Plant Circular RNA Database

Detail information of PGSC0003DMG400019278_circ_g.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400019278_circ_g.1
					
						ID in PlantcircBase
						stu_circ_000980
					
						Alias
						chr07:53815164|53819041
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr7: 53815165-53819041  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							PGSC0003DMG400019278						
					
						Parent gene annotation
						
							ATP binding 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-GA							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
						PGSC0003DMT400049630:1
PGSC0003DMT400049628:7

General Information
CircRNA Name	PGSC0003DMG400019278_circ_g.1
ID in PlantcircBase	stu_circ_000980
Alias	chr07:53815164\|53819041
Organism	Solanum tuberosum
Position	chr7: 53815165-53819041 JBrowse»
Reference genome	3.0.38
Type	ui-circRNA
Identification method	CIRI2
Parent gene	PGSC0003DMG400019278
Parent gene annotation	ATP binding 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-GA 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	PGSC0003DMT400049630:1 PGSC0003DMT400049628:7

			
						 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  
						
							AGGAACCTTGTTAAGCTTTTGGGTTGCTGCCTTGAAAGAGAAGAAAGGATGCTAATCTATGAGT
TTATGCCCAATGCTAGCTTGGACTATTTCATTTTTGtccaagcagaaaagcttcacttgcatgg
aagaatcgctttgaaatttctgtgggaatatctcgaggtcttctttaccttcaccaggactcaa
gatttaga

									
								

					

						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
						
							TCCAAGCAGAAAAGCTTCACTTGCATGGAAGAATCGCTTTGAAATTTCTGTGGGAATATCTCGA
GGTCTTCTTTACCTTCACCAGGACTCAAGATTTAGAATTATTCATAGAGACCTCAAGACCAGCA
ACATTTTACTAGATGGAGACATGAATGCCAAAATTGCTGATTTTGGCCTTGCCAAAATTTTTGG
CGGAGAACAAGTGGAAGGAAATACTAAGAGAGTGATAGGGACATAGTAAGTTCTACAAATCTTT
ATGATAGACATTCAATCAGTACTTGAACTTAAATTTGATGAGTTGATGCAGTGGATATATGTCA
CCTGAGTATGCTGTTGATGGGAAATATTCAGTAAAATCCGATGTATTTAGTATCGGCGTTATCA
TTCTAGAGCTAGTCAGTGGCAGAAGGAACAGGAAATTTCATCATTTGGAACATTATCACAATCT
TTTGGGACATGTAAGCACATACAACACTAAACTTCGTTCCCTTAACTCACTTTTTCTATAGTGA
ATGCATTTGTATAAATGTGTTCTGTTTGTAATTTAGGCATGGTTACTTTGGACTGAAGACAAAG
CGTTGGAACTGATGGACGAATGTTTGAAAGAATCATTTTCAGAATCTCAAGTGTTGAGATGCAT
CCAGGTTGGCTTGTTGTGCGCCCAAAAACACCCTGAGCATAGGCCTACAATGGCATCAGTAGTT
TTCTGGTTGGGAAATGAAGGCCTGGTTCTTCCTCAACCAAAGCAGCCTGGATTTTTTATAGAAA
GGAATTCAATGGATTCAACAGAATCAGCTCAATTTATCAGTTAGCTCGTTGTAATCGGATAAGG
GCATTGTGAATTCAAGTTCAATCAACACATATAATATCTAATTAATGAGAAGAAAATCTGAAAG
TGTGTACACACATTTCAGCACACGCTTTGTAGCACAATTAATCCGGATTCACAGGGGAAAGTTC
GACTTTTTGGGAGAAACTAAAGTCTCCTCATCAAAAGTGACTCCATTCAAGAAGTTGAAGATTC
TTCTTGTTTTTTCTCTCAGTTGAATATTAGATGGTGACTTTACAACTTTTTAAAATAAATGCAT
TAATATTAATAGAAAATAAAAAAGACATCAGTTCCTTTTTTCTTAGTTCTGCCATTACTAGTCC
AAGATGTCACATCGTCATTAACACTAAATCATTTTAGGAAGACTTTAGGCAATTTACTCCAATA
CATTTCATGTGTTTACACCAAGAAAATAGATGCATGCCATATGTTTGTATGAATAGTTCTATAG
CGTGCAATTGCAAACACCAGGTTAATGGTGGAAATGGAAAGTCAAAGGCATACAACTTTTGACA
AGTTCAAACTTTGACATCTAATTCTTGGCAGCAGTTGTGATTGGCCTTTCATTCAAAAAAGTTC
TTTTTTTCATTTTATAGTTGTGATTGGCCTTTCATTCAAAAAAGTTCTTTTTTTCATTTTATTT
ATATAAAACATTTTTGGACATGGTTGTTAATTCTAAACTGAGAAAAAAAAAGTTATCAGTATCT
TTTCTGTGTCAAGGCTTTTTTGAACTTGTCAATCAAAAACATGAGTCAGAGTCTATCAAAAGGG
CTACTGTTTTTATTCCTTTGCTCACATTTTTTCTTCATCTTACTAATTTCCGCGGCATTAGACA
CGATCACAACAGATGAATCCATTAGAGATGGTGACACAATTGTTTCAGCTGGTGGGATTTATGA
GCTTGGATTTTTCAGTCCTGGAAATCCGAAGAATCGTTATGTTGGCATATGGTACAAGAAGATA
TCACCTAGAACTGTTGTCTGGGTTGCAAACAGAGATATTCCACTTAATGACACATCAGGAGTGT
TAACACTCAAACCCAATGGGATTCTTGTACTTGTTGATAATTCCAATACCTCAATTTGGTCATC
AAACTCATCAAGATCATTAAAGGATCCAAAAGCACGGATTCTGGATTCCGGGAACCTTGTTGTC
AATGATGGAAATGAAAGAGACCTGAAAATTAATTTCGCGTGGCAGAGTTTTGATTATCCAGGAA
ATACTTTTATACCTGGCATGAAACTTGGACGTAATTTGGTCACGGGCATGGATTGGTACATGTC
ATCATGGAAGAGCATTGATGACCCTTCTCCTGGTGAATATATAAACCGTCTTGAATCTCATGGA
TACCCGCAATTGTTTGTGTGGAAAAATTCAACTATAGTGTCTAGCTCAGGGATATGGAAAGGTA
ATGCATTTACTGTTAGTGCAAATAGTAAACCAAATACACATTACACTTCCGAGTTTATTATTAA
TCAGCAGCAAATTTACTACCAATTCAAGCTTAAGAACGAGTCACTGCCCAGCAGGATGGTGCTT
AACCCGGAAGGGCTGATAGAACACATAACATGGATTGAGAGCAGTCAAAGCTGGTTTCTGTACT
CAACAGTACAGATTGATAGCTGTGGTCGATTTGCTTTATGCGGTCCTTATGCAAGTTGCAGCAT
CAATAACTCCCCTCCATGTGACTGCTTGCAAGGTTTCAATCCTAGGTATTGTTAAAATGAGTGA
TCATCAAACCTTAAACTATTAGAGATAACACACTTGATTACTTAGTTATGATTTTACACTCCCC
TTCATGTGTGTGCTTGATTCTATTTCTTGGGCCAAGCACATAGATATTATATTGATTACTTAAT
TATGACTTCACAGGGTTCCTCAACAGTCTGCAGCAGATTGGGCTACTGGTTGTGTTAGGAGAAC
TTCTTTGGATTGTAAACAAGACGGTTTTCTTAAATTTACGGGCATCAAGATGCCTGATTCTAGA
AACTCCTGGTTTAATGAGAGCATTAACCTTGAAGAATGTGAGAAATTATGCTTAGCTGATTGCA
ACTGTACAGCCTACTCAAATCTTGATGTTAGAAATGGCGGAAGTGGATGCTTACTATGGTTCGG
AGATCTCATTGATATTCGAGAGTTGAGCCAAAATGAACAAAATCTGTTTGTGAGAGTTGCTGCT
TCAGAAATAGGTAATGACCCTACTCTGCACCATTTTCATTTTGTTGTTCAATATAAATACACAG
ATCTTTGAAACTGACGAATCCCTGGTCAACAAATTACTGATAACCAAGTTTGCAGGCTTCATAA
CAAAATAAGACGTATATGTAAATTGAAGACTGCTTATGAACTAATTATTGAACATATTCAGACA
GGAAGCGGAGGAGAAAGATGTCAGTCCTGATTGGTGTCATTTCAGCAGTGGTAGCAACATTTAT
CCTCAGCTTTTTAGCTTGGTTTTCCTTCCAAAGAAAGAAAAGAAGAATAGGTAAATATAGTTGA
GTCACTCTTGTCTACCAACTTTATAAGAAAATTGTCAAGTCTAAATGCTGTGCTGGCTAGGTGA
ATTTTCTATCTAGCTGACATTGTTTGCCTTTACCAAATTCTCATTGATATCATGTTTGTGGTGG
GCGAATGTATATTGACAGGTCCAGCTGTTGAAAATGAGGACATGGAGCTTCCATTGTTTGATTT
AGTTACTGTTACTAGTGCCACTGGGAACTTTTCTGCTAAGAATGTGATCGGGAAGGGTGGATTT
GGACCGGTTTACAAGGTAAATCAACTTTGATCCTCAACGTCTAACTTGAAATGGCATCTTTGAC
CCTTGACATAAATTTCAGGGTATCCTACCAAATGGACAAGAGATAGCAGTAAAGAGGCTATCAA
AGCATTCTGGACAAGGCTTTCAAGAGTTAAAAAATGAATTCGTTCTCATTTCCAAGCTGCAACA
CAGGAACCTTGTTAAGCTTTTGGGTTGCTGCCTTGAAAGAGAAGAAAGGATGCTAATCTATGAG
TTTATGCCCAATGCTAGCTTGGACTATTTCATTTTTG
						
					

			
		

Sequences
Splice junction sequence	AGGAACCTTGTTAAGCTTTTGGGTTGCTGCCTTGAAAGAGAAGAAAGGATGCTAATCTATGAGT TTATGCCCAATGCTAGCTTGGACTATTTCATTTTTGtccaagcagaaaagcttcacttgcatgg aagaatcgctttgaaatttctgtgggaatatctcgaggtcttctttaccttcaccaggactcaa gatttaga
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	TCCAAGCAGAAAAGCTTCACTTGCATGGAAGAATCGCTTTGAAATTTCTGTGGGAATATCTCGA GGTCTTCTTTACCTTCACCAGGACTCAAGATTTAGAATTATTCATAGAGACCTCAAGACCAGCA ACATTTTACTAGATGGAGACATGAATGCCAAAATTGCTGATTTTGGCCTTGCCAAAATTTTTGG CGGAGAACAAGTGGAAGGAAATACTAAGAGAGTGATAGGGACATAGTAAGTTCTACAAATCTTT ATGATAGACATTCAATCAGTACTTGAACTTAAATTTGATGAGTTGATGCAGTGGATATATGTCA CCTGAGTATGCTGTTGATGGGAAATATTCAGTAAAATCCGATGTATTTAGTATCGGCGTTATCA TTCTAGAGCTAGTCAGTGGCAGAAGGAACAGGAAATTTCATCATTTGGAACATTATCACAATCT TTTGGGACATGTAAGCACATACAACACTAAACTTCGTTCCCTTAACTCACTTTTTCTATAGTGA ATGCATTTGTATAAATGTGTTCTGTTTGTAATTTAGGCATGGTTACTTTGGACTGAAGACAAAG CGTTGGAACTGATGGACGAATGTTTGAAAGAATCATTTTCAGAATCTCAAGTGTTGAGATGCAT CCAGGTTGGCTTGTTGTGCGCCCAAAAACACCCTGAGCATAGGCCTACAATGGCATCAGTAGTT TTCTGGTTGGGAAATGAAGGCCTGGTTCTTCCTCAACCAAAGCAGCCTGGATTTTTTATAGAAA GGAATTCAATGGATTCAACAGAATCAGCTCAATTTATCAGTTAGCTCGTTGTAATCGGATAAGG GCATTGTGAATTCAAGTTCAATCAACACATATAATATCTAATTAATGAGAAGAAAATCTGAAAG TGTGTACACACATTTCAGCACACGCTTTGTAGCACAATTAATCCGGATTCACAGGGGAAAGTTC GACTTTTTGGGAGAAACTAAAGTCTCCTCATCAAAAGTGACTCCATTCAAGAAGTTGAAGATTC TTCTTGTTTTTTCTCTCAGTTGAATATTAGATGGTGACTTTACAACTTTTTAAAATAAATGCAT TAATATTAATAGAAAATAAAAAAGACATCAGTTCCTTTTTTCTTAGTTCTGCCATTACTAGTCC AAGATGTCACATCGTCATTAACACTAAATCATTTTAGGAAGACTTTAGGCAATTTACTCCAATA CATTTCATGTGTTTACACCAAGAAAATAGATGCATGCCATATGTTTGTATGAATAGTTCTATAG CGTGCAATTGCAAACACCAGGTTAATGGTGGAAATGGAAAGTCAAAGGCATACAACTTTTGACA AGTTCAAACTTTGACATCTAATTCTTGGCAGCAGTTGTGATTGGCCTTTCATTCAAAAAAGTTC TTTTTTTCATTTTATAGTTGTGATTGGCCTTTCATTCAAAAAAGTTCTTTTTTTCATTTTATTT ATATAAAACATTTTTGGACATGGTTGTTAATTCTAAACTGAGAAAAAAAAAGTTATCAGTATCT TTTCTGTGTCAAGGCTTTTTTGAACTTGTCAATCAAAAACATGAGTCAGAGTCTATCAAAAGGG CTACTGTTTTTATTCCTTTGCTCACATTTTTTCTTCATCTTACTAATTTCCGCGGCATTAGACA CGATCACAACAGATGAATCCATTAGAGATGGTGACACAATTGTTTCAGCTGGTGGGATTTATGA GCTTGGATTTTTCAGTCCTGGAAATCCGAAGAATCGTTATGTTGGCATATGGTACAAGAAGATA TCACCTAGAACTGTTGTCTGGGTTGCAAACAGAGATATTCCACTTAATGACACATCAGGAGTGT TAACACTCAAACCCAATGGGATTCTTGTACTTGTTGATAATTCCAATACCTCAATTTGGTCATC AAACTCATCAAGATCATTAAAGGATCCAAAAGCACGGATTCTGGATTCCGGGAACCTTGTTGTC AATGATGGAAATGAAAGAGACCTGAAAATTAATTTCGCGTGGCAGAGTTTTGATTATCCAGGAA ATACTTTTATACCTGGCATGAAACTTGGACGTAATTTGGTCACGGGCATGGATTGGTACATGTC ATCATGGAAGAGCATTGATGACCCTTCTCCTGGTGAATATATAAACCGTCTTGAATCTCATGGA TACCCGCAATTGTTTGTGTGGAAAAATTCAACTATAGTGTCTAGCTCAGGGATATGGAAAGGTA ATGCATTTACTGTTAGTGCAAATAGTAAACCAAATACACATTACACTTCCGAGTTTATTATTAA TCAGCAGCAAATTTACTACCAATTCAAGCTTAAGAACGAGTCACTGCCCAGCAGGATGGTGCTT AACCCGGAAGGGCTGATAGAACACATAACATGGATTGAGAGCAGTCAAAGCTGGTTTCTGTACT CAACAGTACAGATTGATAGCTGTGGTCGATTTGCTTTATGCGGTCCTTATGCAAGTTGCAGCAT CAATAACTCCCCTCCATGTGACTGCTTGCAAGGTTTCAATCCTAGGTATTGTTAAAATGAGTGA TCATCAAACCTTAAACTATTAGAGATAACACACTTGATTACTTAGTTATGATTTTACACTCCCC TTCATGTGTGTGCTTGATTCTATTTCTTGGGCCAAGCACATAGATATTATATTGATTACTTAAT TATGACTTCACAGGGTTCCTCAACAGTCTGCAGCAGATTGGGCTACTGGTTGTGTTAGGAGAAC TTCTTTGGATTGTAAACAAGACGGTTTTCTTAAATTTACGGGCATCAAGATGCCTGATTCTAGA AACTCCTGGTTTAATGAGAGCATTAACCTTGAAGAATGTGAGAAATTATGCTTAGCTGATTGCA ACTGTACAGCCTACTCAAATCTTGATGTTAGAAATGGCGGAAGTGGATGCTTACTATGGTTCGG AGATCTCATTGATATTCGAGAGTTGAGCCAAAATGAACAAAATCTGTTTGTGAGAGTTGCTGCT TCAGAAATAGGTAATGACCCTACTCTGCACCATTTTCATTTTGTTGTTCAATATAAATACACAG ATCTTTGAAACTGACGAATCCCTGGTCAACAAATTACTGATAACCAAGTTTGCAGGCTTCATAA CAAAATAAGACGTATATGTAAATTGAAGACTGCTTATGAACTAATTATTGAACATATTCAGACA GGAAGCGGAGGAGAAAGATGTCAGTCCTGATTGGTGTCATTTCAGCAGTGGTAGCAACATTTAT CCTCAGCTTTTTAGCTTGGTTTTCCTTCCAAAGAAAGAAAAGAAGAATAGGTAAATATAGTTGA GTCACTCTTGTCTACCAACTTTATAAGAAAATTGTCAAGTCTAAATGCTGTGCTGGCTAGGTGA ATTTTCTATCTAGCTGACATTGTTTGCCTTTACCAAATTCTCATTGATATCATGTTTGTGGTGG GCGAATGTATATTGACAGGTCCAGCTGTTGAAAATGAGGACATGGAGCTTCCATTGTTTGATTT AGTTACTGTTACTAGTGCCACTGGGAACTTTTCTGCTAAGAATGTGATCGGGAAGGGTGGATTT GGACCGGTTTACAAGGTAAATCAACTTTGATCCTCAACGTCTAACTTGAAATGGCATCTTTGAC CCTTGACATAAATTTCAGGGTATCCTACCAAATGGACAAGAGATAGCAGTAAAGAGGCTATCAA AGCATTCTGGACAAGGCTTTCAAGAGTTAAAAAATGAATTCGTTCTCATTTCCAAGCTGCAACA CAGGAACCTTGTTAAGCTTTTGGGTTGCTGCCTTGAAAGAGAAGAAAGGATGCTAATCTATGAG TTTATGCCCAATGCTAGCTTGGACTATTTCATTTTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.144014281

Conservation Information
Conserved circRNAs	NA
PMCS	0.144014281

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							stu-miR384-5p 						
					
						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-miR384-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhou et al., 2018

circRNA

Detail information of PGSC0003DMG400019278_circ_g.1

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