Plant Circular RNA Database

Detail information of PGSC0003DMG401030070_circ_g.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG401030070_circ_g.1
					
						ID in PlantcircBase
						stu_circ_001065
					
						Alias
						chr08:45954607|45959136
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr8: 45954608-45959136  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							PGSC0003DMG401030070						
					
						Parent gene annotation
						
							Poly [ADP-ribose] polymerase 2-A
							
						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  
						
							CT-CT							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
						PGSC0003DMT400077302:4

General Information
CircRNA Name	PGSC0003DMG401030070_circ_g.1
ID in PlantcircBase	stu_circ_001065
Alias	chr08:45954607\|45959136
Organism	Solanum tuberosum
Position	chr8: 45954608-45959136 JBrowse»
Reference genome	3.0.38
Type	e-circRNA
Identification method	CIRI2
Parent gene	PGSC0003DMG401030070
Parent gene annotation	Poly [ADP-ribose] polymerase 2-A
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	CT-CT 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	PGSC0003DMT400077302:4

			
						 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  
						
							CAATTGAGTCAGAATCAACCCTCGACCTTTTCTTATCACCATTCAATTTCTTCTTGTTTTCCTC
CTCCTCCACCTCAATAGCCTCTTCCAACCTCTTTACtgttggaggacatgataccgttctttga
tgtcatctgacaggtattgatccaaaacagctgcacccttttttgttgctgtgaccaatttctc
tatctcac

									
								

					

						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
						
							TGTTGGAGGACATGATACCGTTCTTTGATGTCATCTGACAGGTATTGATCCAAAACAGCTGCAC
CCTTTTTTGTTGCTGTGACCAATTTCTCTATCTCACCTTCATCTCCAACTGCCATAATTTATTA
ACAGTAAGTAAGACACGGTCATTTCTCACTAAAAAGGGATGAAAAACTCAACCAAATAGATAGC
GTAAATAGACAAGTTAGTTTCAGCCTAGACCGTAGCACTAAGTCAAAGTAAACCACTTCACTAC
ATTTCTGTGCTAATCAGTATGTATAATGCATTATTACTGTTAGAACATGATACGAATAGGAATA
GAAATAGAAATAGGAATAGTAAATAGTATCCTATTTGATAAAAGATTATATTGTAGTGTCTACA
AATAGAGTCTCAATGTAATAATGTAGACACAACAACAATTCAATAATATTCTTTTTCTATATTT
CTCACATGGTATCAGAGCCTCTACGATCTTTGTAGAGAATCAAAGAGCTTTCGCTGCCGGCAAG
TGGCTATTACCCATATATGTTGCCCGTCTGGTCAATGATTAAGTTAGCAAAAGTTGGGTTACCG
TGTACCTTTCATGTGATTATTTTCTCATATCTAATTTGTGTAACATCACGTCATCATTCCGACC
CTACCCATATAATTTTATTTCTTAGATTGTGACCACTTTCAGCCATAAATCTAGGTGTACCTTT
CATGTGATTATTTTCTCATATCTAATTTGTGTAACATCACGTCATCATTCCGACCCTACCCATA
TAATTTTATTTCTTAGATTGTGACCACTTTCAGCCATAAATCTAGTACTCCGGCGTATGAGCAT
GTTCCGACCAATTTTTCGGTGACTTTCTTGTTTAATATCGACTCATCTATTGATTCCAACACGA
TCCATATACTTTATACTATATTTTGAGCACTTTGTTACTCAGGGGGAGTTTAGTAGCCGTGTAT
GTCATATGTAAGTCACTCTATAGTCTGAAACAGTCTTTGCAAGTTTGGTTTGGGAAGTTCAACA
CTGTAATTTTATCACTCTGTGTTTTATCGGCATTATGCATCAAATTCAATAAATCATGAGAAGA
TTAAGCACATTGAGATTGACTGACATTATGCATCAAAATCCAATATTTAATGAGAAGACAAGCA
CATTGAGATTGACTGTCAATTTTGTGAAGTCGACTGATCAACTTGCAGATATCTCACCAAGCCC
CTCATCGATCTTCATATTAATTACATTTGTAACAAGCTAGGTACATGAATTGTATGCACTAGCT
TGAGGGGGGTGTTAGAACATGAATAGGTTTATGCGATCCTATTAGAATGGGAATAGGTTTATAC
AATCCTATTAGAATAGGAATAGGCTTATACAATCCTATTAAAATACGAATAGGTTTATACAATC
CTATTTAGAATACGAATAGGAATAGAAATAGAAATAGGAATAGTAAATAGTATCCTACTTGATA
AAAGATTGTATTGTAGTGTCTATAAATAAGGTCTCAATGTAATAATGTAGACACAACAACAATT
CAATAATATTATTTTCCTATATTTCTCACAATTACCATTCTGCAGCATTAACTACTCTAGCTTA
TACCAGTAATTACAATCTACTGTTAAAAGCTTCCTAAAGAGTTCAATTCTACTAGTATAAAGCT
ACTCCCTAAGTTCCACAATTTAGTCACTTTTGATTTAACCGATACTAGAGTAGATCGTAGATTA
ATCCACTTCGCAAATAGGAAGTTAGACAATCACAAAGCTATATGAAAAGTATAATAATCTGCAA
TTGTGTCATCTCAAATTGGGGTTTATTGGAAACAGTCTCTACTTCTCACAAGGTAGGAGTAAGG
TCTGCGTACACTCCACCCTCCCCAAACTTCAATTGTGGGATCACACTAGGTATGTTGTAGAAAT
TAAATGTGAAAGGTCAAATTAAATTATAAAACAAGACTATTTTTAGTTTCAACTCCACAATGCA
CTCGAGCATCATTAACAGCAGTCAGGGAAAACATAATCCTGCAAACAAGTGCTAAACCAACATA
AATTACTCTTCCCTTGGTCTGACTAATTGTTAGAGTGATATTTCACTTAAGGTCTCCAAATTTT
AGATAGAATTCTAACCAAAGAAACTAAGTTTAGGTTCCCCAAAAAAGGAAGTTACGTTAATGAA
TTAACTGATGGTTCAGGAAGATGCACATCAAGGTGGAAAATGGAGAGTGTCGTCTTTGTGACAC
ACATGAGTTTGAGTCAACTGACCATTTATTTGCTCGATGTGTATGGACGCAGAAAGTAAAGTAA
GTGATCACGCAATGGACTCACATACAGATACAAGCAACTGGAATTGATCAGGTACTACTGGAAT
AACAGGAAGCATTGGAGTAAAGCAAAGAAAGATATAGTGGCTGCTCTATGGAGGGCTATGGTAT
ATCTCACTTGGAGAGCGAGGAACTGGAAAATATACAGAGGAGTAAATGTACAAAATGAGCAAGT
TATAACACAGATCAAACAGGAATTCATAGACAGAACAGATAGACTTCAGGAATCAAAGAAACTG
TATAAATGTAGGAATTTTATTCAAGCTTTAACTGGTAACTAGCTGTGAGGTGAAGTGGATAGAC
TAGGCACTCTATGTTGTTAGGTGATTAAAGCTGTAATTTTCTTTTGTTATCAATGGTAATGTTC
ACAGTTGTTACCAAAAAATGACAGTAAAATTGGAGAAATTTGTCCACAGCAACAATACTACTAC
AGTACCTCCAAGATCATCTTTTGAGTCGTTTTTCTGTGAATCAGCAGCAACACAAAGTCTAAAA
ACAAGTTCTTTCTTCGACCCAGAACTGGAAATCCCACAAGTAGTGGCTACCTCTCTTAACTCCT
TAACACTCATTTTCTTATACTCCTCCACAGCATTCATTTTCCCTGACCCAATTGAGTCAGAATC
AACCCTCGATTTTTTCTTATCACCATTCAATATTTTCTTGTTGTCCTCCTCCTCTATAGCCTCC
TCCAACCTCTTTACCTGCAATTTCCCCCAAAATGGGTACTCAATTCAAACACAAGAAAATAACA
AGCAAGACATGCAATTAGTGGCAACTATAGGTACTAACCAGTATGGGTTTGGTTCCTGTGGTGT
CAAGACCGCGACTTACTTATTCGACAGATAAGAGCGAGGGAGGGGGGGACAATGCAAATACTTC
TTTGCAGCCAGAAGCAAAATGTTTCTAAATGACTTACTTGTTGCAGGACATGATACTGTTCTTT
GATGTCATCTGACAGGTATTGATCCAAAACAGCTGCACCTTTCTTTGTTGCTGTGACCAATTTC
TCTGTCTCGCCTTCATCTCCAACTGCCAAATATTTTAACAGCAAGCAAGACACAGTCATTTCTC
ACTAAAAAGGGATGAAAAGCACAACCAAATAGATAGCATAAAGAGTCAAGTTAGTTTCAGCCTA
GACTGTCTCACTAAGCAAACCACTTTACTATATTTCTGTGTTAATCAATATAATATAGTGCATT
ATTACCATTTTGTAGCATTAACTACTCTAGTATATACTAGTAATTATGATAACAATCTACTGTT
AAAAGCTTCTTAAAGAGTTCAATTCTACTTGCTACTTAGTATAAAGCTACTCCCCTAAAATTTA
GTCACTTTTGATTTAAACAATACTAGAGTAGATTGCAGATTAATCCACTTCGCAAATAGAAAGT
TAGACAATCACAAAGCTGTATGAAAAGTGTAATAATTTGCAAACGTATCATCTCGAATTGGGGT
CTATCGGAAACAGACTCTCTACCTCTCACAAGGTAGGAATAAGGTCTGCCTACATTCCACCCTC
CGGCGTCCTCAGACCCCACTTGTGGGATCACACTAGTTAGTAGGTATGTTGTTGTCATCGTCAT
CATCTCAAATTGACAAGTTATTAATACACTAAAAAGTTATTGGTTAAAGCCACGTTCTTTTGCA
ACAAAACAGATAAATTACAGGACGAAGTAGAAATTAAACGTGAAAGGTCAAATAAAATTATAAT
ACAAGACTATTTTTAGTTTCGACTTGACAATGCACTCAAGCACCATCAAAACCAGTCAGGGAAA
TCATAATCCTGCAAACAAGTGCTAAGCCAACATAAACTACTCTTCCCTCGGTTTTACTAATTTT
AACAAAGAAACTAAGTTTAGGTTCCAAAAAAAAAAAAAAAGTTATGTTACTGAATAAACTGATG
GTTAAATTTCATAAGCTTAACTTAATGACAGTACCTCCAAGATCATCTTTTGAGTCATTTTTCT
TTGAATCAGCAGCAGCACAAAGCCTCTGAACAAGTTCTTTCTTCGACCCAGTACTTGAAATCCC
ACGAGAAGTAGCTACCTCCCTTAACTCCTTAACACTCATTTTCTTATACTCCTCCACATCATTC
ATTTTCACTGACCCAATTGAGTCAGAATCAACCCTCGACCTTTTCTTATCACCATTCAATTTCT
TCTTGTTTTCCTCCTCCTCCACCTCAATAGCCTCTTCCAACCTCTTTAC
						
					

			
		

Sequences
Splice junction sequence	CAATTGAGTCAGAATCAACCCTCGACCTTTTCTTATCACCATTCAATTTCTTCTTGTTTTCCTC CTCCTCCACCTCAATAGCCTCTTCCAACCTCTTTACtgttggaggacatgataccgttctttga tgtcatctgacaggtattgatccaaaacagctgcacccttttttgttgctgtgaccaatttctc tatctcac
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	TGTTGGAGGACATGATACCGTTCTTTGATGTCATCTGACAGGTATTGATCCAAAACAGCTGCAC CCTTTTTTGTTGCTGTGACCAATTTCTCTATCTCACCTTCATCTCCAACTGCCATAATTTATTA ACAGTAAGTAAGACACGGTCATTTCTCACTAAAAAGGGATGAAAAACTCAACCAAATAGATAGC GTAAATAGACAAGTTAGTTTCAGCCTAGACCGTAGCACTAAGTCAAAGTAAACCACTTCACTAC ATTTCTGTGCTAATCAGTATGTATAATGCATTATTACTGTTAGAACATGATACGAATAGGAATA GAAATAGAAATAGGAATAGTAAATAGTATCCTATTTGATAAAAGATTATATTGTAGTGTCTACA AATAGAGTCTCAATGTAATAATGTAGACACAACAACAATTCAATAATATTCTTTTTCTATATTT CTCACATGGTATCAGAGCCTCTACGATCTTTGTAGAGAATCAAAGAGCTTTCGCTGCCGGCAAG TGGCTATTACCCATATATGTTGCCCGTCTGGTCAATGATTAAGTTAGCAAAAGTTGGGTTACCG TGTACCTTTCATGTGATTATTTTCTCATATCTAATTTGTGTAACATCACGTCATCATTCCGACC CTACCCATATAATTTTATTTCTTAGATTGTGACCACTTTCAGCCATAAATCTAGGTGTACCTTT CATGTGATTATTTTCTCATATCTAATTTGTGTAACATCACGTCATCATTCCGACCCTACCCATA TAATTTTATTTCTTAGATTGTGACCACTTTCAGCCATAAATCTAGTACTCCGGCGTATGAGCAT GTTCCGACCAATTTTTCGGTGACTTTCTTGTTTAATATCGACTCATCTATTGATTCCAACACGA TCCATATACTTTATACTATATTTTGAGCACTTTGTTACTCAGGGGGAGTTTAGTAGCCGTGTAT GTCATATGTAAGTCACTCTATAGTCTGAAACAGTCTTTGCAAGTTTGGTTTGGGAAGTTCAACA CTGTAATTTTATCACTCTGTGTTTTATCGGCATTATGCATCAAATTCAATAAATCATGAGAAGA TTAAGCACATTGAGATTGACTGACATTATGCATCAAAATCCAATATTTAATGAGAAGACAAGCA CATTGAGATTGACTGTCAATTTTGTGAAGTCGACTGATCAACTTGCAGATATCTCACCAAGCCC CTCATCGATCTTCATATTAATTACATTTGTAACAAGCTAGGTACATGAATTGTATGCACTAGCT TGAGGGGGGTGTTAGAACATGAATAGGTTTATGCGATCCTATTAGAATGGGAATAGGTTTATAC AATCCTATTAGAATAGGAATAGGCTTATACAATCCTATTAAAATACGAATAGGTTTATACAATC CTATTTAGAATACGAATAGGAATAGAAATAGAAATAGGAATAGTAAATAGTATCCTACTTGATA AAAGATTGTATTGTAGTGTCTATAAATAAGGTCTCAATGTAATAATGTAGACACAACAACAATT CAATAATATTATTTTCCTATATTTCTCACAATTACCATTCTGCAGCATTAACTACTCTAGCTTA TACCAGTAATTACAATCTACTGTTAAAAGCTTCCTAAAGAGTTCAATTCTACTAGTATAAAGCT ACTCCCTAAGTTCCACAATTTAGTCACTTTTGATTTAACCGATACTAGAGTAGATCGTAGATTA ATCCACTTCGCAAATAGGAAGTTAGACAATCACAAAGCTATATGAAAAGTATAATAATCTGCAA TTGTGTCATCTCAAATTGGGGTTTATTGGAAACAGTCTCTACTTCTCACAAGGTAGGAGTAAGG TCTGCGTACACTCCACCCTCCCCAAACTTCAATTGTGGGATCACACTAGGTATGTTGTAGAAAT TAAATGTGAAAGGTCAAATTAAATTATAAAACAAGACTATTTTTAGTTTCAACTCCACAATGCA CTCGAGCATCATTAACAGCAGTCAGGGAAAACATAATCCTGCAAACAAGTGCTAAACCAACATA AATTACTCTTCCCTTGGTCTGACTAATTGTTAGAGTGATATTTCACTTAAGGTCTCCAAATTTT AGATAGAATTCTAACCAAAGAAACTAAGTTTAGGTTCCCCAAAAAAGGAAGTTACGTTAATGAA TTAACTGATGGTTCAGGAAGATGCACATCAAGGTGGAAAATGGAGAGTGTCGTCTTTGTGACAC ACATGAGTTTGAGTCAACTGACCATTTATTTGCTCGATGTGTATGGACGCAGAAAGTAAAGTAA GTGATCACGCAATGGACTCACATACAGATACAAGCAACTGGAATTGATCAGGTACTACTGGAAT AACAGGAAGCATTGGAGTAAAGCAAAGAAAGATATAGTGGCTGCTCTATGGAGGGCTATGGTAT ATCTCACTTGGAGAGCGAGGAACTGGAAAATATACAGAGGAGTAAATGTACAAAATGAGCAAGT TATAACACAGATCAAACAGGAATTCATAGACAGAACAGATAGACTTCAGGAATCAAAGAAACTG TATAAATGTAGGAATTTTATTCAAGCTTTAACTGGTAACTAGCTGTGAGGTGAAGTGGATAGAC TAGGCACTCTATGTTGTTAGGTGATTAAAGCTGTAATTTTCTTTTGTTATCAATGGTAATGTTC ACAGTTGTTACCAAAAAATGACAGTAAAATTGGAGAAATTTGTCCACAGCAACAATACTACTAC AGTACCTCCAAGATCATCTTTTGAGTCGTTTTTCTGTGAATCAGCAGCAACACAAAGTCTAAAA ACAAGTTCTTTCTTCGACCCAGAACTGGAAATCCCACAAGTAGTGGCTACCTCTCTTAACTCCT TAACACTCATTTTCTTATACTCCTCCACAGCATTCATTTTCCCTGACCCAATTGAGTCAGAATC AACCCTCGATTTTTTCTTATCACCATTCAATATTTTCTTGTTGTCCTCCTCCTCTATAGCCTCC TCCAACCTCTTTACCTGCAATTTCCCCCAAAATGGGTACTCAATTCAAACACAAGAAAATAACA AGCAAGACATGCAATTAGTGGCAACTATAGGTACTAACCAGTATGGGTTTGGTTCCTGTGGTGT CAAGACCGCGACTTACTTATTCGACAGATAAGAGCGAGGGAGGGGGGGACAATGCAAATACTTC TTTGCAGCCAGAAGCAAAATGTTTCTAAATGACTTACTTGTTGCAGGACATGATACTGTTCTTT GATGTCATCTGACAGGTATTGATCCAAAACAGCTGCACCTTTCTTTGTTGCTGTGACCAATTTC TCTGTCTCGCCTTCATCTCCAACTGCCAAATATTTTAACAGCAAGCAAGACACAGTCATTTCTC ACTAAAAAGGGATGAAAAGCACAACCAAATAGATAGCATAAAGAGTCAAGTTAGTTTCAGCCTA GACTGTCTCACTAAGCAAACCACTTTACTATATTTCTGTGTTAATCAATATAATATAGTGCATT ATTACCATTTTGTAGCATTAACTACTCTAGTATATACTAGTAATTATGATAACAATCTACTGTT AAAAGCTTCTTAAAGAGTTCAATTCTACTTGCTACTTAGTATAAAGCTACTCCCCTAAAATTTA GTCACTTTTGATTTAAACAATACTAGAGTAGATTGCAGATTAATCCACTTCGCAAATAGAAAGT TAGACAATCACAAAGCTGTATGAAAAGTGTAATAATTTGCAAACGTATCATCTCGAATTGGGGT CTATCGGAAACAGACTCTCTACCTCTCACAAGGTAGGAATAAGGTCTGCCTACATTCCACCCTC CGGCGTCCTCAGACCCCACTTGTGGGATCACACTAGTTAGTAGGTATGTTGTTGTCATCGTCAT CATCTCAAATTGACAAGTTATTAATACACTAAAAAGTTATTGGTTAAAGCCACGTTCTTTTGCA ACAAAACAGATAAATTACAGGACGAAGTAGAAATTAAACGTGAAAGGTCAAATAAAATTATAAT ACAAGACTATTTTTAGTTTCGACTTGACAATGCACTCAAGCACCATCAAAACCAGTCAGGGAAA TCATAATCCTGCAAACAAGTGCTAAGCCAACATAAACTACTCTTCCCTCGGTTTTACTAATTTT AACAAAGAAACTAAGTTTAGGTTCCAAAAAAAAAAAAAAAGTTATGTTACTGAATAAACTGATG GTTAAATTTCATAAGCTTAACTTAATGACAGTACCTCCAAGATCATCTTTTGAGTCATTTTTCT TTGAATCAGCAGCAGCACAAAGCCTCTGAACAAGTTCTTTCTTCGACCCAGTACTTGAAATCCC ACGAGAAGTAGCTACCTCCCTTAACTCCTTAACACTCATTTTCTTATACTCCTCCACATCATTC ATTTTCACTGACCCAATTGAGTCAGAATCAACCCTCGACCTTTTCTTATCACCATTCAATTTCT TCTTGTTTTCCTCCTCCTCCACCTCAATAGCCTCTTCCAACCTCTTTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.131723563

Conservation Information
Conserved circRNAs	NA
PMCS	0.131723563

			
						 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 PGSC0003DMG401030070_circ_g.1

Address

Any questions?

Supported by