Plant Circular RNA Database

Detail information of PGSC0003DMG400008523_circ_ag.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400008523_circ_ag.1
					
						ID in PlantcircBase
						stu_circ_000866
					
						Alias
						chr07:7507673|7512572
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr7: 7507674-7509963  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							NA						
					
						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  
						
							AT-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	PGSC0003DMG400008523_circ_ag.1
ID in PlantcircBase	stu_circ_000866
Alias	chr07:7507673\|7512572
Organism	Solanum tuberosum
Position	chr7: 7507674-7509963 JBrowse»
Reference genome	3.0.38
Type	ag-circRNA
Identification method	CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	NA
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	AT-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  
						
							CGTATGGTTGGATAGTGACTCTCATTGGACTCTATTGTGGTCTCAACCTAGAGAACAATTTACG
CTTATTGTGGGGCATTTGGAGTTTGCAATAATGCTAcatggagaatgtggatagaagaaagggc
aatgcaattaacagagaagtcattactagaatcatgcaatagaagtgaagtgatgaagtgtatc
aatgttgc

									
								

					

						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
						
							CATGGAGAATGTGGATAGAAGAAAGGGCAATGCAATTAACAGAGAAGTCATTACTAGAATCATG
CAATAGAAGTGAAGTGATGAAGTGTATCAATGTTGCACTCTTGTGCGTGCAAGAAGATTCAAAT
GATCGTCCTAAAATGTCAGATGTCATTGTAATGTTGGTAGGAGAAGGTACGAGTCTTCAGAGAC
CTAATAGACCAGCTTTTGTAATAAGAACACACGCGTCTAGCAGACCATCTTCTCCCTCAAAAGT
CTCTAACAATCAAGTGACAATTACAGAAGAAGGAGGACGGTAGTAATGGTGTGAGATCATCTTA
ATTTTCATTTATATATGATACAATTGTAATGTTTTCCTGCAGACTTCTAAAGCACGAGCAGAAA
AATAATCTATATTTTGTTAGTATCTTGATTGTAATTTGTAGCCATGACATTGTTATCCTTACAC
ATATATTACATGCACTTTTCAGATCTCAATCATTTATCTCTTAATGCTTCCAAGTGGGGCTGCT
CAACTAAAACCTTATCTCATAGTCTCTCGAGAACAACCAAATATAACAACATCATTAATCAATG
GCCAATCAATTAATTACAATCATTACATAGTTGAACAAATAGGGTTAGAAAAACTCAATTATAT
AAAAATGTAACAAGAATTCATCTTGCATAAGGTTTTACCAAATTTCTAGATAGAAAATTAGCTA
CTCATAAAAGTATGTAAAAATACACTAAGAAAATTCATAACCAATAATAAAAAATAGAAAAAAG
AAAGTAACGGAAAACTCATTATGTATCAAATCTTTCGCCTTGCTCCACAATGGCTCCTTGGTCT
CACCTTAGGTCAAACCACCTCCAATACATGTTTATGAACTATTTATAGGTGTAGAAAAGTTTCA
AATAAATTAATCAATTTCAAAATAATTTGAAAAAAAATCAAATTTAGAATTGACTTGACACACC
ATCCACGGACAAATTTCCAGTGACAAAAATTGTTGGGTCGCTTGGAATGGTGTTATTCTTCAAT
ACTTGTGATTTCATAACTTTTCCTTGGGGACAATCATTATTTCCCCACTTGTCTCCCTCTTCTT
TTACCTTTTTTTTCTTGTTTTAATTTAATTTTGCTCCGAATTTTGACATCTTCAAATTATTTCA
TACAATCTATTATATACCCATATTTATATGAGTGGATTGAAGTCCAATTCATTTTCAATATTGC
TACTTTTTTGCCGCCACTAATTAGAAGAAAAATGAAAGTATGTTAGCAATAAGAAATATCAACT
TGTTTTTTACTACATTCATCGACTCCAAAGCAGAAACGTCTCCTTATTGTTTCAGCCATATTCA
ACAAATTGTGTTATGTGTAGCCATCGAAATGAACAATCGTTGGCCTCTAGTACTCTTTTTATGC
TTCAAACTCAACAGTAATCTATGTTTTGGAGGGGACACTATTTCCGCGAATAAATCTCTTTCAT
TTGGCGAAACAATAGTCTCTTCAGGTGAGAAATTTGAGCTTGGTTTCTTCAAATCAGGTAATTC
TTTCAACTACTACATAGGCATATGGTACAAGAACACTATTTTATGGCAAAATGTAGTATGGGTA
GCAAATAGGGATAAACCACTTGATTATGGTACTGCTAACTTAACAATTCTTCAAGGCAACCTGG
TGCTTATCGATAAATTTCAAGGTATAGTTTTGTCAACACATGTTGCTAGGACTATTACTTCAAA
TAATTCAGTCATAGCAGTTCTTCGTGACGATATAAATTTGATTTTGAGTGATATGTCAAATTCA
TCAGCAACCTTAATACTATGGGAAAGTTTTGACTATCCAACAGATACATTGTTGCCTGGTGCTA
AGCTTAGATACGACAAACGTCGTACACATAGGGGACAGGTTCTGATTTCATGGAAGAGTTTGAG
TGATCCAGCACCAGGATTGTATTCTCTAGAACTAGACCCCATCCATGCCCGATTTGTTATAAAA
TGGAATAGGACTAAACAATTTTGGGCAAGTGGTTCATGGAATGGCCATACGTTCAGCCCGTTTC
CTAAAATGGGGTTAGACTACACGTAAAATTACAACTATACCAACAATGGAAATGGATCATAAGT
TACATATTCCCTTTCTAATTATACTAGTTCATGGCCACCAAAGTGGAAAATAGATGTCTCAGGA
AAAATTAAGGAACTCGTATGGTTGGATAGTGACTCTCATTGGACTCTATTGTGGTCTCAACCTA
GAGAACAATTTACGCTTATTGTGGGGCATTTGGAGTTTGCAATAATGCTA
						
					

			
		

Sequences
Splice junction sequence	CGTATGGTTGGATAGTGACTCTCATTGGACTCTATTGTGGTCTCAACCTAGAGAACAATTTACG CTTATTGTGGGGCATTTGGAGTTTGCAATAATGCTAcatggagaatgtggatagaagaaagggc aatgcaattaacagagaagtcattactagaatcatgcaatagaagtgaagtgatgaagtgtatc aatgttgc
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	CATGGAGAATGTGGATAGAAGAAAGGGCAATGCAATTAACAGAGAAGTCATTACTAGAATCATG CAATAGAAGTGAAGTGATGAAGTGTATCAATGTTGCACTCTTGTGCGTGCAAGAAGATTCAAAT GATCGTCCTAAAATGTCAGATGTCATTGTAATGTTGGTAGGAGAAGGTACGAGTCTTCAGAGAC CTAATAGACCAGCTTTTGTAATAAGAACACACGCGTCTAGCAGACCATCTTCTCCCTCAAAAGT CTCTAACAATCAAGTGACAATTACAGAAGAAGGAGGACGGTAGTAATGGTGTGAGATCATCTTA ATTTTCATTTATATATGATACAATTGTAATGTTTTCCTGCAGACTTCTAAAGCACGAGCAGAAA AATAATCTATATTTTGTTAGTATCTTGATTGTAATTTGTAGCCATGACATTGTTATCCTTACAC ATATATTACATGCACTTTTCAGATCTCAATCATTTATCTCTTAATGCTTCCAAGTGGGGCTGCT CAACTAAAACCTTATCTCATAGTCTCTCGAGAACAACCAAATATAACAACATCATTAATCAATG GCCAATCAATTAATTACAATCATTACATAGTTGAACAAATAGGGTTAGAAAAACTCAATTATAT AAAAATGTAACAAGAATTCATCTTGCATAAGGTTTTACCAAATTTCTAGATAGAAAATTAGCTA CTCATAAAAGTATGTAAAAATACACTAAGAAAATTCATAACCAATAATAAAAAATAGAAAAAAG AAAGTAACGGAAAACTCATTATGTATCAAATCTTTCGCCTTGCTCCACAATGGCTCCTTGGTCT CACCTTAGGTCAAACCACCTCCAATACATGTTTATGAACTATTTATAGGTGTAGAAAAGTTTCA AATAAATTAATCAATTTCAAAATAATTTGAAAAAAAATCAAATTTAGAATTGACTTGACACACC ATCCACGGACAAATTTCCAGTGACAAAAATTGTTGGGTCGCTTGGAATGGTGTTATTCTTCAAT ACTTGTGATTTCATAACTTTTCCTTGGGGACAATCATTATTTCCCCACTTGTCTCCCTCTTCTT TTACCTTTTTTTTCTTGTTTTAATTTAATTTTGCTCCGAATTTTGACATCTTCAAATTATTTCA TACAATCTATTATATACCCATATTTATATGAGTGGATTGAAGTCCAATTCATTTTCAATATTGC TACTTTTTTGCCGCCACTAATTAGAAGAAAAATGAAAGTATGTTAGCAATAAGAAATATCAACT TGTTTTTTACTACATTCATCGACTCCAAAGCAGAAACGTCTCCTTATTGTTTCAGCCATATTCA ACAAATTGTGTTATGTGTAGCCATCGAAATGAACAATCGTTGGCCTCTAGTACTCTTTTTATGC TTCAAACTCAACAGTAATCTATGTTTTGGAGGGGACACTATTTCCGCGAATAAATCTCTTTCAT TTGGCGAAACAATAGTCTCTTCAGGTGAGAAATTTGAGCTTGGTTTCTTCAAATCAGGTAATTC TTTCAACTACTACATAGGCATATGGTACAAGAACACTATTTTATGGCAAAATGTAGTATGGGTA GCAAATAGGGATAAACCACTTGATTATGGTACTGCTAACTTAACAATTCTTCAAGGCAACCTGG TGCTTATCGATAAATTTCAAGGTATAGTTTTGTCAACACATGTTGCTAGGACTATTACTTCAAA TAATTCAGTCATAGCAGTTCTTCGTGACGATATAAATTTGATTTTGAGTGATATGTCAAATTCA TCAGCAACCTTAATACTATGGGAAAGTTTTGACTATCCAACAGATACATTGTTGCCTGGTGCTA AGCTTAGATACGACAAACGTCGTACACATAGGGGACAGGTTCTGATTTCATGGAAGAGTTTGAG TGATCCAGCACCAGGATTGTATTCTCTAGAACTAGACCCCATCCATGCCCGATTTGTTATAAAA TGGAATAGGACTAAACAATTTTGGGCAAGTGGTTCATGGAATGGCCATACGTTCAGCCCGTTTC CTAAAATGGGGTTAGACTACACGTAAAATTACAACTATACCAACAATGGAAATGGATCATAAGT TACATATTCCCTTTCTAATTATACTAGTTCATGGCCACCAAAGTGGAAAATAGATGTCTCAGGA AAAATTAAGGAACTCGTATGGTTGGATAGTGACTCTCATTGGACTCTATTGTGGTCTCAACCTA GAGAACAATTTACGCTTATTGTGGGGCATTTGGAGTTTGCAATAATGCTA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.127598712

Conservation Information
Conserved circRNAs	NA
PMCS	0.127598712

			
						 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 PGSC0003DMG400008523_circ_ag.1

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