Plant Circular RNA Database

Detail information of PGSC0003DMG400014646_circ_g.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400014646_circ_g.1
					
						ID in PlantcircBase
						stu_circ_000744
					
						Alias
						chr06:502774|506720
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr6: 502775-506720  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							PGSC0003DMG400014646						
					
						Parent gene annotation
						
							Nucellin
							
						Parent gene strand
						+
					
						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  
						
							GT-GA							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
						PGSC0003DMT400037977:1
PGSC0003DMT400037974:1
PGSC0003DMT400037975:3
PGSC0003DMT400037976:1

General Information
CircRNA Name	PGSC0003DMG400014646_circ_g.1
ID in PlantcircBase	stu_circ_000744
Alias	chr06:502774\|506720
Organism	Solanum tuberosum
Position	chr6: 502775-506720 JBrowse»
Reference genome	3.0.38
Type	ue-circRNA
Identification method	CIRI2
Parent gene	PGSC0003DMG400014646
Parent gene annotation	Nucellin
Parent gene strand	+
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	GT-GA 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	PGSC0003DMT400037977:1 PGSC0003DMT400037974:1 PGSC0003DMT400037975:3 PGSC0003DMT400037976:1

			
						 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  
						
							CAGATATTTCTATGTTAGACAAACTAGTGATTTACGACAATGAGAAACAGCAGATTGGATGGGC
TCCAGCAAACTGCAACAAGCTTCCATCGTTATCCTGatatatcaatgattacagtgaagatttt
ggtgacatatgcaggcagaaagtatgtcagtattgtaagcataccaatgtttgctatattacag
aagaacat

									
								

					

						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
						
							ATATATCAATGATTACAGTGAAGATTTTGGTGACATATGCAGGCAGAAAGTATGTCAGTATTGT
AAGCATACCAATGTTTGCTATATTACAGAAGAACATATTTTAGTTGATTTGTAATACAGAAAAT
TCACTGTAATCACCCATAGAATTATATATTTTTATAATAGCAGCCATATGTATATTCAGTTCAT
CCCCAAATTTCTCTTTTTCTATATATATATTACAACGTAAAACAAGGAGATGAGTTTGAACTGG
CGAACTAAAGTCACTTTCGTAACTCTATAATTCATTGCAGAAGTGAATGTGGAAATTATTATTG
TTATATTTTATTTTATTTTAAAAAAAATAAATAGGGGTAGAGGTGGAGGTGGGAGGACATCCAT
AAAAAGAGGGAATTTGCTTATTTATTTTTGTAGAAATTATACAGTATGTTTTCTAACAAAAAAA
AGCTTTTTCTCCCCAATCGAGGTGATAGATCACCTTATGGCCGATGTGATTACCAGCTAAAGGG
CAAAAAGACGGGGTTGAATGCGACTCTACCAATACCAATCTCCTCTGGAGCAAGGAAAAGCAAC
TCTTGCCTAGTATCGATAACGATTAACATATTCTTTTTCCCCACTTTAAAAATATGATTATTTA
TTATCCCTACTTTAATAGAATCGATCTTAATTGCAGTCGGTTTCAAATTAGCTATAAATTGCAG
TATTCTTAAAAAAATGTTATCTTGATAATGTTACCAAAAGATTGTAGTAATAAATTTGTATAGT
TATAAAATTTTGCTTAACCTATTATAGTCATATGTAGTTGATATATAAATGTAGGATGGCGTGA
TAACTATCTCTTTCCCCTAAATAATATGTAGCGCGGTTTAAATTTCAAGCGTTAAATTTTTTAA
TTTTGATCTTAAATATAAAAATTAAATTTTTAAGTTTTCTGAAAAGAAATTTACATATTTGAGA
TGTAGGATATAAAATAAATACTATAAATTAAAATAGTTAACAATTTCAAATACTTTAAAAGCAT
AATAAAAAAAGTTGCGATAAGAAAATAATCATTTGACTCTCAACATTCAACTAATGTCATATAT
ATTAGGACGAAAGAATAATAATTTTAACACATTCTTTTAGTCAGAAGTGTGAATGTTTTTTAAA
AAAATTGATGAACAGATTGAATCAATTATTAAATTTCTTTTAATAAAATCATAAGTCTCTATGA
ATATATGATTGTGCTGAATAATTAAAATACTTAATTAATCAAATCGTATCAATACAAAGGAGAA
ATCAAAATGATAAAACAATTCTAAAAAGTCTAATTTTAATTATACAAAATAAACTAGCCGAAAA
GTTAAACACCATATAAATTTTATAAAACAAGCATTCAAATCCTATCATTTAACACCCCTAGTTT
TAATACTCCCTTTATTTCAAAAAGAATGACTCATTTTCCTTTTTAATCTGTTTCAAAAAGAATG
ATCTCTTTCTTTTTTTTGGTAACATTTTAATTTCAGATTTTCACTGTTTAAGGCCGCAAGATTA
AAGAATAATTTTGTACATTTGACATAACTTTAATTTAGGACCACTAGATTCAAAATTCTTCTTT
ATTTTTGTAAACTCCGTGACAAGTCAAACTAGGTCACTCTTTTTGAAACGGAGGGAGTAATAAT
ATTTACAACCCCCACCCCCAAACCATAAAACAAGTCAATGCTCCATTTCTTTTTAGTATATATA
TATCACTTATTCTAAATTAGTCTCACCAAGTCCTCTCTCATTTTTTACTAAACTTTAAACTTTT
ATTTGTTGATTTTTAAGCCATTTGTTATCTTTAATCAAATAAATCATGAAAGGGAAATGGGTAC
CATCTTGGGTTTTATCAGTGTGGTACATTATGCTTCTATGTAGATACTTTCATAATTGTTCTGC
CTTTACTCTACCAATGAAGGAACAATCATATTTTGGTACTATGGTTTTTCTCCTTGATGGGAAT
GTCTATCCTAAAGGGTATATTTTCAATTCAATCTTTACTTTATCTTGTGTTGTTCATACACTTT
ATAAAGTTTGATTGAAAGCGATTTAAATTCAACTTGTCTTTGATTTGATATCCCAACAAGTTTG
ATTGGACTCAGCCTGACGCCCATATGATGAAGAGCCCCTGCCCCTAGTAATTTTTTAAGAATCT
CAATCAACAAACCTTATTGTTATTGTTACGGTTTTTTTGCATGTATAATCCTATTAGTTTTATG
GATTTCCTTTTATATTCATAAAACTTGCATATTACTTGTTTTCTGTTATCTGAACTCGGATATT
CGATTCATGTTCAGGTATTATCAGGTGGTACTCAATGTTGGCCAACCCCCTAGACCTTATTTTC
TTGACGTAGACACAGGGAGTGATCTCACTTGGCTCCAATGTGATATACCTGGCGCCAAAAATCT
TCCGGTGACTACTTCTTTTTATTCGCTCTTTCCAGTTAAACCAAAGATTATTAATATGAATTCA
AATCCAAAATACTCAGAAATATCTTTCATAATTTCTGCATATATATGACATTGCAGGCTCCTCA
CCATCCTTACAAACCGAATAAGAATTTGGTCAAGCATAATGATCCCATATGTGTATCCATTCAT
GGTGCAAACCCTCCCGGTCACACTCCTACCGATCAATGTGACTATGAGATTGAGTATGCAGATC
ATTGTTCATCCTTGGGAGTGCTGGTCAGAGACGCATTTCAAGTAAAATACACTAATGGTACCTC
CATTGCTCCTCCTCTGGTGTTTGGGTAAGAAACTGATAATAAACTACCTTTAAAATTGTTAGCT
ACGAGCAGTTTAACGATGAAGTTTGTAGCTAAGCTTGATTTCCCTTGTGTAGTTGTGGGTATGA
TCAAGAAGTCCCACGCTCTGGGCATTATACAGATGGAATTCTCGGTCTAGGAAATGGAAAATCA
AGCATACTATCACAGATGAGTAGCATGGGTTTAATCCGGAATGTAGTAGGTCATTGTTTAAGCG
GACAAGGTGGAGGTTTTCTTTTCCTTGGAAATGACATTGTCCCGTCTTCTGGGATTGTTTGGTT
ACCTATCAGACGTGTATCTTCAGAGTATGTTCTGTCTGTAGTTGTTGCTTTTGTATATGGAGAT
CTGCACTTTGCATGCAAGATGTGAATAAACTTTTCTGGATTACTATGATTTCAGGAAAGAGTAT
TCTTTGGGACCAGCAGATGTCCTATTTGGTGGGCAGGCAACTGGAATAAAGGGTATACCGATAA
TTTTAGACAGTGGAACTACCTTTACCTACTTCAATTCCGAAGCTTACAAGACCCTGTTGTCTTT
GGTAAGATCAGGCAAAACCTCCATCCTATATGACTTATCATCTTTTTGGCTTTGGACTTTTGAT
ATTTTGCTGATTTCAGATTAAGAAAAACATAGACACAAAGCAACTGACTGATGCAGTGGACGAC
AAAAGTTTGCCCGTCTGCTGGAAAGGCTCCAAACCTTTCAAATCCCTTAAAGATGCTACGATGT
ACTTCAAGCCATTGACACTTAGTTTCACAAAAGCTAAGAATATTCAGCTTCAACTGTTACCTGA
GGCTTATCTTATTCTTACTGTAAGTGCCTTTTAAATTATTCTATGAATCTTTTAGATCACGATA
CTGATATTTGTATCCTCTCAGGATAAGGGCCATGTATGCTTAGGGATATTGAACGGTTCGGAGG
CTGGAATAGGAGATGTTAATTTGATCGGAGGTATGACAGAACAAGGCATTGTTCTTTTTATACC
TCGAAAATAATGTCCTCTTTGGAGAAAAAGATTGGATTAATTTTGCTGTTTTTCTCTGGATTTA
CGTATGCAGATATTTCTATGTTAGACAAACTAGTGATTTACGACAATGAGAAACAGCAGATTGG
ATGGGCTCCAGCAAACTGCAACAAGCTTCCATCGTTATCCTG
						
					

			
		

Sequences
Splice junction sequence	CAGATATTTCTATGTTAGACAAACTAGTGATTTACGACAATGAGAAACAGCAGATTGGATGGGC TCCAGCAAACTGCAACAAGCTTCCATCGTTATCCTGatatatcaatgattacagtgaagatttt ggtgacatatgcaggcagaaagtatgtcagtattgtaagcataccaatgtttgctatattacag aagaacat
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	ATATATCAATGATTACAGTGAAGATTTTGGTGACATATGCAGGCAGAAAGTATGTCAGTATTGT AAGCATACCAATGTTTGCTATATTACAGAAGAACATATTTTAGTTGATTTGTAATACAGAAAAT TCACTGTAATCACCCATAGAATTATATATTTTTATAATAGCAGCCATATGTATATTCAGTTCAT CCCCAAATTTCTCTTTTTCTATATATATATTACAACGTAAAACAAGGAGATGAGTTTGAACTGG CGAACTAAAGTCACTTTCGTAACTCTATAATTCATTGCAGAAGTGAATGTGGAAATTATTATTG TTATATTTTATTTTATTTTAAAAAAAATAAATAGGGGTAGAGGTGGAGGTGGGAGGACATCCAT AAAAAGAGGGAATTTGCTTATTTATTTTTGTAGAAATTATACAGTATGTTTTCTAACAAAAAAA AGCTTTTTCTCCCCAATCGAGGTGATAGATCACCTTATGGCCGATGTGATTACCAGCTAAAGGG CAAAAAGACGGGGTTGAATGCGACTCTACCAATACCAATCTCCTCTGGAGCAAGGAAAAGCAAC TCTTGCCTAGTATCGATAACGATTAACATATTCTTTTTCCCCACTTTAAAAATATGATTATTTA TTATCCCTACTTTAATAGAATCGATCTTAATTGCAGTCGGTTTCAAATTAGCTATAAATTGCAG TATTCTTAAAAAAATGTTATCTTGATAATGTTACCAAAAGATTGTAGTAATAAATTTGTATAGT TATAAAATTTTGCTTAACCTATTATAGTCATATGTAGTTGATATATAAATGTAGGATGGCGTGA TAACTATCTCTTTCCCCTAAATAATATGTAGCGCGGTTTAAATTTCAAGCGTTAAATTTTTTAA TTTTGATCTTAAATATAAAAATTAAATTTTTAAGTTTTCTGAAAAGAAATTTACATATTTGAGA TGTAGGATATAAAATAAATACTATAAATTAAAATAGTTAACAATTTCAAATACTTTAAAAGCAT AATAAAAAAAGTTGCGATAAGAAAATAATCATTTGACTCTCAACATTCAACTAATGTCATATAT ATTAGGACGAAAGAATAATAATTTTAACACATTCTTTTAGTCAGAAGTGTGAATGTTTTTTAAA AAAATTGATGAACAGATTGAATCAATTATTAAATTTCTTTTAATAAAATCATAAGTCTCTATGA ATATATGATTGTGCTGAATAATTAAAATACTTAATTAATCAAATCGTATCAATACAAAGGAGAA ATCAAAATGATAAAACAATTCTAAAAAGTCTAATTTTAATTATACAAAATAAACTAGCCGAAAA GTTAAACACCATATAAATTTTATAAAACAAGCATTCAAATCCTATCATTTAACACCCCTAGTTT TAATACTCCCTTTATTTCAAAAAGAATGACTCATTTTCCTTTTTAATCTGTTTCAAAAAGAATG ATCTCTTTCTTTTTTTTGGTAACATTTTAATTTCAGATTTTCACTGTTTAAGGCCGCAAGATTA AAGAATAATTTTGTACATTTGACATAACTTTAATTTAGGACCACTAGATTCAAAATTCTTCTTT ATTTTTGTAAACTCCGTGACAAGTCAAACTAGGTCACTCTTTTTGAAACGGAGGGAGTAATAAT ATTTACAACCCCCACCCCCAAACCATAAAACAAGTCAATGCTCCATTTCTTTTTAGTATATATA TATCACTTATTCTAAATTAGTCTCACCAAGTCCTCTCTCATTTTTTACTAAACTTTAAACTTTT ATTTGTTGATTTTTAAGCCATTTGTTATCTTTAATCAAATAAATCATGAAAGGGAAATGGGTAC CATCTTGGGTTTTATCAGTGTGGTACATTATGCTTCTATGTAGATACTTTCATAATTGTTCTGC CTTTACTCTACCAATGAAGGAACAATCATATTTTGGTACTATGGTTTTTCTCCTTGATGGGAAT GTCTATCCTAAAGGGTATATTTTCAATTCAATCTTTACTTTATCTTGTGTTGTTCATACACTTT ATAAAGTTTGATTGAAAGCGATTTAAATTCAACTTGTCTTTGATTTGATATCCCAACAAGTTTG ATTGGACTCAGCCTGACGCCCATATGATGAAGAGCCCCTGCCCCTAGTAATTTTTTAAGAATCT CAATCAACAAACCTTATTGTTATTGTTACGGTTTTTTTGCATGTATAATCCTATTAGTTTTATG GATTTCCTTTTATATTCATAAAACTTGCATATTACTTGTTTTCTGTTATCTGAACTCGGATATT CGATTCATGTTCAGGTATTATCAGGTGGTACTCAATGTTGGCCAACCCCCTAGACCTTATTTTC TTGACGTAGACACAGGGAGTGATCTCACTTGGCTCCAATGTGATATACCTGGCGCCAAAAATCT TCCGGTGACTACTTCTTTTTATTCGCTCTTTCCAGTTAAACCAAAGATTATTAATATGAATTCA AATCCAAAATACTCAGAAATATCTTTCATAATTTCTGCATATATATGACATTGCAGGCTCCTCA CCATCCTTACAAACCGAATAAGAATTTGGTCAAGCATAATGATCCCATATGTGTATCCATTCAT GGTGCAAACCCTCCCGGTCACACTCCTACCGATCAATGTGACTATGAGATTGAGTATGCAGATC ATTGTTCATCCTTGGGAGTGCTGGTCAGAGACGCATTTCAAGTAAAATACACTAATGGTACCTC CATTGCTCCTCCTCTGGTGTTTGGGTAAGAAACTGATAATAAACTACCTTTAAAATTGTTAGCT ACGAGCAGTTTAACGATGAAGTTTGTAGCTAAGCTTGATTTCCCTTGTGTAGTTGTGGGTATGA TCAAGAAGTCCCACGCTCTGGGCATTATACAGATGGAATTCTCGGTCTAGGAAATGGAAAATCA AGCATACTATCACAGATGAGTAGCATGGGTTTAATCCGGAATGTAGTAGGTCATTGTTTAAGCG GACAAGGTGGAGGTTTTCTTTTCCTTGGAAATGACATTGTCCCGTCTTCTGGGATTGTTTGGTT ACCTATCAGACGTGTATCTTCAGAGTATGTTCTGTCTGTAGTTGTTGCTTTTGTATATGGAGAT CTGCACTTTGCATGCAAGATGTGAATAAACTTTTCTGGATTACTATGATTTCAGGAAAGAGTAT TCTTTGGGACCAGCAGATGTCCTATTTGGTGGGCAGGCAACTGGAATAAAGGGTATACCGATAA TTTTAGACAGTGGAACTACCTTTACCTACTTCAATTCCGAAGCTTACAAGACCCTGTTGTCTTT GGTAAGATCAGGCAAAACCTCCATCCTATATGACTTATCATCTTTTTGGCTTTGGACTTTTGAT ATTTTGCTGATTTCAGATTAAGAAAAACATAGACACAAAGCAACTGACTGATGCAGTGGACGAC AAAAGTTTGCCCGTCTGCTGGAAAGGCTCCAAACCTTTCAAATCCCTTAAAGATGCTACGATGT ACTTCAAGCCATTGACACTTAGTTTCACAAAAGCTAAGAATATTCAGCTTCAACTGTTACCTGA GGCTTATCTTATTCTTACTGTAAGTGCCTTTTAAATTATTCTATGAATCTTTTAGATCACGATA CTGATATTTGTATCCTCTCAGGATAAGGGCCATGTATGCTTAGGGATATTGAACGGTTCGGAGG CTGGAATAGGAGATGTTAATTTGATCGGAGGTATGACAGAACAAGGCATTGTTCTTTTTATACC TCGAAAATAATGTCCTCTTTGGAGAAAAAGATTGGATTAATTTTGCTGTTTTTCTCTGGATTTA CGTATGCAGATATTTCTATGTTAGACAAACTAGTGATTTACGACAATGAGAAACAGCAGATTGG ATGGGCTCCAGCAAACTGCAACAAGCTTCCATCGTTATCCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.119053332

Conservation Information
Conserved circRNAs	NA
PMCS	0.119053332

			
						 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 PGSC0003DMG400014646_circ_g.1

Address

Any questions?

Supported by