Plant Circular RNA Database

Detail information of PGSC0003DMG400022418_circ_g.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400022418_circ_g.1
					
						ID in PlantcircBase
						stu_circ_000307
					
						Alias
						chr02:34587815|34591663
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr2: 34587816-34591663  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							ei-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							PGSC0003DMG400022418						
					
						Parent gene annotation
						
							NADPH quinone oxidoreductase
							
						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
						PGSC0003DMT400057744:5

General Information
CircRNA Name	PGSC0003DMG400022418_circ_g.1
ID in PlantcircBase	stu_circ_000307
Alias	chr02:34587815\|34591663
Organism	Solanum tuberosum
Position	chr2: 34587816-34591663 JBrowse»
Reference genome	3.0.38
Type	ei-circRNA
Identification method	CIRI2
Parent gene	PGSC0003DMG400022418
Parent gene annotation	NADPH quinone oxidoreductase
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	PGSC0003DMT400057744:5

			
						 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  
						
							TCCACCCCATGAAGGAGAAAGTGAATATCCAGGTCTTGAATGTTCTGGAACTGTTGAAGCCGTC
GGCAAGGACGTTATTCGCTGGAAAATTGGTGATCAGtatgtgctctcattggtggaggaggtta
tgcagagaaagtagctgtacctactggacaagttcttcctattccatcaggtgtttctttacaa
gatgcagc

									
								

					

						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
						
							TATGTGCTCTCATTGGTGGAGGAGGTTATGCAGAGAAAGTAGCTGTACCTACTGGACAAGTTCT
TCCTATTCCATCAGGTGTTTCTTTACAAGATGCAGCTAGCTTTCCTGAAGTGGCATGCACTGTT
TGGTCGACCATTTTCATGACGAGCAAGCTTTCCTCGGGTGAAACGTTTCTGGTGATTAGACAGA
CCATAGCTATTCTTTTAAACAATTTGTTGTTTAGCAGTAGTTCCTTTTTCTTTTATCTATGCAG
ATTATCAGCCATTTAGTCAATTGGCAGAGTCTTTTGGGTAGTATGTTCACAATTGAATCTTTAT
GTCCTTGATTCTGGTGGAGTAAGATCAAGTACGTGAAATGACTGATAGCTACATGTGTTACATT
CAGATACATGGAGGCTCTAGTGGAATTGGTACCTTTGCCATTCAAATGGCTAAGTGCCTTGGAG
TCAAAGTTTTCATCACAGCAGGTTCATGATGATATCTTATCTTATTATGGAACTGAAATCATTC
AGCTAACCATGTCAAGTCTTGTTAACCAGGAAGCGAGGAAAAACTTGCCGCATGCAAAGAACTC
GGGGCTGATGTTTGCATCAATTACAAGACTGAAGACTTTGTTACACGCATCAAGGAAGAAACAG
GAGGGAAAGGTAATCATTATCATAGGCATCATTTATTATATTAGAAACTAGGTCTGCTTGATAA
ACAAACAACAACTACGCCTCAGTTCCAAACAAGTTGGGAACTTGGTCTTTGTGATATCAATTAA
AATTCGAATATGCATGTTTCTGTAGAAAATTATGATGGTTATCATATATCTCATGGGGCTATGG
GGGAAACCACTCAATTTCTTCTCATGTCTGACATTGGTGATATTCTAATTTCGATGTTCAACAC
AGGTGTTGATGTCATACTAGATAATATAGGAGGTTCATACTTCCAACGAAACCTTGACAGCCTC
AATGTTGATGGTAGGCTCTTCATTATTGGTTTTATGGGAGGAACAGTGACACAAGTAAATCTTG
GCTGTTTGTTAGCAAGACGCCTGACAGTGCAGGGTAAGTGCAGATGCGCTCTGATATATTTGGA
GTGATCTTTTCTGTGAAATGTATTCTTAAATTTGATATGGTGAACTTGTCTGACCAAATACTCG
AACAAGCATGCTGTTAGTCAACTGGAAGAGAGATATCTCAAGACACTTTACTGTAATTCCAGTT
TCTTTCTATTCCCACCCCACCCTGACTAGCTCAATGAGTGGGGCAGAGATTGTATTCATATAGT
TGCACATGCCAATAGATGACTTCTAAGGTCTTGTGTTCAGTTGGGCTTAGAGTGTAGATTCAGT
TGGTTAATTCCATGGGGAAGCAATGATTATCAATTGCAGCTGCAATTCTAATAATTGGTGCACA
AGAAATGAAGTAATCTTAATTTACCCTGATCTTAATATTCTCTAACTTCTCTTTCTGCTGCATC
TTTTTCGTTACATGCAATTGCTTCTACTTCAATGAAGCTTATGTAAAGCAAGTTTCTCTCTCTT
CCTCGTTTGTGTGTGTATATCCAGATCCTAGTGTTCTCCACTTCGCAAATGAACTGTCTTGAAG
TCTCGGTGTTCATTTGCCTCGTTGATATCCCTTATTTTGACAGAGTGAGAAGCTAACTTGTGTG
ACACGTGGAAACCATGTGTTTGTATCTTTCTTCCATTTTTATAAGGCTCTCTCACATATCCTAC
CATGCTCCTTTACTTTTGTCCTCTTTACTTTCCCTCGCTTCACTTCTACTACTGTTCCTCCCGT
AGCTTTAGTTCCTTGCAGTAATCAGCCTCAGTTATCTCATAAACAGTCCTGACTTTCAACCACC
AACCATGGTTTATAATAATCTGGTGACTTCTATGTGCACTGGCCTACTTTAATTTATTTCAGGA
TGGGAAAGATAAGATAGTGTAATAGAAGAAAAAGCAACACAAGCTTCCACTGATATTACTGGGT
TTTATTAGATGGTATAGGTCTCAATTTAATATCAGGAGAACTGAAATATTATGATTCATTTTTC
ATATATTTACCTTATCAAGAAAAAAAGAAAAAAAAAAGAGAAGGTGATTCATCTTTCATGTGAA
GTTGAGCTATGTCTCTTCTTTGAAATCCTCATTTAGTAATTCTTCGTCAACTTGGTCAAATTTC
GGCCTCTTCCTCCTGGGTACTTGTTATGGTTAGTTTGAATTTTGAAATTTTGAAATTATTAGTC
CAGCTCTCTCATTCTCGCATAATCCTATCCAATGTGTCTATTCCCTCCATGTTCTAACTGATCC
TTCTCTTAGTTGAAGAATCCTTCATTGATATCTTTGAGGAAGTTCTCTTTTCAAAGTGCATAGA
CAATTGGAGAGAAAAAATTCTTTTGGAATGTTGAAATCTAGTCTCATGGATTTTTTCTCTGAAT
GAATGCCATGGTCCTCATTTTTTATTGCTTTTCAGTAGTTTTTATGTCAATTTGTGACTTTTCT
ACAGCTGCTGGCTTGCGTAGTAGAAGCACAAAAAACAAAGCTCAAATTGTGAGAGAAGTGGAAA
AGAATGTTTGGCCAGCAATTGCAGCAGGCAAGGTGAAACCAGTGGTGTACAAGTACTTCCCCTT
AGCAGAAGCTGCTGAGGCTCACCAGTTAATGGAAAGCAGCAAGCACATTGGAAAGATTCTGCTT
ACTGTTTAAATGTTGTAAAAGAGAGATTTTCTTGTTCCTAGTGTTAAAATTGCCTGTACTCCCA
GCCAGTCAACCCCCCAAACCTCTGCTGCATGTATTATACTTTGCAATGTTCCAATAAAACAAAA
CCTTTTTATGATTTTTTTTCATTTTTTTGTTTGCGTAAAATAGATTTGCTGTCTATTTCCAAGC
TAAGTACAAAATACAGAATTTGCATGTCATTCTAATAATAGAACAAAAACCATGAACACAGCTG
GAAAAAAGAGCAAAGGTTTCCTTATAATATTCTGCAAGTCATACAATTTTGTATATCATGTTTG
GTAGCAAGTTTTGAGATATTTACCTGAAATTTTACTTGTCAAGTTCAAATTTTTGATGATCATA
CCTAAAGTTTCATATATGTAGTATTTTTTAAAACAAATTTGAACTACCAATCTTTATCCCTACA
ATATTTTCATGTTTTTTTCTCAATAATATCCACTTGACATAACTTTAATTGTGCATTAATTTTT
TATAATGTAAATCATTACTCTTATCTTTAACTTTATTTTTTTGTTGTTATTATTAAAAGAAACT
ATAGATCGAGGTGATGTTGCAACTAGACAGAACATACAGCTATCAAGAACAATAATAGAAACAA
AATACTCCTCCTCTGTTACTTTTTTTTTTCCTAGTTCGGCGGCTAGTCCAACTATTTTGAATTC
GCGCCACATAAGAAAGAAAACACTCCCTACAAAAGATTTTTTCATATCCAGGCTCGAATTCGAG
AGTGGAGTAGCAGCCCATCTGCTACACAACATGTGGTACTCTACTACTCCTTTATGTATGCAAT
AAAGTCTAGTAAATCTCTTCAACTCTTCCCAAAACCTTGTTAAATCAGTGATAAAATTGATTGT
GATTAACGAAGGATGAAAGCTGTAGTAATCACAAGGCCTGGTGGTCCAGAGGTGTTGAAGCTTC
AAGAAGTGGAACACCCACAAATCAAAGAAGATGAAATCTTGATCAAAATTGCAGCTACTGCCAT
TAATAGAGCTGACACCCTTCAACGCCAAGGTGAACATCCACCCCATGAAGGAGAAAGTGAATAT
CCAGGTCTTGAATGTTCTGGAACTGTTGAAGCCGTCGGCAAGGACGTTATTCGCTGGAAAATTG
GTGATCAG
						
					

			
		

Sequences
Splice junction sequence	TCCACCCCATGAAGGAGAAAGTGAATATCCAGGTCTTGAATGTTCTGGAACTGTTGAAGCCGTC GGCAAGGACGTTATTCGCTGGAAAATTGGTGATCAGtatgtgctctcattggtggaggaggtta tgcagagaaagtagctgtacctactggacaagttcttcctattccatcaggtgtttctttacaa gatgcagc
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	TATGTGCTCTCATTGGTGGAGGAGGTTATGCAGAGAAAGTAGCTGTACCTACTGGACAAGTTCT TCCTATTCCATCAGGTGTTTCTTTACAAGATGCAGCTAGCTTTCCTGAAGTGGCATGCACTGTT TGGTCGACCATTTTCATGACGAGCAAGCTTTCCTCGGGTGAAACGTTTCTGGTGATTAGACAGA CCATAGCTATTCTTTTAAACAATTTGTTGTTTAGCAGTAGTTCCTTTTTCTTTTATCTATGCAG ATTATCAGCCATTTAGTCAATTGGCAGAGTCTTTTGGGTAGTATGTTCACAATTGAATCTTTAT GTCCTTGATTCTGGTGGAGTAAGATCAAGTACGTGAAATGACTGATAGCTACATGTGTTACATT CAGATACATGGAGGCTCTAGTGGAATTGGTACCTTTGCCATTCAAATGGCTAAGTGCCTTGGAG TCAAAGTTTTCATCACAGCAGGTTCATGATGATATCTTATCTTATTATGGAACTGAAATCATTC AGCTAACCATGTCAAGTCTTGTTAACCAGGAAGCGAGGAAAAACTTGCCGCATGCAAAGAACTC GGGGCTGATGTTTGCATCAATTACAAGACTGAAGACTTTGTTACACGCATCAAGGAAGAAACAG GAGGGAAAGGTAATCATTATCATAGGCATCATTTATTATATTAGAAACTAGGTCTGCTTGATAA ACAAACAACAACTACGCCTCAGTTCCAAACAAGTTGGGAACTTGGTCTTTGTGATATCAATTAA AATTCGAATATGCATGTTTCTGTAGAAAATTATGATGGTTATCATATATCTCATGGGGCTATGG GGGAAACCACTCAATTTCTTCTCATGTCTGACATTGGTGATATTCTAATTTCGATGTTCAACAC AGGTGTTGATGTCATACTAGATAATATAGGAGGTTCATACTTCCAACGAAACCTTGACAGCCTC AATGTTGATGGTAGGCTCTTCATTATTGGTTTTATGGGAGGAACAGTGACACAAGTAAATCTTG GCTGTTTGTTAGCAAGACGCCTGACAGTGCAGGGTAAGTGCAGATGCGCTCTGATATATTTGGA GTGATCTTTTCTGTGAAATGTATTCTTAAATTTGATATGGTGAACTTGTCTGACCAAATACTCG AACAAGCATGCTGTTAGTCAACTGGAAGAGAGATATCTCAAGACACTTTACTGTAATTCCAGTT TCTTTCTATTCCCACCCCACCCTGACTAGCTCAATGAGTGGGGCAGAGATTGTATTCATATAGT TGCACATGCCAATAGATGACTTCTAAGGTCTTGTGTTCAGTTGGGCTTAGAGTGTAGATTCAGT TGGTTAATTCCATGGGGAAGCAATGATTATCAATTGCAGCTGCAATTCTAATAATTGGTGCACA AGAAATGAAGTAATCTTAATTTACCCTGATCTTAATATTCTCTAACTTCTCTTTCTGCTGCATC TTTTTCGTTACATGCAATTGCTTCTACTTCAATGAAGCTTATGTAAAGCAAGTTTCTCTCTCTT CCTCGTTTGTGTGTGTATATCCAGATCCTAGTGTTCTCCACTTCGCAAATGAACTGTCTTGAAG TCTCGGTGTTCATTTGCCTCGTTGATATCCCTTATTTTGACAGAGTGAGAAGCTAACTTGTGTG ACACGTGGAAACCATGTGTTTGTATCTTTCTTCCATTTTTATAAGGCTCTCTCACATATCCTAC CATGCTCCTTTACTTTTGTCCTCTTTACTTTCCCTCGCTTCACTTCTACTACTGTTCCTCCCGT AGCTTTAGTTCCTTGCAGTAATCAGCCTCAGTTATCTCATAAACAGTCCTGACTTTCAACCACC AACCATGGTTTATAATAATCTGGTGACTTCTATGTGCACTGGCCTACTTTAATTTATTTCAGGA TGGGAAAGATAAGATAGTGTAATAGAAGAAAAAGCAACACAAGCTTCCACTGATATTACTGGGT TTTATTAGATGGTATAGGTCTCAATTTAATATCAGGAGAACTGAAATATTATGATTCATTTTTC ATATATTTACCTTATCAAGAAAAAAAGAAAAAAAAAAGAGAAGGTGATTCATCTTTCATGTGAA GTTGAGCTATGTCTCTTCTTTGAAATCCTCATTTAGTAATTCTTCGTCAACTTGGTCAAATTTC GGCCTCTTCCTCCTGGGTACTTGTTATGGTTAGTTTGAATTTTGAAATTTTGAAATTATTAGTC CAGCTCTCTCATTCTCGCATAATCCTATCCAATGTGTCTATTCCCTCCATGTTCTAACTGATCC TTCTCTTAGTTGAAGAATCCTTCATTGATATCTTTGAGGAAGTTCTCTTTTCAAAGTGCATAGA CAATTGGAGAGAAAAAATTCTTTTGGAATGTTGAAATCTAGTCTCATGGATTTTTTCTCTGAAT GAATGCCATGGTCCTCATTTTTTATTGCTTTTCAGTAGTTTTTATGTCAATTTGTGACTTTTCT ACAGCTGCTGGCTTGCGTAGTAGAAGCACAAAAAACAAAGCTCAAATTGTGAGAGAAGTGGAAA AGAATGTTTGGCCAGCAATTGCAGCAGGCAAGGTGAAACCAGTGGTGTACAAGTACTTCCCCTT AGCAGAAGCTGCTGAGGCTCACCAGTTAATGGAAAGCAGCAAGCACATTGGAAAGATTCTGCTT ACTGTTTAAATGTTGTAAAAGAGAGATTTTCTTGTTCCTAGTGTTAAAATTGCCTGTACTCCCA GCCAGTCAACCCCCCAAACCTCTGCTGCATGTATTATACTTTGCAATGTTCCAATAAAACAAAA CCTTTTTATGATTTTTTTTCATTTTTTTGTTTGCGTAAAATAGATTTGCTGTCTATTTCCAAGC TAAGTACAAAATACAGAATTTGCATGTCATTCTAATAATAGAACAAAAACCATGAACACAGCTG GAAAAAAGAGCAAAGGTTTCCTTATAATATTCTGCAAGTCATACAATTTTGTATATCATGTTTG GTAGCAAGTTTTGAGATATTTACCTGAAATTTTACTTGTCAAGTTCAAATTTTTGATGATCATA CCTAAAGTTTCATATATGTAGTATTTTTTAAAACAAATTTGAACTACCAATCTTTATCCCTACA ATATTTTCATGTTTTTTTCTCAATAATATCCACTTGACATAACTTTAATTGTGCATTAATTTTT TATAATGTAAATCATTACTCTTATCTTTAACTTTATTTTTTTGTTGTTATTATTAAAAGAAACT ATAGATCGAGGTGATGTTGCAACTAGACAGAACATACAGCTATCAAGAACAATAATAGAAACAA AATACTCCTCCTCTGTTACTTTTTTTTTTCCTAGTTCGGCGGCTAGTCCAACTATTTTGAATTC GCGCCACATAAGAAAGAAAACACTCCCTACAAAAGATTTTTTCATATCCAGGCTCGAATTCGAG AGTGGAGTAGCAGCCCATCTGCTACACAACATGTGGTACTCTACTACTCCTTTATGTATGCAAT AAAGTCTAGTAAATCTCTTCAACTCTTCCCAAAACCTTGTTAAATCAGTGATAAAATTGATTGT GATTAACGAAGGATGAAAGCTGTAGTAATCACAAGGCCTGGTGGTCCAGAGGTGTTGAAGCTTC AAGAAGTGGAACACCCACAAATCAAAGAAGATGAAATCTTGATCAAAATTGCAGCTACTGCCAT TAATAGAGCTGACACCCTTCAACGCCAAGGTGAACATCCACCCCATGAAGGAGAAAGTGAATAT CCAGGTCTTGAATGTTCTGGAACTGTTGAAGCCGTCGGCAAGGACGTTATTCGCTGGAAAATTG GTGATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.669488228

Conservation Information
Conserved circRNAs	NA
PMCS	0.669488228

			
						 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 PGSC0003DMG400022418_circ_g.1

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