Plant Circular RNA Database

Detail information of PGSC0003DMG403027324_circ_igg.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG403027324_circ_igg.1
					
						ID in PlantcircBase
						stu_circ_001522
					
						Alias
						chr11:4390998|4394107
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr11: 4390999-4394107  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							PGSC0003DMG403027324_circ_igg.2 						
					
						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  
						
							CT-CC							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	PGSC0003DMG403027324_circ_igg.1
ID in PlantcircBase	stu_circ_001522
Alias	chr11:4390998\|4394107
Organism	Solanum tuberosum
Position	chr11: 4390999-4394107 JBrowse»
Reference genome	3.0.38
Type	igg-circRNA
Identification method	CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	PGSC0003DMG403027324_circ_igg.2
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	CT-CC 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  
						
							GCCTTGTACAAGCAATCTTCTCTTTCCATGCGATTCATGTGCGTAATAAAGTTGTTATGAACTC
AAGGTAATCAATTGTTTCATTTCCATCAACAATAGCtgaccagtatgacaatagcaggattcct
cttgagctccttagggagtttggtcatggaattcagtagttacaatcaaggtaaatagcttagt
cttttaaa

									
								

					

						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
						
							TGACCAGTATGACAATAGCAGGATTCCTCTTGAGCTCCTTAGGGAGTTTGGTCATGGAATTCAG
TAGTTACAATCAAGGTAAATAGCTTAGTCTTTTAAAATTCTTAGAAGAATTAGTCATTTCCCCT
TCAATTGAGGCTAACATAAGATATTTGCTAGCTTCAGTGAAACAGATTCAAAAGAAGACATAAT
TTAGTTAGTGGTTTAGAGAGAAGCTTTGTTTCGGATTCTTTTATTAACACTGAAACACTGTACC
TTTTTTATGAAACACTAAAACAATATACTCGAAGCCTGTATGAATTAAAAATCATATTGCCAGT
TAAATCAAAGTTAATATGCCATCAAACTGAATGACACTTGGGGAGATAAAATCGCAGTCACATT
TTACGGCACACAAGATCTCCCTGTGCAAGTCACCTACATACAATACTTGGGATTATTTTAGGTT
GAAGTTAATTTTCCAAGAAAAATATGGATTCACAATTTAAAAGAAAAGAGTAAGACTTTCCTTG
TCTCATTAAATAAAGGGAAAAAGGACGGATTTACCCCCGAACTTTGATAAATGGTATGTATATG
CCCTCCGTTATACTTTGCGTCCACTAAGCCCCTGCCGTCCAATTATAGGTACATGCATGCCCCT
CTCACTAACAGTCCCCTCATATTGTACACGTGTCTTAATCCTAATCAACTACCCGTTTGACCTT
TCTTTTTAACCCATAAACGAACAACCCGCCCCATAAACCCAATACCCACCCGATTCCCTCTAAG
ATAAATCCTAATTAAAAGACCCAAATCTCCATTGGAGAACAGCTTCAATTTGGGTTGTGACAAT
TCGTTGGGTGTGTTGAATCAAGGTGGGAATGGGATGATGAATACTGGATTATAAATCATCCCAT
TCCCACCTTGATTTAACACACCCAATGAATTGTCACATCCCAAATTGAAGTTGTTCTCCAATGG
AGATTTGGGTCGTTTAATTAGGATATATCTTAGAGGGAATCGGGTGGGTATTGGGTTTATGGGG
CGGGTTGTTAGTTTATGGGTTAAAAAGAAAGGTCAAACGGGTAGTTGATTAGGATTAAGACACG
TGTATAATATGAGGGGACTGTTAGTGAGAGGGGCATGCATGTACCTATAATTGGACGGCAGGGG
CTTAGGTGGATGCAAAGTATAACAGAGGGCATATACGTACCATTTATCAAAGTTCGGGGGTAAA
TTCGTCCTTTTTCCCTTAAATAAAATGAGTACAACAACTTTACCTCAAAAAAATACTATTTTTG
TCAATTCAATTGTGAACTTCTAAACTGACATAACGTGATACTTACGTTCTTAAATTTCAACAAA
TTTCAAAAATAACCAAGTATACTCAAACACGTACCATTTGAAAAAACCCACTTAAAATAGAGTT
TCACAATCTCAAACTCCCAACCAGGTAACCTTAAGTGAAAAGACAGTGAACAAAAAGGCCTGAA
TGCGACTCTTCATAATGACAGCCAGAGAAACTTAAAGGATGATCTCACTCTCTTTGTCAAAATC
ACGAATCAACATATGAAAATTAGACTGAGAAAAGTAAAACACAGAGTTCAGTTTTTTTCCTAAA
TATTCCAAACCAAAGCAAAATTCTCAGAAAAAATCACAGAGGCGAAACTGAAGTGGTATATTGA
TATCCAGACAATATAATATTAGAACGAACGAAATTAAAGGAACAAACCTCAGCTAAAAAATTCC
TCCTTTCTCTAACACACTCTCCAAATAATTTTTTCCTCTCCAAGTGAAATTAAGTGGCACATGA
AAGAAAGAGAAACGAGAAATGAAAAGTGCTAGAAGAAATAGAACTTGAAATGTGAAGTATTGAA
GCAGTCAACAATACAAGTTATTTTATGGAACAAAATAGCGTAACACGTGTTGACAAAGAAAGAA
CCAAAAGTGAATGCCCGAAAAAATAAGTTCAAGTTTATAATACACTTTACATAGCCTAATGTAC
AATCAGTTTTTGCAATGTTCGTCCAACTGTTTCAAGTTGTGTATTGTATTATCTTTTATTGTAT
TGTACAATCAGTGAGTGCTGAATTGTTTGATTGAGATTAAATAGACAGATTTTATATTGATATT
GACAATTGAAAAGAAAAGAAATTATACATCTTCATGCTCACTTTACAGTCGAGAGGGAAATGAT
TATTGGAGAGAAGTACATATCCCAAACATGGAAGCTAAAGTCTCTAATTGAAAGAGATAACGAA
TATGTTGAACTTGAGATTTGTCTAATGCTCATATTTTACACGAGATTCAGTCCACGAATGTTTG
TTCCTCGAGACAGAAGACATGTTGAACATGAGATTTGTATCTTTAAATACACGGTAAAAAATTA
ATATATTTTCCCTTGTCTTATTTTCTTTAAGAAAGTCTCTTGTTTGTCACAAGAAAAAGAAAAA
TCTCTCTTGTATATCCAATTGATGTCTCTATGTTGAGAAATTTGAAAAGAAATAGGAGAGGATT
TGAGCAAAAATGAATAGAAGAAGTTAAGCTCAAATTGGAAAGAAGACCTTGCTAAGAAGATTAA
GAGAACATAGTGTGTCGGTGGAAGAGAGTAGCAAATTACATTTTAGAATAATGCTGAGTATCAA
TGTAAAATGACAGATATACCATTGGTCGTTCATTACTTCATCTTTCTATATAATAGGATAGAAA
TCACATTTTCTGTTATATTTTTCCTTGTTGCTCAAACAAGAAATTATCACAATCACAAGACGTT
TAGATGTTGTAAATAGAAATATCATATAAACGTGCATAAAGAAAAGGATACCGTACAATGTCTG
TGTCAACTTCAATAATGATCTCTTTTATTGTTTTTTCATCAGTAATGTTGTATTCCTTCAGCGC
ATGCTCCAATTCTTCCATCGTAATATACCTAAAGGGAACAAAATTAGAAAACGATAAAATGTTA
ACCAAATATGGAGGGGCAGGTGGATAGCTTCATACCCACTCTTATCCTTGTCGAAATACTCAAT
GGCCTTGTACAAGCAATCTTCTCTTTCCATGCGATTCATGTGCGTAATAAAGTTGTTATGAACT
CAAGGTAATCAATTGTTTCATTTCCATCAACAATAGC
						
					

			
		

Sequences
Splice junction sequence	GCCTTGTACAAGCAATCTTCTCTTTCCATGCGATTCATGTGCGTAATAAAGTTGTTATGAACTC AAGGTAATCAATTGTTTCATTTCCATCAACAATAGCtgaccagtatgacaatagcaggattcct cttgagctccttagggagtttggtcatggaattcagtagttacaatcaaggtaaatagcttagt cttttaaa
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	TGACCAGTATGACAATAGCAGGATTCCTCTTGAGCTCCTTAGGGAGTTTGGTCATGGAATTCAG TAGTTACAATCAAGGTAAATAGCTTAGTCTTTTAAAATTCTTAGAAGAATTAGTCATTTCCCCT TCAATTGAGGCTAACATAAGATATTTGCTAGCTTCAGTGAAACAGATTCAAAAGAAGACATAAT TTAGTTAGTGGTTTAGAGAGAAGCTTTGTTTCGGATTCTTTTATTAACACTGAAACACTGTACC TTTTTTATGAAACACTAAAACAATATACTCGAAGCCTGTATGAATTAAAAATCATATTGCCAGT TAAATCAAAGTTAATATGCCATCAAACTGAATGACACTTGGGGAGATAAAATCGCAGTCACATT TTACGGCACACAAGATCTCCCTGTGCAAGTCACCTACATACAATACTTGGGATTATTTTAGGTT GAAGTTAATTTTCCAAGAAAAATATGGATTCACAATTTAAAAGAAAAGAGTAAGACTTTCCTTG TCTCATTAAATAAAGGGAAAAAGGACGGATTTACCCCCGAACTTTGATAAATGGTATGTATATG CCCTCCGTTATACTTTGCGTCCACTAAGCCCCTGCCGTCCAATTATAGGTACATGCATGCCCCT CTCACTAACAGTCCCCTCATATTGTACACGTGTCTTAATCCTAATCAACTACCCGTTTGACCTT TCTTTTTAACCCATAAACGAACAACCCGCCCCATAAACCCAATACCCACCCGATTCCCTCTAAG ATAAATCCTAATTAAAAGACCCAAATCTCCATTGGAGAACAGCTTCAATTTGGGTTGTGACAAT TCGTTGGGTGTGTTGAATCAAGGTGGGAATGGGATGATGAATACTGGATTATAAATCATCCCAT TCCCACCTTGATTTAACACACCCAATGAATTGTCACATCCCAAATTGAAGTTGTTCTCCAATGG AGATTTGGGTCGTTTAATTAGGATATATCTTAGAGGGAATCGGGTGGGTATTGGGTTTATGGGG CGGGTTGTTAGTTTATGGGTTAAAAAGAAAGGTCAAACGGGTAGTTGATTAGGATTAAGACACG TGTATAATATGAGGGGACTGTTAGTGAGAGGGGCATGCATGTACCTATAATTGGACGGCAGGGG CTTAGGTGGATGCAAAGTATAACAGAGGGCATATACGTACCATTTATCAAAGTTCGGGGGTAAA TTCGTCCTTTTTCCCTTAAATAAAATGAGTACAACAACTTTACCTCAAAAAAATACTATTTTTG TCAATTCAATTGTGAACTTCTAAACTGACATAACGTGATACTTACGTTCTTAAATTTCAACAAA TTTCAAAAATAACCAAGTATACTCAAACACGTACCATTTGAAAAAACCCACTTAAAATAGAGTT TCACAATCTCAAACTCCCAACCAGGTAACCTTAAGTGAAAAGACAGTGAACAAAAAGGCCTGAA TGCGACTCTTCATAATGACAGCCAGAGAAACTTAAAGGATGATCTCACTCTCTTTGTCAAAATC ACGAATCAACATATGAAAATTAGACTGAGAAAAGTAAAACACAGAGTTCAGTTTTTTTCCTAAA TATTCCAAACCAAAGCAAAATTCTCAGAAAAAATCACAGAGGCGAAACTGAAGTGGTATATTGA TATCCAGACAATATAATATTAGAACGAACGAAATTAAAGGAACAAACCTCAGCTAAAAAATTCC TCCTTTCTCTAACACACTCTCCAAATAATTTTTTCCTCTCCAAGTGAAATTAAGTGGCACATGA AAGAAAGAGAAACGAGAAATGAAAAGTGCTAGAAGAAATAGAACTTGAAATGTGAAGTATTGAA GCAGTCAACAATACAAGTTATTTTATGGAACAAAATAGCGTAACACGTGTTGACAAAGAAAGAA CCAAAAGTGAATGCCCGAAAAAATAAGTTCAAGTTTATAATACACTTTACATAGCCTAATGTAC AATCAGTTTTTGCAATGTTCGTCCAACTGTTTCAAGTTGTGTATTGTATTATCTTTTATTGTAT TGTACAATCAGTGAGTGCTGAATTGTTTGATTGAGATTAAATAGACAGATTTTATATTGATATT GACAATTGAAAAGAAAAGAAATTATACATCTTCATGCTCACTTTACAGTCGAGAGGGAAATGAT TATTGGAGAGAAGTACATATCCCAAACATGGAAGCTAAAGTCTCTAATTGAAAGAGATAACGAA TATGTTGAACTTGAGATTTGTCTAATGCTCATATTTTACACGAGATTCAGTCCACGAATGTTTG TTCCTCGAGACAGAAGACATGTTGAACATGAGATTTGTATCTTTAAATACACGGTAAAAAATTA ATATATTTTCCCTTGTCTTATTTTCTTTAAGAAAGTCTCTTGTTTGTCACAAGAAAAAGAAAAA TCTCTCTTGTATATCCAATTGATGTCTCTATGTTGAGAAATTTGAAAAGAAATAGGAGAGGATT TGAGCAAAAATGAATAGAAGAAGTTAAGCTCAAATTGGAAAGAAGACCTTGCTAAGAAGATTAA GAGAACATAGTGTGTCGGTGGAAGAGAGTAGCAAATTACATTTTAGAATAATGCTGAGTATCAA TGTAAAATGACAGATATACCATTGGTCGTTCATTACTTCATCTTTCTATATAATAGGATAGAAA TCACATTTTCTGTTATATTTTTCCTTGTTGCTCAAACAAGAAATTATCACAATCACAAGACGTT TAGATGTTGTAAATAGAAATATCATATAAACGTGCATAAAGAAAAGGATACCGTACAATGTCTG TGTCAACTTCAATAATGATCTCTTTTATTGTTTTTTCATCAGTAATGTTGTATTCCTTCAGCGC ATGCTCCAATTCTTCCATCGTAATATACCTAAAGGGAACAAAATTAGAAAACGATAAAATGTTA ACCAAATATGGAGGGGCAGGTGGATAGCTTCATACCCACTCTTATCCTTGTCGAAATACTCAAT GGCCTTGTACAAGCAATCTTCTCTTTCCATGCGATTCATGTGCGTAATAAAGTTGTTATGAACT CAAGGTAATCAATTGTTTCATTTCCATCAACAATAGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.131334145

Conservation Information
Conserved circRNAs	NA
PMCS	0.131334145

			
						 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 PGSC0003DMG403027324_circ_igg.1

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