Plant Circular RNA Database

Detail information of PGSC0003DMG400005129_circ_igg.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400005129_circ_igg.1
					
						ID in PlantcircBase
						stu_circ_000215
					
						Alias
						chr01:83264902|83268969
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr1: 83264903-83268969  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
						
							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  
						
							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	PGSC0003DMG400005129_circ_igg.1
ID in PlantcircBase	stu_circ_000215
Alias	chr01:83264902\|83268969
Organism	Solanum tuberosum
Position	chr1: 83264903-83268969 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	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	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  
						
							GAAAATTGACTAGTAAACAGACACAGGTCCTCCAATGTGAGTTTATGAAGTTCATCCTCAGCGG
GGCATTTCTTTTGTATGCAAGGCAGATTGATGCATCagcagcccaccggcgaggcatgattctt
ttccagtccaattacaacaatgggaattacgggagacgcggaatttagggaatgggaatcagat
ttttttaa

									
								

					

						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
						
							AGCAGCCCACCGGCGAGGCATGATTCTTTTCCAGTCCAATTACAACAATGGGAATTACGGGAGA
CGCGGAATTTAGGGAATGGGAATCAGATTTTTTTAAAAAATATTTTGAGTAACTTCTGAAATTG
TCAAATCAAGCTTTTGGAAGAATTTGAGATTTTATATCATGAGATTAAATCGTATTGATCACGT
TGGGTCTTAACCCTTCTTTAGCCTATTTTAGTGTAAGTAACTTTTTGAGTAAGTCAATAAACCA
CTACTAAAAAAATTAGTGTTTAGCGACCACAAAATTAATTTTGTTGGGAATATAACAAGTAAAT
TTTTGGTTTATCAATATAGCGACAGATTGTTGATGAACTATTTATTAGCGCGAATAATTGGCAC
CTTAGTATTCCCTACCGATTTAACAGCAGAAGGGTTACGGCAAATTGAATTAATTTTGAAAGAC
AGATATAGCAACGAAAAATCTGTCGTTACCTCTTTAGATTAGTGATATTGGGAAAGATATCAAA
ATCTTTATATATTTTTTCTATAGTTGTTGAGTTTTTATAGCATTGCTTTTAAGTGCACATAATA
TTGTTAACAACTTCAAAGTTATCTTTCAACTGCTGTGACTTGTTGCAACCTTCGACTGCTGCGA
CTAGTAAAAGTAAGTTTGATACTGTTTCTTCTTCTCTTTGACTGCTGTGACTAGTGAAAGTAAA
TTTGCTACTATTTTTTCTTCTCTGTTTTCATTACTATTATGTACTCAACTTCACTGTGGTGGGA
TGAGTTACTCTTTCTTCTCATGTTCTTTTCTACTTTCTTCACTTCTTAGATGTGCTCTAGTTAT
TTTTCTCTTCTTCTTTGCAGTTTTCTTGAGCTTTTTTTCAGCTCTGTAATTTTTCTCTCACAGG
TCTCAGTTCTGTAAAAAATAATTCTATAAAATTTCAGCTCTTGAGTTTTTTATTACCATTGGTT
TTAAGCAAACGTGCATTGTAAATTTTCTCTTGATTTCACTAAGATACTTGCAACTGTAAAACAT
TTCAGGTACTTTAGCCATATTTTAGGAATCAGTAAAGTCATATTTGAATGAAACTTCTTGACTG
TCAATAAGGAGGGGTGATTGTGTGCTACTTGTATGAATTTCATTACCTTCTATTCTTCTTTTTT
GTATAATTATCCATATTTTAACAATTCAAAAGTAACTAAAATAATTCACGAACATAAATAATAT
GAAAAAAAATATTAAGTTCAAGCAAGAAATTACTACTCACTTCCGTTCTTTTTTACATGTCTCT
TGTTCACACTCACTTTAAGAAACTAATCCCTCTTATTTTTCTTTTACCTAACTGCTAAGAAAAT
ATTAATTGGAAATAAATTTTAACTATTTCTATTTCATCCTTATTTATACCTTAAGTTTTCATAT
TTCTTCATGAAACATTCACTCTATTTATGTTTCATTTTGAGGTGTTTGCGTCTTCAACAATAAT
TACTAGTAAGGGTAAAATAAAAATTTGAGATGAAGAAAATATTTATTTTACTGAACTATCCTTA
CTAATTATACTTTTAAAAATCTAAGCTTGACTACCACTTATTCACTTTTACTTGTCCACATTTA
CTCTGGAGGTGGCATTTGAACGGATCGGATCAAACTTAACAAGATTGCGTGCTACTTTGAAATC
TGATCATGTTGAAGAAAGAGAGTTCAAATAAAACTACCCAACTATCAAGGATGCACATTAATTT
CTTCAACATGCTCCTGCACAGCACGTAAACCTTCCAGACGAGCAACAACTTCTTTCATGTTTGG
TCGTTTCTTTGGTTGCTCTTCTACACACTGTTCTGCAAGTTTTGTGATTGCAGCTCCATCAAGA
AGATCAAAACCTGGATCACTCAGAAGACTTTGGTGGACAAATGAACACCCAGGCTTGAACTCTT
TCAAGGCCCATAAATCAAGTGCCCTATCTAAAGGGTTTCCATACTCAACAACTCTTTTGCTTAT
AAAATTTAAGAGCAAAACACCAAAGGCAAAAACATCCGACCTGACACTGAACGTATCTGCAAAG
TATTTGACAAATTACAAACATGGTTATAGGACAATGAAAAGAAGCTTTAGCATGACAGATAAAA
CTAAGGCAAACAAACTTGACTTCTCAGGTAAGCAGCACATGATTTTTTATTTTATTTTTGGAAA
TGCAAAGAAAGAAGCACATCAAAAACTACAAGAATAAAATGAAACCACAAAATGAAAAGAGAAC
ATAAAAAAATATATTGCATAGTGCAAATCAACAAAAAAACATAATATATAAACAATACTTTTAT
AACTATATTGCTCTCCCAAACTACACATCTGCAAGTTATCTCACACCAGATCAACCATAAATAT
TACTGGTTTGTGAAACTCAAGGGTATATTCATTTAAACTGGAGAGGAAAGGAACGGAAGAGAAG
AAAGGAGTGGGAAGCATGATTCTTTTGAAACACAACAACAACATACCCAATGTAATCCCACAAG
TGGGATCGTCTAGGGAAGGTACAATGTATGCTGACCATACCCCACTCCTCCGCATACCTTTGTG
TGTAAAGAGGTTGCTTCTATTTAAACACAAAACTACACAAATCATTTGCCTCTTTTCCTTCTCT
TTTCTTCTACGTCCCTTCATTTCAAACATAACGTCAACTTCTATTAAAACAAACATAAGGAAAT
TGAGGAGAACAACCACTCCAAGAAAACTACTGAGAAAAGTCTCAAAAAGACTCTTAAAGAAATA
AAATTGTGGGTGCCTCTAAAGAAAATATTACTTTCAATATCATGTGATGTGACAATAAAATAAC
ACTATTTTTTCTTTCTTTTATGAAAGTGTTGTCCGCACCAGTTTACACGTTCCTCCACTATTCC
ATTGGATACTTCTCTACCCCATAGGTACGGAGTGGCGGGTAGCACTCTGTCCACCATACCATTT
GATGCAATAATGAAAGTAACACTAATTCGCTAGTGTTATATTTAATGGAAACAAAAGAAGAGAA
CTCGAGTCATACCAGTACCATATTCAAATATGGATGCATCCATGTAGCCATATGGGGCACATCT
CAAATCTGATTCATTGATTGTATTACCCAGAACCCCTCCAACTAACAAACCAAACTCAAACATA
ATTGGCGTGAAATCCTGGAGAGATGAAACGCAAAATATCTTCAGTCACTCAAATTACTGAATAC
AACATCATAGAATCTTGACAACCAAAAATATTGAACAACAAAATGTACCTGGTCAAGCACAATG
TGATATGGAGCAAAGTTGCGAATCAGGTACTTCCTATCATGCAGATAATTAAGCAAGCGAGCTA
ATGTAAGGGCTGTCTTAACCCTCTGCTTCCAATTAAAGTCAGCTGAAGAAGCAAAAGCAGAACA
GTAATTTGATTGTCAACATCTCTCCTACGGATTCTTGGATAAGGAGATTCACTGCATATCGTCT
CCATGGCAACCCCACATTTGCCCTATTAATGACTACAGTTCCTTTGCTCAAAGGATTGACACAC
AATTGCCTTGGTTTGAACCCAAATATAGGTATAGCAGAAAATAGATAAGATTAAAGATGAGTAA
AGATAGACCTCGAGTAATTAAGTTCTCCAACGTATCGTGTGGATTTAGATCATAAACAATCCCC
AAGGTTTCTTCCTCTTGACAATATCCAATCACTTTCACTAAGTTGGGATTGCCCTTAATCCTTG
GAGCTTGCAAAAATTTCAGTTCATACTACGGAAGCATAAACAAAGAAAACAGTCAGCTAAGGTA
AGGAAGCAAGAGAATGAGCTTGCACATACACACAAACCTCAAATCTTTCCAGTTTGTCGTTGCC
TGTATATTTAAACACCCTTTCATCAAGACCTATAATCTTGACAGCGACATCCTTGGTAATATCA
CCAATGACCATCTTCCCACGATAGAGTTTTCCTAAGTGGGTGACTCCAACAAGATTTTTTGGAG
AAAATTGACTAGTAAACAGACACAGGTCCTCCAATGTGAGTTTATGAAGTTCATCCTCAGCGGG
GCATTTCTTTTGTATGCAAGGCAGATTGATGCATC
						
					

			
		

Sequences
Splice junction sequence	GAAAATTGACTAGTAAACAGACACAGGTCCTCCAATGTGAGTTTATGAAGTTCATCCTCAGCGG GGCATTTCTTTTGTATGCAAGGCAGATTGATGCATCagcagcccaccggcgaggcatgattctt ttccagtccaattacaacaatgggaattacgggagacgcggaatttagggaatgggaatcagat ttttttaa
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	AGCAGCCCACCGGCGAGGCATGATTCTTTTCCAGTCCAATTACAACAATGGGAATTACGGGAGA CGCGGAATTTAGGGAATGGGAATCAGATTTTTTTAAAAAATATTTTGAGTAACTTCTGAAATTG TCAAATCAAGCTTTTGGAAGAATTTGAGATTTTATATCATGAGATTAAATCGTATTGATCACGT TGGGTCTTAACCCTTCTTTAGCCTATTTTAGTGTAAGTAACTTTTTGAGTAAGTCAATAAACCA CTACTAAAAAAATTAGTGTTTAGCGACCACAAAATTAATTTTGTTGGGAATATAACAAGTAAAT TTTTGGTTTATCAATATAGCGACAGATTGTTGATGAACTATTTATTAGCGCGAATAATTGGCAC CTTAGTATTCCCTACCGATTTAACAGCAGAAGGGTTACGGCAAATTGAATTAATTTTGAAAGAC AGATATAGCAACGAAAAATCTGTCGTTACCTCTTTAGATTAGTGATATTGGGAAAGATATCAAA ATCTTTATATATTTTTTCTATAGTTGTTGAGTTTTTATAGCATTGCTTTTAAGTGCACATAATA TTGTTAACAACTTCAAAGTTATCTTTCAACTGCTGTGACTTGTTGCAACCTTCGACTGCTGCGA CTAGTAAAAGTAAGTTTGATACTGTTTCTTCTTCTCTTTGACTGCTGTGACTAGTGAAAGTAAA TTTGCTACTATTTTTTCTTCTCTGTTTTCATTACTATTATGTACTCAACTTCACTGTGGTGGGA TGAGTTACTCTTTCTTCTCATGTTCTTTTCTACTTTCTTCACTTCTTAGATGTGCTCTAGTTAT TTTTCTCTTCTTCTTTGCAGTTTTCTTGAGCTTTTTTTCAGCTCTGTAATTTTTCTCTCACAGG TCTCAGTTCTGTAAAAAATAATTCTATAAAATTTCAGCTCTTGAGTTTTTTATTACCATTGGTT TTAAGCAAACGTGCATTGTAAATTTTCTCTTGATTTCACTAAGATACTTGCAACTGTAAAACAT TTCAGGTACTTTAGCCATATTTTAGGAATCAGTAAAGTCATATTTGAATGAAACTTCTTGACTG TCAATAAGGAGGGGTGATTGTGTGCTACTTGTATGAATTTCATTACCTTCTATTCTTCTTTTTT GTATAATTATCCATATTTTAACAATTCAAAAGTAACTAAAATAATTCACGAACATAAATAATAT GAAAAAAAATATTAAGTTCAAGCAAGAAATTACTACTCACTTCCGTTCTTTTTTACATGTCTCT TGTTCACACTCACTTTAAGAAACTAATCCCTCTTATTTTTCTTTTACCTAACTGCTAAGAAAAT ATTAATTGGAAATAAATTTTAACTATTTCTATTTCATCCTTATTTATACCTTAAGTTTTCATAT TTCTTCATGAAACATTCACTCTATTTATGTTTCATTTTGAGGTGTTTGCGTCTTCAACAATAAT TACTAGTAAGGGTAAAATAAAAATTTGAGATGAAGAAAATATTTATTTTACTGAACTATCCTTA CTAATTATACTTTTAAAAATCTAAGCTTGACTACCACTTATTCACTTTTACTTGTCCACATTTA CTCTGGAGGTGGCATTTGAACGGATCGGATCAAACTTAACAAGATTGCGTGCTACTTTGAAATC TGATCATGTTGAAGAAAGAGAGTTCAAATAAAACTACCCAACTATCAAGGATGCACATTAATTT CTTCAACATGCTCCTGCACAGCACGTAAACCTTCCAGACGAGCAACAACTTCTTTCATGTTTGG TCGTTTCTTTGGTTGCTCTTCTACACACTGTTCTGCAAGTTTTGTGATTGCAGCTCCATCAAGA AGATCAAAACCTGGATCACTCAGAAGACTTTGGTGGACAAATGAACACCCAGGCTTGAACTCTT TCAAGGCCCATAAATCAAGTGCCCTATCTAAAGGGTTTCCATACTCAACAACTCTTTTGCTTAT AAAATTTAAGAGCAAAACACCAAAGGCAAAAACATCCGACCTGACACTGAACGTATCTGCAAAG TATTTGACAAATTACAAACATGGTTATAGGACAATGAAAAGAAGCTTTAGCATGACAGATAAAA CTAAGGCAAACAAACTTGACTTCTCAGGTAAGCAGCACATGATTTTTTATTTTATTTTTGGAAA TGCAAAGAAAGAAGCACATCAAAAACTACAAGAATAAAATGAAACCACAAAATGAAAAGAGAAC ATAAAAAAATATATTGCATAGTGCAAATCAACAAAAAAACATAATATATAAACAATACTTTTAT AACTATATTGCTCTCCCAAACTACACATCTGCAAGTTATCTCACACCAGATCAACCATAAATAT TACTGGTTTGTGAAACTCAAGGGTATATTCATTTAAACTGGAGAGGAAAGGAACGGAAGAGAAG AAAGGAGTGGGAAGCATGATTCTTTTGAAACACAACAACAACATACCCAATGTAATCCCACAAG TGGGATCGTCTAGGGAAGGTACAATGTATGCTGACCATACCCCACTCCTCCGCATACCTTTGTG TGTAAAGAGGTTGCTTCTATTTAAACACAAAACTACACAAATCATTTGCCTCTTTTCCTTCTCT TTTCTTCTACGTCCCTTCATTTCAAACATAACGTCAACTTCTATTAAAACAAACATAAGGAAAT TGAGGAGAACAACCACTCCAAGAAAACTACTGAGAAAAGTCTCAAAAAGACTCTTAAAGAAATA AAATTGTGGGTGCCTCTAAAGAAAATATTACTTTCAATATCATGTGATGTGACAATAAAATAAC ACTATTTTTTCTTTCTTTTATGAAAGTGTTGTCCGCACCAGTTTACACGTTCCTCCACTATTCC ATTGGATACTTCTCTACCCCATAGGTACGGAGTGGCGGGTAGCACTCTGTCCACCATACCATTT GATGCAATAATGAAAGTAACACTAATTCGCTAGTGTTATATTTAATGGAAACAAAAGAAGAGAA CTCGAGTCATACCAGTACCATATTCAAATATGGATGCATCCATGTAGCCATATGGGGCACATCT CAAATCTGATTCATTGATTGTATTACCCAGAACCCCTCCAACTAACAAACCAAACTCAAACATA ATTGGCGTGAAATCCTGGAGAGATGAAACGCAAAATATCTTCAGTCACTCAAATTACTGAATAC AACATCATAGAATCTTGACAACCAAAAATATTGAACAACAAAATGTACCTGGTCAAGCACAATG TGATATGGAGCAAAGTTGCGAATCAGGTACTTCCTATCATGCAGATAATTAAGCAAGCGAGCTA ATGTAAGGGCTGTCTTAACCCTCTGCTTCCAATTAAAGTCAGCTGAAGAAGCAAAAGCAGAACA GTAATTTGATTGTCAACATCTCTCCTACGGATTCTTGGATAAGGAGATTCACTGCATATCGTCT CCATGGCAACCCCACATTTGCCCTATTAATGACTACAGTTCCTTTGCTCAAAGGATTGACACAC AATTGCCTTGGTTTGAACCCAAATATAGGTATAGCAGAAAATAGATAAGATTAAAGATGAGTAA AGATAGACCTCGAGTAATTAAGTTCTCCAACGTATCGTGTGGATTTAGATCATAAACAATCCCC AAGGTTTCTTCCTCTTGACAATATCCAATCACTTTCACTAAGTTGGGATTGCCCTTAATCCTTG GAGCTTGCAAAAATTTCAGTTCATACTACGGAAGCATAAACAAAGAAAACAGTCAGCTAAGGTA AGGAAGCAAGAGAATGAGCTTGCACATACACACAAACCTCAAATCTTTCCAGTTTGTCGTTGCC TGTATATTTAAACACCCTTTCATCAAGACCTATAATCTTGACAGCGACATCCTTGGTAATATCA CCAATGACCATCTTCCCACGATAGAGTTTTCCTAAGTGGGTGACTCCAACAAGATTTTTTGGAG AAAATTGACTAGTAAACAGACACAGGTCCTCCAATGTGAGTTTATGAAGTTCATCCTCAGCGGG GCATTTCTTTTGTATGCAAGGCAGATTGATGCATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.116531831

Conservation Information
Conserved circRNAs	NA
PMCS	0.116531831

			
						 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 PGSC0003DMG400005129_circ_igg.1

Address

Any questions?

Supported by