Plant Circular RNA Database

Detail information of PGSC0003DMG400046020_circ_ig.3

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400046020_circ_ig.3
					
						ID in PlantcircBase
						stu_circ_000137
					
						Alias
						chr01:75101880|75106337
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr1: 75101881-75106337  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
						
							PGSC0003DMG400046020_circ_ig.1 PGSC0003DMG400046020_circ_ig.2 PGSC0003DMG400046020_circ_ig.4 						
					
						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	PGSC0003DMG400046020_circ_ig.3
ID in PlantcircBase	stu_circ_000137
Alias	chr01:75101880\|75106337
Organism	Solanum tuberosum
Position	chr1: 75101881-75106337 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	PGSC0003DMG400046020_circ_ig.1 PGSC0003DMG400046020_circ_ig.2 PGSC0003DMG400046020_circ_ig.4
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  
						
							CAATAAGGAGAGCACATGCTGTTCATCCTATCACTGCTGTACAGCAGGAGTATTCTCTATGGAC
ACGTGACGTGGAGGATGACATAATTCCAGTTTGCAGgagcttggaattgggattgtttcatata
gccctgttggacgtgggcttttagctggaaaagcagttgttgaaagcttgcccgccaacagctt
tttggtaa

									
								

					

						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
						
							GAGCTTGGAATTGGGATTGTTTCATATAGCCCTGTTGGACGTGGGCTTTTAGCTGGAAAAGCAG
TTGTTGAAAGCTTGCCCGCCAACAGCTTTTTGGTAAGAAAACAAACCATTGTTTATTTTACTCC
ATTAATTCATTGATGTTTCATTATTATTAATATTTTTTTCGAACTAAATCCATTTTTCATGGTT
TTGATTCTGGATTCGTTTACTTTTTATTAGACTACACAACCTAGGTTTACTGGAGAGAACTTTG
AAAAGAACAAATCTATATATTTTCGTATGGAAGGAATATCCAAGAAGCATGGATGCACTCCGGC
TCAACTTGCTATTTCATGGATTCTTCACCAAGGGGATGATATTGTACCTATTCCTGGTAAGCAA
TTCTTCTCGTAGTTTCACTAATATAAAGATGATATTAGAGTACTTGTACAGAAATGAGTAGCAC
TCACTTGTGCTTTGATCACATGATGTTGTGAATACTGAGTTAGTCTCTTGCCTGTTATTATAGG
TACAACAAAGATAAAAAATCTTCATGATAACATCGGCTCAGTGCGAGTAAAGCTCACAGAAGAA
GACATAAAAGAACTTTCTGATGCAGTGTCCGTCAGTGAAGTGGCTGGGCAGAGATATGACGAGT
TTCTTTACAAGACAACATATAAGTTTTCTATTACACCACCCCCAACCAAATGATCAATGTTGTG
TTATGGCAAGTGCAGACTTGAACTTGTTTGTTTCTCTTTTTTATTCTTAAATCTATTGACATAT
GATTCCTCTCTTTTTGTACTGCCATATTTGAATAAAGGATATGTCTGCTTGTATTTTATCTCAG
TCAAAATGGAAATCATATTAGCTACTCCATATTGTTTTTTTAATTAATGTTATTACTTGTGGAA
ATCAAACAGTGGCTTTGTGCCATTGGGTTATGGACTTATGGGTCTTACGATCACAAGTTGAAAC
TTGAAAGCACGAGCTTTGATACTTTGGGTATTAAAAGAGAAAGAAAATAGGTCGGATCAAGTTA
AATGACTGGTTTTAAAAAAAAAATTGAGGGCGAGTCATTTAATTTTGACTTTTTGAGCTTTAAC
ACTTGTTTTTCCGAAAAAATTGAGGACAAATTTAGGATGAAGTATAAGGGAATGGTTATATTAG
AATGTAAAGTATAATTGGAAGCATTGAAAACACTTCTTAATTTTGCGCGAATTATTTAGTTTCA
TTCCCAAATTATTAACCTTTTAAAAACATATCTCTATTTGACTGCTCCACATATTTGGACAAAA
AATATAAGGAAAGATATATTGTAAAATATTCTAATAAAATATATATATTAACGTAATTTGACGT
TTTGCCAAGTTGACTGAAAATGATAGCAGGATTAACGTAATCGTTGACGCAAGGCCCCCTGCTT
ACCTAATTGCTTTCCTCATGCAGGGGAAAAATCGCTAATGGCGAAAGTGTATATATATATATAT
ATCACCATAGAATCACTACAAATTTATTCAATTTTAGTACCCAGAAAAGAAGAACACATTAAAA
AGGAGAGATTTTTCCATTTGAGCAATGGCGGACGCAGTTGAACTTGAGATGCCTAGAGTAAAGC
TGGGAAGCCAAGGACTTGAGGTAAAAACTTCTATCTATATGATACATTTTTTTGGACGATATCG
CATTTGCCACTTCTATTTGTGTCTTTTTGTATTGGAAATAGGGTTAATTTTAGAGTAATTTGAT
TTCGAACATGTTTGGATCGACTTATTTTAAGTGTTTTTAGGCTAAAATAACTTTTAGCATTTTT
TTTTTAATGGAGTGTTTGAGTAAATTAAAAATGTACTTATAAACACTTAGTTTTAAGCTAATCC
AAGCTGGCTCTTATGACTTTAGCTTATAAGTCAAAAATCAATCTAAAAAGGCTCTTCGTCTTGT
TATTTTGTCATTGTATTAGTCCCATGGTATGAATATCTATTTATGGATAAAATGATGCTACTCA
GAGCTCTTAAGGCATCGACATTTGTTATCTCAATTGGTACTAGTTAGTGCGGAGCTAGAAATTC
TAACAAGGGGATTCGGAAAATCTTAAACTAAAAGTTTTCTTAATATAAAGAGGATTCAACAAGT
TATATATATACATAGTTTTTTGTCACCGGTCAGAGGTGAATTCAAGATTTGAATGTTGTGGTTT
CGAGTTCTGGATTCTACCACAACCCATGTAATCCACTGGACTCAAGACCTATTATTTTGTATGT
ATATAGTAGGTTTTCAAAAAATAAAAGGTTCGAGCCAAAGCTATTGGGTTTGGATTAACCTATA
AGTTATACACTGATTTATATTTATTTAGTGAGTTCTTAACACATATAAAGGGTTCGAGCTAAAG
TGATTGAGTTAGGTAAACCCATAAGTTATACATTGGATTTACCCTTGCCATTGTATTATCCAAG
ATTTCCACGCCACAGATATGAGTTGAGAGTGTGAACTCAATACTTATGTAACATCTATCTTTAC
TTGTTTTATGCATGTATATGTGTCTTTATATTTATGTGTAATATCTATGGTTTTAGCTGATTGC
CGTGGATTCAAAACCCATGGAATCCTTCTGGATCACGGATCTGTTGCTTAAACAAAATCCCGTC
CATTTACAATTTGAATCAGAAGCTAAATCTCATGGACTTTTTCCTGTGCATTTAATGGATAAAT
TTTACTCTGAACAAAGAAGGATGCTCTACCCTTTCCAAAATGGATGCAGTAATTTGCCTTTTAG
CTGCTACTTCTTTTTTGCAAAATTGTCTATTTCGTATAGTAGTGTTTATATGATATTGATGTAA
TGGTCATTCACAGCATGTTAAACCTTTGTTTCTAGGTCTCTAAATTAGGTTTCGGATGTATGGG
GCTCACTGGAGCCTATAGTAGTCCTGTTCCTGAGGAGGAAGGGATTGCAATAATCAAGGATGCT
TTTAGTAAAGGAGTCACATTTTTTGACTCATCAGACATTTATGGCACGGATCATGCGAATGAGT
ACTTGATTGGGAAGGTAACTACAAGCAATTGGTGTCGCACGAATCATGATCATCAAAAGATGCA
TTTTTCTTAGCAGAAACATCCATTACACTTTCCATGGAATGTTGTATAAGCAAAACAAAGAAAA
TGGAGTACAACATGGTCTTCTTTAATTTTCCAGCTTGAGGATTCTCGAATCATCTTAACATGAT
AAAACAGTGAACATATAAGATATAATAAGCTTGTGTATACATAGAAGTTCATCTGTTAAACCAC
CATGTTGCATGACCATTCATACGAAAAAGAGAAAAGGGAGGAGGGGGAAGAGGCATGAACGGAG
AAAGTACTTGAAATCTCCTCATCTTCACTAGGTTTAGTTTGAAATTATCTTATTGCAATCCTTT
TCGTTATTTGGTAGCCTTTCAACATCAGCTAATCTTTGTGTCCATATAAGCTATCACTTGTTGA
GGCTGCTAGTATTACACTATCTGATGAACACATTAAAGAGGTGGCATGATTAAACAGAGTGTTG
CCGGCTTTTTTCATGCTTCATCAGATAAATATCCTATCAGGCTTCTAAATTTGTTTCGCCTTTT
AGTCTTTTAAGCACTGGCTGGTTTCATATGAACAAGAGAAGTTTCTACAAACTTGTTGCTAGGA
TTGTTAACTCAGGTCATATTTTCCTGAATAGAATATATAGAGTTGAAGAATTTTGATTTTACAT
TTAGCATATCTTAAGTTGGTGTAAAATGAAAATGGAAGGGAAATGTTAATGCGGGAAAAATGAG
TGTATAATGGCAATGTTGGACTGAAAAAAAGATTTAAATTGTGTTCTTCTTCTATGGCTCATGT
ACTATGTAAGGTAATGGAATGCCAGAAGACCCACTGCCACAGTTAAATAGCTTCTTGATTTTTC
TTAAGTAATTCGTAATTTATCTAAGAATTTCTCTGTTTCAGGCATTAAAGCAATTGCCTCGAGA
AAAAGTACAGCTTGCAACAAAGTTCGGTATATATAAGATCGAACCAACAAGGATTACAGTGAAA
GGAACTCCTGAATATGTTCGTTCCTGCTGTGAAGCTAGCTTAAAGCGCCTACAAGTGGACTACA
TTGATCTCTACTATGTGCACCGTATAGACACAACAGTGCCCATTGAGGAAACAGTAAGTGATCT
GCCTATATATGGTTCATATGCCTTGAGGAGGAATGCCTGCGTTCCTAATCAAGAATCTTGCTTT
TATTTTCGCATGAAGCACTTCTATCTCTACTATTTCTTATTGTGGTGAGGTGTGTTACAGATGG
GAGAACTTAAAAAATTAGTTGAAGAAGGTAAAATAAAGTATGTTGGCCTGTCTGAAGCTCACCC
AGAGACAATAAGGAGAGCACATGCTGTTCATCCTATCACTGCTGTACAGCAGGAGTATTCTCTA
TGGACACGTGACGTGGAGGATGACATAATTCCAGTTTGCAG
						
					

			
		

Sequences
Splice junction sequence	CAATAAGGAGAGCACATGCTGTTCATCCTATCACTGCTGTACAGCAGGAGTATTCTCTATGGAC ACGTGACGTGGAGGATGACATAATTCCAGTTTGCAGgagcttggaattgggattgtttcatata gccctgttggacgtgggcttttagctggaaaagcagttgttgaaagcttgcccgccaacagctt tttggtaa
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	GAGCTTGGAATTGGGATTGTTTCATATAGCCCTGTTGGACGTGGGCTTTTAGCTGGAAAAGCAG TTGTTGAAAGCTTGCCCGCCAACAGCTTTTTGGTAAGAAAACAAACCATTGTTTATTTTACTCC ATTAATTCATTGATGTTTCATTATTATTAATATTTTTTTCGAACTAAATCCATTTTTCATGGTT TTGATTCTGGATTCGTTTACTTTTTATTAGACTACACAACCTAGGTTTACTGGAGAGAACTTTG AAAAGAACAAATCTATATATTTTCGTATGGAAGGAATATCCAAGAAGCATGGATGCACTCCGGC TCAACTTGCTATTTCATGGATTCTTCACCAAGGGGATGATATTGTACCTATTCCTGGTAAGCAA TTCTTCTCGTAGTTTCACTAATATAAAGATGATATTAGAGTACTTGTACAGAAATGAGTAGCAC TCACTTGTGCTTTGATCACATGATGTTGTGAATACTGAGTTAGTCTCTTGCCTGTTATTATAGG TACAACAAAGATAAAAAATCTTCATGATAACATCGGCTCAGTGCGAGTAAAGCTCACAGAAGAA GACATAAAAGAACTTTCTGATGCAGTGTCCGTCAGTGAAGTGGCTGGGCAGAGATATGACGAGT TTCTTTACAAGACAACATATAAGTTTTCTATTACACCACCCCCAACCAAATGATCAATGTTGTG TTATGGCAAGTGCAGACTTGAACTTGTTTGTTTCTCTTTTTTATTCTTAAATCTATTGACATAT GATTCCTCTCTTTTTGTACTGCCATATTTGAATAAAGGATATGTCTGCTTGTATTTTATCTCAG TCAAAATGGAAATCATATTAGCTACTCCATATTGTTTTTTTAATTAATGTTATTACTTGTGGAA ATCAAACAGTGGCTTTGTGCCATTGGGTTATGGACTTATGGGTCTTACGATCACAAGTTGAAAC TTGAAAGCACGAGCTTTGATACTTTGGGTATTAAAAGAGAAAGAAAATAGGTCGGATCAAGTTA AATGACTGGTTTTAAAAAAAAAATTGAGGGCGAGTCATTTAATTTTGACTTTTTGAGCTTTAAC ACTTGTTTTTCCGAAAAAATTGAGGACAAATTTAGGATGAAGTATAAGGGAATGGTTATATTAG AATGTAAAGTATAATTGGAAGCATTGAAAACACTTCTTAATTTTGCGCGAATTATTTAGTTTCA TTCCCAAATTATTAACCTTTTAAAAACATATCTCTATTTGACTGCTCCACATATTTGGACAAAA AATATAAGGAAAGATATATTGTAAAATATTCTAATAAAATATATATATTAACGTAATTTGACGT TTTGCCAAGTTGACTGAAAATGATAGCAGGATTAACGTAATCGTTGACGCAAGGCCCCCTGCTT ACCTAATTGCTTTCCTCATGCAGGGGAAAAATCGCTAATGGCGAAAGTGTATATATATATATAT ATCACCATAGAATCACTACAAATTTATTCAATTTTAGTACCCAGAAAAGAAGAACACATTAAAA AGGAGAGATTTTTCCATTTGAGCAATGGCGGACGCAGTTGAACTTGAGATGCCTAGAGTAAAGC TGGGAAGCCAAGGACTTGAGGTAAAAACTTCTATCTATATGATACATTTTTTTGGACGATATCG CATTTGCCACTTCTATTTGTGTCTTTTTGTATTGGAAATAGGGTTAATTTTAGAGTAATTTGAT TTCGAACATGTTTGGATCGACTTATTTTAAGTGTTTTTAGGCTAAAATAACTTTTAGCATTTTT TTTTTAATGGAGTGTTTGAGTAAATTAAAAATGTACTTATAAACACTTAGTTTTAAGCTAATCC AAGCTGGCTCTTATGACTTTAGCTTATAAGTCAAAAATCAATCTAAAAAGGCTCTTCGTCTTGT TATTTTGTCATTGTATTAGTCCCATGGTATGAATATCTATTTATGGATAAAATGATGCTACTCA GAGCTCTTAAGGCATCGACATTTGTTATCTCAATTGGTACTAGTTAGTGCGGAGCTAGAAATTC TAACAAGGGGATTCGGAAAATCTTAAACTAAAAGTTTTCTTAATATAAAGAGGATTCAACAAGT TATATATATACATAGTTTTTTGTCACCGGTCAGAGGTGAATTCAAGATTTGAATGTTGTGGTTT CGAGTTCTGGATTCTACCACAACCCATGTAATCCACTGGACTCAAGACCTATTATTTTGTATGT ATATAGTAGGTTTTCAAAAAATAAAAGGTTCGAGCCAAAGCTATTGGGTTTGGATTAACCTATA AGTTATACACTGATTTATATTTATTTAGTGAGTTCTTAACACATATAAAGGGTTCGAGCTAAAG TGATTGAGTTAGGTAAACCCATAAGTTATACATTGGATTTACCCTTGCCATTGTATTATCCAAG ATTTCCACGCCACAGATATGAGTTGAGAGTGTGAACTCAATACTTATGTAACATCTATCTTTAC TTGTTTTATGCATGTATATGTGTCTTTATATTTATGTGTAATATCTATGGTTTTAGCTGATTGC CGTGGATTCAAAACCCATGGAATCCTTCTGGATCACGGATCTGTTGCTTAAACAAAATCCCGTC CATTTACAATTTGAATCAGAAGCTAAATCTCATGGACTTTTTCCTGTGCATTTAATGGATAAAT TTTACTCTGAACAAAGAAGGATGCTCTACCCTTTCCAAAATGGATGCAGTAATTTGCCTTTTAG CTGCTACTTCTTTTTTGCAAAATTGTCTATTTCGTATAGTAGTGTTTATATGATATTGATGTAA TGGTCATTCACAGCATGTTAAACCTTTGTTTCTAGGTCTCTAAATTAGGTTTCGGATGTATGGG GCTCACTGGAGCCTATAGTAGTCCTGTTCCTGAGGAGGAAGGGATTGCAATAATCAAGGATGCT TTTAGTAAAGGAGTCACATTTTTTGACTCATCAGACATTTATGGCACGGATCATGCGAATGAGT ACTTGATTGGGAAGGTAACTACAAGCAATTGGTGTCGCACGAATCATGATCATCAAAAGATGCA TTTTTCTTAGCAGAAACATCCATTACACTTTCCATGGAATGTTGTATAAGCAAAACAAAGAAAA TGGAGTACAACATGGTCTTCTTTAATTTTCCAGCTTGAGGATTCTCGAATCATCTTAACATGAT AAAACAGTGAACATATAAGATATAATAAGCTTGTGTATACATAGAAGTTCATCTGTTAAACCAC CATGTTGCATGACCATTCATACGAAAAAGAGAAAAGGGAGGAGGGGGAAGAGGCATGAACGGAG AAAGTACTTGAAATCTCCTCATCTTCACTAGGTTTAGTTTGAAATTATCTTATTGCAATCCTTT TCGTTATTTGGTAGCCTTTCAACATCAGCTAATCTTTGTGTCCATATAAGCTATCACTTGTTGA GGCTGCTAGTATTACACTATCTGATGAACACATTAAAGAGGTGGCATGATTAAACAGAGTGTTG CCGGCTTTTTTCATGCTTCATCAGATAAATATCCTATCAGGCTTCTAAATTTGTTTCGCCTTTT AGTCTTTTAAGCACTGGCTGGTTTCATATGAACAAGAGAAGTTTCTACAAACTTGTTGCTAGGA TTGTTAACTCAGGTCATATTTTCCTGAATAGAATATATAGAGTTGAAGAATTTTGATTTTACAT TTAGCATATCTTAAGTTGGTGTAAAATGAAAATGGAAGGGAAATGTTAATGCGGGAAAAATGAG TGTATAATGGCAATGTTGGACTGAAAAAAAGATTTAAATTGTGTTCTTCTTCTATGGCTCATGT ACTATGTAAGGTAATGGAATGCCAGAAGACCCACTGCCACAGTTAAATAGCTTCTTGATTTTTC TTAAGTAATTCGTAATTTATCTAAGAATTTCTCTGTTTCAGGCATTAAAGCAATTGCCTCGAGA AAAAGTACAGCTTGCAACAAAGTTCGGTATATATAAGATCGAACCAACAAGGATTACAGTGAAA GGAACTCCTGAATATGTTCGTTCCTGCTGTGAAGCTAGCTTAAAGCGCCTACAAGTGGACTACA TTGATCTCTACTATGTGCACCGTATAGACACAACAGTGCCCATTGAGGAAACAGTAAGTGATCT GCCTATATATGGTTCATATGCCTTGAGGAGGAATGCCTGCGTTCCTAATCAAGAATCTTGCTTT TATTTTCGCATGAAGCACTTCTATCTCTACTATTTCTTATTGTGGTGAGGTGTGTTACAGATGG GAGAACTTAAAAAATTAGTTGAAGAAGGTAAAATAAAGTATGTTGGCCTGTCTGAAGCTCACCC AGAGACAATAAGGAGAGCACATGCTGTTCATCCTATCACTGCTGTACAGCAGGAGTATTCTCTA TGGACACGTGACGTGGAGGATGACATAATTCCAGTTTGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.112255246

Conservation Information
Conserved circRNAs	NA
PMCS	0.112255246

			
						 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 PGSC0003DMG400046020_circ_ig.3

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