Plant Circular RNA Database

Detail information of PGSC0003DMG400026195_circ_ig.2

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400026195_circ_ig.2
					
						ID in PlantcircBase
						stu_circ_000941
					
						Alias
						chr07:47508945|47511335
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr7: 47508946-47511335  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
						
							PGSC0003DMG400026195_circ_ig.1 PGSC0003DMG400026195_circ_ig.3 						
					
						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
						NA

General Information
CircRNA Name	PGSC0003DMG400026195_circ_ig.2
ID in PlantcircBase	stu_circ_000941
Alias	chr07:47508945\|47511335
Organism	Solanum tuberosum
Position	chr7: 47508946-47511335 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	PGSC0003DMG400026195_circ_ig.1 PGSC0003DMG400026195_circ_ig.3
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	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  
						
							GAGAAGTGGAAGAAACTGGAGGATGACGAAGCTGCCTTGATGGTGAAGCGCTTAGATTTGATTG
CGGAGCATTACGGATTGGTGGTTGATGCAATGAGAGctgagctagtattgattcattgaaggga
atagttagaagagggtactgaagctgcaaaatttctggaatattatattcaacagacagcaaca
ggaagtta

									
								

					

						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
						
							CTGAGCTAGTATTGATTCATTGAAGGGAATAGTTAGAAGAGGGTACTGAAGCTGCAAAATTTCT
GGAATATTATATTCAACAGACAGCAACAGGAAGTTATAGTTACTTAAAACAGGATATTGCTTTG
TTGAGAAAATGAAACAAAAGACTATTGAAGATTTGCCTCCCCGAGAGAAGCAGATTTTGTTGCA
GTACTTAAAAAGAAAAAAATGTGCCAATCCATGTTTCTGAAAGTGATGATGCATCAGTACTTGG
TTTAGCAAGTATGAAGAGCTTTTTTCACAATTGTCACGCGTTCCTAGGAGGTACCTAAGAAAAA
GAAAAAACCATTTTGCCAAAAAAAATGTGCTCCAGTTCCATCCCTCGCTTCATCTCCAATCCCT
GCAACTGTTCTGTCTCCCGCTCCCTCTCCAGGTCCTGCAGCAGTTTCAACCCTCGCTCCATCTC
CGGGTCCTGCAACTGTATCACCAGTTTATGCTCCAGTTCCTTCTATTGTAAGTGCCCACTAGCT
CTCCTCCAGCTGTGCAGCCTCCTTCTCCAGTTCTAAAACCTCCTGCAAAGCCTCCAAAAGTTAG
AACTCACACCAGTTCTTCTAAACCTTTGCCTGTTAATCCTCCAGATAAACCACAAAATGGTCCT
AATTCTCCGGGAAATAATCAAGAGCATCGAAATTATTTATTTGCTGCAGGGGTTGGATGTTCCG
TTGCAGGAATACCTTTCTAGCTCTGTTGATATTCTGTGTTAAGAATAAAAGGAAAGAAATTACT
CCAAATGATGGGCAAAGGGATGGGAAACCGCCTCTGAATTTGAATGCAGGTGTCTATTTGCTGC
TATTTATCATGATGGTTAATTAATCTCATCGTATCATTCTTTTTCATTTCATTTCAGTAATTTG
TATGATTTGTATTGTCAGGTTCTTCTCTAAATGTCAAGAGTGCATCTGCTGTAAATGATGCTGA
TCCTCATAAATCTTCCGAAGCAGACGCGGAACTGTCAAAACCTGAGATGAATGCAAATGCTCAT
GCACCATTACCTCATCCTCCAGGAAAGTCTGCACCTCCACTTCCTGGTCCTCCACCATCTCTTC
CTCCTAAACCACCTACTCCTAGCCCACCTCCACCTCCAAAAGTTCGCCCTCTTAATCCACCAAA
ACCTGGTAATTTTCCAAAGTCTTTACCTCTTCGAGCACATCAGAGAGGATGTTCTTCTGAGACC
AGGGGAAGTGACTCATTGGATCTGATGCTCCTAAAACAAAATTAACACCATTTTTTTGGGACCA
GGTTCTTGCTAACCCTGACCACTCTATTGTTTGGCATGAAATAAAAGCCGGCTCATTCCAGTAA
GCTTCGCACTGATCTTGCTATTCACTTGCTCCTGTGAAAGTTTAACTGTTTCTGTTTTTACCAT
TCTGATTGCTGAGTTTTATTACAGGTTTAATGGGGAGATGATGGATTCTTTTTTTGGATACATA
CCAGGAGACCAAGAGAAAGATGATTGAAAGCTACCTTATCCTTTAATCAAACCTCACAGTACAT
TCAGATTATTGATCCTAGGAAATCACAAAATCTAGCAATTCTCCTCAAAGCCTTAAATGTGGCA
ACAAAAGAAGTTTATGATGCTCTCAAGTAGGGGTGGCAAATGGGTGGATTGGATCGGATTTGGA
TGGATTGACTTAAAATGGATTGATCACAATCCACCCATATAAAATATGGGTAAATATGGATTTG
GTCAAATATGGTTTGGGCAAAATGGTTGTAACCCACTTTAATCTCTTAAAGCCAAAAAATATTA
AATCAAAGCTAAATTGTCAAAGAGTCAACTCCGTGACAAGGTAAGGAGGTTAAAGAAGAAATTT
TTGACTAATGTGAAAGATGATGAGGAACCAGTTTTCATGAAGGGTCAGGATTTTGTTGTTTTTG
AGCATTCAAAGAGGATTTGGGGTGCCCCTGGAACTAGTAATGGAGTTAAGGAGATTGTTAGCAA
TAGCACTAATGGCAAAGCTAAAAATACTGTTGAGGTTAAGAATAGTTCTGAACCTAAGAAAAGT
GCTAAAGTCAGCAAACCCAAGGATGTTTGAAACATAAGGAAGAAGAGAAACAGGTTGCTGTAAC
AGAGGTGGTTAAGGTGGAAATAGTTAAGGGTGATCGACAGGATTTCCAGTCCGAATATCCACAT
TTGGCTGCTTCATTTGAAAGTATGGCTGGCATGTCTACAATGTATCCGAATGGAAAAAGTTTTT
TGAAGGAGAAGATGAGTTTGATTGCTACTGACAAGGCTAAAGTGTTGGAGGAGAAGTGGAAGAA
ACTGGAGGATGACGAAGCTGCCTTGATGGTGAAGCGCTTAGATTTGATTGCGGAGCATTACGGA
TTGGTGGTTGATGCAATGAGAG
						
					

			
		

Sequences
Splice junction sequence	GAGAAGTGGAAGAAACTGGAGGATGACGAAGCTGCCTTGATGGTGAAGCGCTTAGATTTGATTG CGGAGCATTACGGATTGGTGGTTGATGCAATGAGAGctgagctagtattgattcattgaaggga atagttagaagagggtactgaagctgcaaaatttctggaatattatattcaacagacagcaaca ggaagtta
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	CTGAGCTAGTATTGATTCATTGAAGGGAATAGTTAGAAGAGGGTACTGAAGCTGCAAAATTTCT GGAATATTATATTCAACAGACAGCAACAGGAAGTTATAGTTACTTAAAACAGGATATTGCTTTG TTGAGAAAATGAAACAAAAGACTATTGAAGATTTGCCTCCCCGAGAGAAGCAGATTTTGTTGCA GTACTTAAAAAGAAAAAAATGTGCCAATCCATGTTTCTGAAAGTGATGATGCATCAGTACTTGG TTTAGCAAGTATGAAGAGCTTTTTTCACAATTGTCACGCGTTCCTAGGAGGTACCTAAGAAAAA GAAAAAACCATTTTGCCAAAAAAAATGTGCTCCAGTTCCATCCCTCGCTTCATCTCCAATCCCT GCAACTGTTCTGTCTCCCGCTCCCTCTCCAGGTCCTGCAGCAGTTTCAACCCTCGCTCCATCTC CGGGTCCTGCAACTGTATCACCAGTTTATGCTCCAGTTCCTTCTATTGTAAGTGCCCACTAGCT CTCCTCCAGCTGTGCAGCCTCCTTCTCCAGTTCTAAAACCTCCTGCAAAGCCTCCAAAAGTTAG AACTCACACCAGTTCTTCTAAACCTTTGCCTGTTAATCCTCCAGATAAACCACAAAATGGTCCT AATTCTCCGGGAAATAATCAAGAGCATCGAAATTATTTATTTGCTGCAGGGGTTGGATGTTCCG TTGCAGGAATACCTTTCTAGCTCTGTTGATATTCTGTGTTAAGAATAAAAGGAAAGAAATTACT CCAAATGATGGGCAAAGGGATGGGAAACCGCCTCTGAATTTGAATGCAGGTGTCTATTTGCTGC TATTTATCATGATGGTTAATTAATCTCATCGTATCATTCTTTTTCATTTCATTTCAGTAATTTG TATGATTTGTATTGTCAGGTTCTTCTCTAAATGTCAAGAGTGCATCTGCTGTAAATGATGCTGA TCCTCATAAATCTTCCGAAGCAGACGCGGAACTGTCAAAACCTGAGATGAATGCAAATGCTCAT GCACCATTACCTCATCCTCCAGGAAAGTCTGCACCTCCACTTCCTGGTCCTCCACCATCTCTTC CTCCTAAACCACCTACTCCTAGCCCACCTCCACCTCCAAAAGTTCGCCCTCTTAATCCACCAAA ACCTGGTAATTTTCCAAAGTCTTTACCTCTTCGAGCACATCAGAGAGGATGTTCTTCTGAGACC AGGGGAAGTGACTCATTGGATCTGATGCTCCTAAAACAAAATTAACACCATTTTTTTGGGACCA GGTTCTTGCTAACCCTGACCACTCTATTGTTTGGCATGAAATAAAAGCCGGCTCATTCCAGTAA GCTTCGCACTGATCTTGCTATTCACTTGCTCCTGTGAAAGTTTAACTGTTTCTGTTTTTACCAT TCTGATTGCTGAGTTTTATTACAGGTTTAATGGGGAGATGATGGATTCTTTTTTTGGATACATA CCAGGAGACCAAGAGAAAGATGATTGAAAGCTACCTTATCCTTTAATCAAACCTCACAGTACAT TCAGATTATTGATCCTAGGAAATCACAAAATCTAGCAATTCTCCTCAAAGCCTTAAATGTGGCA ACAAAAGAAGTTTATGATGCTCTCAAGTAGGGGTGGCAAATGGGTGGATTGGATCGGATTTGGA TGGATTGACTTAAAATGGATTGATCACAATCCACCCATATAAAATATGGGTAAATATGGATTTG GTCAAATATGGTTTGGGCAAAATGGTTGTAACCCACTTTAATCTCTTAAAGCCAAAAAATATTA AATCAAAGCTAAATTGTCAAAGAGTCAACTCCGTGACAAGGTAAGGAGGTTAAAGAAGAAATTT TTGACTAATGTGAAAGATGATGAGGAACCAGTTTTCATGAAGGGTCAGGATTTTGTTGTTTTTG AGCATTCAAAGAGGATTTGGGGTGCCCCTGGAACTAGTAATGGAGTTAAGGAGATTGTTAGCAA TAGCACTAATGGCAAAGCTAAAAATACTGTTGAGGTTAAGAATAGTTCTGAACCTAAGAAAAGT GCTAAAGTCAGCAAACCCAAGGATGTTTGAAACATAAGGAAGAAGAGAAACAGGTTGCTGTAAC AGAGGTGGTTAAGGTGGAAATAGTTAAGGGTGATCGACAGGATTTCCAGTCCGAATATCCACAT TTGGCTGCTTCATTTGAAAGTATGGCTGGCATGTCTACAATGTATCCGAATGGAAAAAGTTTTT TGAAGGAGAAGATGAGTTTGATTGCTACTGACAAGGCTAAAGTGTTGGAGGAGAAGTGGAAGAA ACTGGAGGATGACGAAGCTGCCTTGATGGTGAAGCGCTTAGATTTGATTGCGGAGCATTACGGA TTGGTGGTTGATGCAATGAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.141767476

Conservation Information
Conserved circRNAs	NA
PMCS	0.141767476

			
						 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 PGSC0003DMG400026195_circ_ig.2

Address

Any questions?

Supported by