAAATCTATCATTTATACTAATTTAT
TGAGCTTTTTAACTCATATACATGGTCTAAGCCAAAGCTATTGGGTTCGGAACGAGTCGATAGA
TTCTTTACTAGATCTGTCCTGGGTGTTGGGGGATGGTTTCCGCTGGGTGCTTGGAATTTGAAGG
TTCCAATATATGAAATCAGTGCTACTATGCAGAGTTTATCCTTACTTGTTATAGCTAGTTCCAA
CAAATTCATTCTATGTGCTCATAGTCTGATTATTTAGATGCTAAAATCTATCGAGGTCAGGATA
AGGGCACATGTAGCAAGAATTGAAGTGAAATGATAGAAATAACAAAAAACGGAAAGCTCAGAGA
CAGAGAGGAAGAGAGGGAGTTGTTTTATTATTGATCCGCTGTCCAGTAAAAAAAAAAGCTTTCT
TGTCGATACGAAGTCAACCAATTCTAAGAACAAGAATACTAGTAAATTAAAGAAAGATCTTTTC
GGAGTGTAATGTAGTAGTTGCAGCGAGTAATTGATGATTGATGTCCTTGCTTGTAGGGCCGAGG
CTCCTTTTACAGGGTAAAGAAGAGGGTCTCTATGTAATTCTTTTATTCTTTTTTCAAATGACGA
GAGTCATGGTCAGTTGCTAAGAGCGTGACTCTCGGTTCTTGGGTCAGTTGAGAGTCTCTTGGTC
CTCAAGGTTATATGATAATCCATGACCATTGTATTTATGCAGGCTCTGAAGGGCGGGATGAGGG
AACGAGTTGAGTTAGCAACAAAATTTGCTGTAAGTTTTGCAGATGGAACAATGCAAGTGCGCGG
AGAGCCAGCCTATGTAAGGGAAGCATGCGAGGCTAGCTTAAAGCGACTTGATGTTGACTGCATA
GACTTGTACTACCAGCACCGGATTGATACACGCGTGCCCATTGAAGTAACGGTTGGTTCTCTAT
TCCACAACTCTGTAAAATGAATGTTACGAACATTTCCTAATCCACGATGGAGGATAAAATGATT
GACTTTTTTGGATACAATATATATTTTACAAACACTAAATGGCTTCAGTGCTGATCAACATCCA
CAATCATTTTGGAGTTGATCTAGTGGTTGAAAGCCAGTCTCTGTATATGTTTATAGTACAATCG
TCGCGATTATAATCCAAATGGCTTTTTACACAGACAAAAAAAGAAGAAGAATTGATCCTCCAGA
GATGGGAAGATGCAATATGAAGTTGAGACAAAATTAGATGCAACTGCACTCTAATTTAGACTTT
TCCGACTTCTAGTTTACATCTCTGAGCTTGATGAACCATTTAAAGAATTTAAAATGAGCAGCCG
GTACCTCTGATATAATGCATGGGTAGCCTTTAGAGAGTATTGGCATAGACCAATACATTTCAGC
TGCGCACCAATTAAGTGGAGTGCTTATATTGTTTAATTTTTTCGCATCTTTGTTCAAATGGTTA
ATGATCATCATTTTTCCCCCTTTGAATATCTTGTTTTACTAGGTTGGAGAACTTAAGAAGCTGG
TTGAAGAGGGTAAAATTAAATATATAGGTCTATCCGAGGCTTCAGCATCAACAATTAGAAGAGC
ACATGTTGTTCATCCAATAACAGCGGTACAATTAGAATGGTCTCTATGGTCGAGAGATGTAGAG
GAAGAAATAGTCCCTACTTGCAGGTACTTTCTTCTTTCTGTTAATTTTTCGTGTTTGGCTCTAT
AGCAATTCGAGCTCCTGATGTACGCCTATGTGTGAACTGTTTAGAGAACTTGGAATCGGGATTG
TAGCATACAGTCCACTAGGGCGTGGATTTTTGTCATCTGGACCAAAGCTTCTTGAGGACTGCTC
AAATGAAGATTTCCGAAAGGT
						
					

			
		

Sequences
Splice junction sequence	TTGGAATCGGGATTGTAGCATACAGTCCACTAGGGCGTGGATTTTTGTCATCTGGACCAAAGCT TCTTGAGGACTGCTCAAATGAAGATTTCCGAAAGGTatctaccgaggtttcagggcgaaaatct tgagcataacaaaaaattttacgagaggatttgtcaaatggcagctaagaagggatgcaccccc tctcaact
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	ATCTACCGAGGTTTCAGGGCGAAAATCTTGAGCATAACAAAAAATTTTACGAGAGGATTTGTCA AATGGCAGCTAAGAAGGGATGCACCCCCTCTCAACTCGCGTTGGCCTGGGTGCATCACCAAGGA AACGACGTGTGCCCCATCCCGGGCACCACTAAGATTGAAAACTTCAATCAGAACATTGGAGCTC TGTCCATAAAGCTAACATCAGAAGACATGGCAGAGCTTGAATCTATTGCTTCAGCTAATGCAGT CCAGGGTGATAGGTACGGTTCGGTTGCGCCTACCTACAAAGACTCAGAAACTCCACCCCTTTCA GCATGGAAGGCTATATAAATGATGAGTTGTTCTTGTGTTGTGCAGTGTATGCAATGAGAAAGTT TGTTTTTCTTTTTTTCTGTTTCAAAACTATTATGCCACTTGCTGATGGTTCAAATAATAAAATC AATTCTCTGTTTGTGGACTTTTACCTATGGAGTAAAATATTGATACCGATTGGGGTTTGTATTA GTTATTTGACCTATCCGTAACCTATTTCCTACCAAATATCGTATAAGTTATACCAAAATTAATA TATGAATAACTTAAAAAGTATATTAAGTTAGGCAATCAACATTTCATATCCACCATACAAACAT ATATATTAATTCAGATTGTACAAAGTTACAAAAGCAAATTAATATCCACGATTGAAACATATAC ACTAATTTCAATTTGCACAACATTATAAAAATGATTTCATGTTCAGTTGTCGACATATATACTA ATTCAGATTTGCATCAAGTTACAAAAACGATTTCACATTTAGGATTCAAAAGTACATATTAATT CAAATTTGCACAAAGTTACAAAAGCGATCTTTTGTCCAAAATTCGAACACACACTAATTCCGAT TTGCACAAAGTTACAGAAACAATTTCACATGCAGAATTCGAACATACATACTAGTTTAGATTTA CACAAAGTTACAAAAGCGATTTCATATTCATACTAATTCAAACTTGCACAAAGTTACAAAAATG ATTCCATATTCGAGATTCAAAGTTCAAACGTACATACTAATTTAAATTTGCACAAAAGTTATAA AAGTTATTTCATATACAAGATTGGAACTAACATACATATTCAAACTCACACAAAGTTACATAAA CGATTTCATATCAAGGATTTAATCATACATACTAATTTAAATTTACACAAATTTATAAAAACAA TTTCATATCCAGGATTCGAACTTTCCGAACGAAAGTACACACTCAGCCACAACTTTGGTGGTTT GTCATTTGTCAATACCTCATCTAATTAACAACCTCTCTATATATACAATACAATATCCACTTGC TCAATTACGTGCATATTTGCAGAGTAATAAGCTTAAGCTGAATCACAACAATGGCGGTAGAGGG AACAAAAGTGGGAAGAATCAAATTGGGTTCAGAGGGATTAGAAGTATCTGCTCAAGGACTTGGT TGTATGGGTATGTCCGCTTTTTACGGGCCGCCCAAACCCGAACCCGATATGATCCAACTCATCC ACCACGCCATTAACTCCGGCGTCACTTTTCTCGATACTTCCGATGTATATGGACCCCACACTAA CGAGATCCTCCTTGGCAAGGTATCAATTTGTTAATTTCTTTGAGTTTTATGCAATAGGATGTAT GTACCTAATGTTAAATATGTTGTACATTTTTTTTTCTTTTTGGTGATTGGCTTTTCTTGTGCTT GAGCTGAACTGTTTTCTGGATTTCTATGCATTTATGCATTGATTTTATTGTACCGTATGCCTGT TCTGTTGTACCTTTTGGTTTTGGAGTTTTGGTGTTTGAGCTGGAATAATTGTAACATATGCAAA ATGTGCTGGTTCATAAAGCTTAAAAGACTTGTACTTTTTGCACCCATGGGTGTAGTCTAATGGT CAATGAAATGAATTGAGAACACGAGGTCTCAGGTTCAATCGAGACACCATGGTTATCAATAATA TAGAAAGGACTCTACTCTTTGTTTTAGGTTGGGTAGGAGTTGGTGCTATACTTTACATGTTTTA AGTCTCTTGAGTTGGACCTTACCTAGAAATGTAGTTCATGGTTCTTCAAACCTTGTATATTTTC TGGGGTGCTAGCATAAGCGAATTCAAAATTTGAACTTTATGTCCCATCTGTCCTAGCTTAGGTG CATAGAGTTATCTGATACCTGTTGCTGGTGGGAGGTAGTAGGTATCCTGTGGAATTAGTCGAGG TATGCGAAAGCTAGGCCGGACACCACGGTCACGAAACAAAAAAAATTGAACTTTATGGGTTCAC ACTCAAATTTTATCATATGCCATCTAATTTACTGGTTCAAAATCTATCATTTATACTAATTTAT TGAGCTTTTTAACTCATATACATGGTCTAAGCCAAAGCTATTGGGTTCGGAACGAGTCGATAGA TTCTTTACTAGATCTGTCCTGGGTGTTGGGGGATGGTTTCCGCTGGGTGCTTGGAATTTGAAGG TTCCAATATATGAAATCAGTGCTACTATGCAGAGTTTATCCTTACTTGTTATAGCTAGTTCCAA CAAATTCATTCTATGTGCTCATAGTCTGATTATTTAGATGCTAAAATCTATCGAGGTCAGGATA AGGGCACATGTAGCAAGAATTGAAGTGAAATGATAGAAATAACAAAAAACGGAAAGCTCAGAGA CAGAGAGGAAGAGAGGGAGTTGTTTTATTATTGATCCGCTGTCCAGTAAAAAAAAAAGCTTTCT TGTCGATACGAAGTCAACCAATTCTAAGAACAAGAATACTAGTAAATTAAAGAAAGATCTTTTC GGAGTGTAATGTAGTAGTTGCAGCGAGTAATTGATGATTGATGTCCTTGCTTGTAGGGCCGAGG CTCCTTTTACAGGGTAAAGAAGAGGGTCTCTATGTAATTCTTTTATTCTTTTTTCAAATGACGA GAGTCATGGTCAGTTGCTAAGAGCGTGACTCTCGGTTCTTGGGTCAGTTGAGAGTCTCTTGGTC CTCAAGGTTATATGATAATCCATGACCATTGTATTTATGCAGGCTCTGAAGGGCGGGATGAGGG AACGAGTTGAGTTAGCAACAAAATTTGCTGTAAGTTTTGCAGATGGAACAATGCAAGTGCGCGG AGAGCCAGCCTATGTAAGGGAAGCATGCGAGGCTAGCTTAAAGCGACTTGATGTTGACTGCATA GACTTGTACTACCAGCACCGGATTGATACACGCGTGCCCATTGAAGTAACGGTTGGTTCTCTAT TCCACAACTCTGTAAAATGAATGTTACGAACATTTCCTAATCCACGATGGAGGATAAAATGATT GACTTTTTTGGATACAATATATATTTTACAAACACTAAATGGCTTCAGTGCTGATCAACATCCA CAATCATTTTGGAGTTGATCTAGTGGTTGAAAGCCAGTCTCTGTATATGTTTATAGTACAATCG TCGCGATTATAATCCAAATGGCTTTTTACACAGACAAAAAAAGAAGAAGAATTGATCCTCCAGA GATGGGAAGATGCAATATGAAGTTGAGACAAAATTAGATGCAACTGCACTCTAATTTAGACTTT TCCGACTTCTAGTTTACATCTCTGAGCTTGATGAACCATTTAAAGAATTTAAAATGAGCAGCCG GTACCTCTGATATAATGCATGGGTAGCCTTTAGAGAGTATTGGCATAGACCAATACATTTCAGC TGCGCACCAATTAAGTGGAGTGCTTATATTGTTTAATTTTTTCGCATCTTTGTTCAAATGGTTA ATGATCATCATTTTTCCCCCTTTGAATATCTTGTTTTACTAGGTTGGAGAACTTAAGAAGCTGG TTGAAGAGGGTAAAATTAAATATATAGGTCTATCCGAGGCTTCAGCATCAACAATTAGAAGAGC ACATGTTGTTCATCCAATAACAGCGGTACAATTAGAATGGTCTCTATGGTCGAGAGATGTAGAG GAAGAAATAGTCCCTACTTGCAGGTACTTTCTTCTTTCTGTTAATTTTTCGTGTTTGGCTCTAT AGCAATTCGAGCTCCTGATGTACGCCTATGTGTGAACTGTTTAGAGAACTTGGAATCGGGATTG TAGCATACAGTCCACTAGGGCGTGGATTTTTGTCATCTGGACCAAAGCTTCTTGAGGACTGCTC AAATGAAGATTTCCGAAAGGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.133031215

Conservation Information
Conserved circRNAs	NA
PMCS	0.133031215

			
						 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 PGSC0003DMG400016605_circ_ig.2

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