Plant Circular RNA Database

Detail information of PGSC0003DMG400024874_circ_ag.3

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400024874_circ_ag.3
					
						ID in PlantcircBase
						stu_circ_000191
					
						Alias
						chr01:79950130|79954313
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr1: 79950131-79954313  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							PGSC0003DMG400024874_circ_ag.1 PGSC0003DMG400024874_circ_ag.2 PGSC0003DMG400024874_circ_ag.4 						
					
						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-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	PGSC0003DMG400024874_circ_ag.3
ID in PlantcircBase	stu_circ_000191
Alias	chr01:79950130\|79954313
Organism	Solanum tuberosum
Position	chr1: 79950131-79954313 JBrowse»
Reference genome	3.0.38
Type	ag-circRNA
Identification method	CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	PGSC0003DMG400024874_circ_ag.1 PGSC0003DMG400024874_circ_ag.2 PGSC0003DMG400024874_circ_ag.4
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-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  
						
							TTTTTCTTCTGTACTTAGGGTTTTTTTCTTCTTCTCCCGATTCTCACTGGATACAAGAAGATTC
AGAATTTGCGCTTTTCAGATCAAGATTCTCCGTCTGttttgaactcaaggaaagaagatgcatc
cacctttgactctacatagacaccctttatgtgctgatgtaagtttctcacattgttaaattag
attagatt

									
								

					

						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
						
							TTTTGAACTCAAGGAAAGAAGATGCATCCACCTTTGACTCTACATAGACACCCTTTATGTGCTG
ATGTAAGTTTCTCACATTGTTAAATTAGATTAGATTCATCTTGTGCTTTTGAAGCACTGCCTTT
GCATGTGTTTATTTGCATTGACATGCTATTTTCCTCGGACTCTTCAAAATGTCAACGGGTGCGT
GTCGGATTCGCCAAAAGTATTGTATTTTTGGAGAATTCAACACGGGTGTGACATCAAAAGTGAA
GAGTCGGTGCAACTTAGTTGACATGTAGTCTCGTCGTGTGTATATCATAGTTTGTAGATTAATT
TGTTCTTTTTATTGGTTAATTTCAAGAAACAATTGCCAAAACATCTCAAATACACTAAAGATGG
CTATGTCGCCGTGGTGCAGATAATTGAAGAGTTTCAGAAATGTCATACAGACCACCCACTAGGA
AAATTCCTTGGGCAATGCACAGAACTGAAAGTAAAGCTTGACCGGTGCTTTAGGCAGGAAGTAA
GGTTTCTTGCTTTACCTATTCGGAAATTATATGTCTTTGAAAACATATCTTCAGTGTTCCTCAT
GTATGAGCCATTAAAAAAATATGATGTCCTTCTGCAGAAAGCTATAAAGAGGAAAGCAAATTTT
GAACAGAGCAAGAAGTTGAAAGAGAGGCTCCAAGCTTACAGGAAAGAAACTGCTGACATGCAAT
CTTGAATCTGATAATAGTTATGTTGACAAGACACTGTTGTGCAATATTTCAACACACGAAGGAA
AACTTAACGGCTAGGATTTATCAGAGAAAGATTGGTGAATAGAATTGTCGTTCGTCTATTCTGA
TGTTTTCGTCAATCTCCATTATTTAAGTTAGTTAAAGTAAATAAGATGTATAGACACAAGAATT
GATAAATTACAGGAGCAACTTATCAGACCATTCAATTTTGGTAAAATGTCAAACATCAAAATAC
TGAAATAACTGTGTGAACTGATAGAATGTTCCTGGTGGGAGGTAGCTAGCCTCTTAATATTAGT
CGAGGTGCGTGCAAGGTGATCCAGCACAAACATAGACCTTGTTTGGATATTTTTAGACAAAGCA
AATGTGAATTGTTCTAATACAAGCTGTAAGCGAAGTTTTTTTTTTTTTTTTTGGGAACTTGGAG
CCTGGAGTGCATACTAAACTCTTAAGCTTGTGTTGTTGGCCAGTTGGAAGAATATTTGCCATGA
ATTTGCTCCACAAAAATAGAGTTTCTGTAGGATGGCCAATGTGATATTTAAATGGACTCTTGCT
GTTATTTAAATCAAACATTATTTCTATTCCTTTCAAAATGAATAATGTGAGTAGTAACTCTTCC
TGTTGCAACACAAATGGAGGTTTGAGAGTTCCAAATTTGTTTCTATTTTAGAAGTGCACCACTG
GTAATTAACACCAGTTCTAGCATCCAATTGTGTGACCTAGTCTTCAACGAAGTGGTTGAGAATC
AAGAGGTCTCATGTTCAATTTCGTTGAGACAAAAAACACTAGGTGATTTTTTCCATTTGTCCTA
ATCTTGGTGGACAGAGTTACATGATACTTGTTGCTGGTGGACACTGAATATTGTTATTGGTAGG
AGGTGAAAGGTATTAAGTGAAATTAAGCCTTGATATAAAAGCAATTATGAGATGCCAAAATTGG
GACATATACAAGTGTTGTAGGTCTCTATGGTGGTATCACATGTCTAAATAGAAACTTTCATGGC
TTAAAACAGAATCTTCCTATTCAAATTTTAAAGTTCAATGTGTCAAAGCTTAACACATCATTTT
TCACACATAGGATAAGATATATAATATTAATATACAGGAAATTCTAGACCCATATATAATATCA
AGAATGCAATGAATTTAGTCTTGGAAGGTAAAAAAATTTAACTCATCAAATTTTAATATTGGAT
TTATTCAGTCTTGGATTTCTAACTAACCAAAACTTTGTTCCCTCCACAAGCTAAATTATCTTTG
TCGATAGTGTCAAAAGAAAATGAAATGGATTAGGAATTAATCTGATTTGGATTAGCCGATATGT
CTTTTGCCAAATATTGTTGCATGAAAAAAAGAATTATACTTATGACAAATGGATCTAACTCAAC
TGTAAAAGCTAACTCATGAGAAAAAGATTATCAAGTCCATATAAGTAGACCTTCAATCAATTTT
CCAACCAATTTTAATACCCCTTCGTGCTCAAGCCGTCCAGCTTTAGCGTGTACTAAGAGTCCAA
ACAGAAATGGACTTGGCCCTGATACTATATAAAAATATGACATATCGACTAACTCAATTTCAAA
AGTTAGCTTATGAGAAAGGATTATATAAGTTCATATAAGCAAGCCACCAATTCATTTTCCAATC
TAAAATCCCCATACAAAGTCGAATAGCATCACTCCTTTTGTAGTGTTTGGAAGACTCAGAAATA
TTCCAAAAAGGTATTCATATGGCATTTTACATTATTTTCTATTTTTGTTTTTTTTTTCCCTTTG
AAATAATGGAAGCAAATTTAAAGTTACTTTGGGGAATTAGGTGTTTAAAAAATAGAGCATATTT
TAAGAAATCTTCTTTGATTAATAAGTTGGTTTTTTTTTAAAGATTATATCAATTTCAATATTTG
CTTTTCTAATATGTGTTTGATACGACATAAATTGTCATAAAAAAATTATTAATCTCCAATTATC
ACTTGTTCCTCCTAAGTAAAAAAGTAACATATTTCGTTCTTGATTTGTTCACGTGTTACATGTG
AGTTGAACGCACGTCATGATTTATGTCCGTTATAACAGAAAAAACGTTGTTCAATTGGGAGGAC
ATACAACATGGTTCATGCCTTACTGTAACAAGAACACTTTTATTCGATTTGAAAATGAACTGAT
AACTTGTTATTCAAGTAAAAAGAATCGAGCATAGATATATTACGTATCAAAATTTGAATCAAAA
TACGTGCACGATTAACCTTCCAAAATTTGTCAAATATAAAAAGAATATATAAAAAATAACATAA
AATGCCAATGATTGGCCACTATTGGAGCATACTTTCAAATCAAGGGAAATATTCGCAACCTACA
TTTTTAAAGTATCTCAACTAATTCTATCATATTTTTTGTTAAATCAACACATTAATTAATGTCG
TTTTACTACTCTAAATGAGCAAAAAAAAAATCATTTTGCTATAAGTGATAGTGCAACTATTGTT
TACACCACCAGTACAATTTAATTCACTCATTATTTTATCATGTTGTAGATTAACATTAAAAATA
AATAAATACTTAAAACTATTTTATGAGTAGACTTAATTTATAATATTTTTCAAACTCTACGACC
AAAAATATTTGTACAATGTCTTTAATCCTCATAGATTTTGAAGTTGAAATTTAGAAAAATATTA
GAAAAAAATAGTTTTTATTTTCAAAATGATGGTATTTAAAAGTTAAAGTTGTGTTTGGCCATGA
ATATAAATTGAAATTGTTTTTGAATTTTTTAGAGTACATGACTTTTTGGTATTCTTCAAATTTT
GAGTTTTATTGTCAAATTTTGAATTTTATGTGTTTCGGAGTTTAACGATTATGACCAACACCGT
CTTAAAATTATTAAAAGATTAGATTTTCTAAATAAATTAAATTTTATGATCAAATAAATATTTA
AAGATGAATTTTTAAAATTAACGTCAAACAAATAATCTTCAAAAACATATTACTATTGATTATT
CTATTTTTTTTAACAGAAAATAAAAAGGAAGAGAAAAAAAATCAAAGTTAGAACATTCACCGTA
AACGCCGCCAGGGTCAGGTTTGACAACTAGACTCGGACGTATTACAAAAGCTATAGGTTCGGAA
CATCCAGCTGTATACAGCCTGTTATTTTTAGTATTTCATTTTTTCATTATATTTTTGTATATTT
CACATTTAAACATTATAAATCTCAATTATAATTTCCAATTCTGGGTTTGGTTTATTCGCTGGCG
ACAGCCTGTTTCCAACAAAGCTCTCCTACCACACTACCCCCACACCCCCCTCTATCTTCTCCCC
CATTTTCCCTCACTCTTCTCTTCCATCAATCCTCTCTCTCTCTCTCTCTTTTTTTTCTTCTGTA
CTTAGGGTTTTTTTCTTCTTCTCCCGATTCTCACTGGATACAAGAAGATTCAGAATTTGCGCTT
TTCAGATCAAGATTCTCCGTCTG
						
					

			
		

Sequences
Splice junction sequence	TTTTTCTTCTGTACTTAGGGTTTTTTTCTTCTTCTCCCGATTCTCACTGGATACAAGAAGATTC AGAATTTGCGCTTTTCAGATCAAGATTCTCCGTCTGttttgaactcaaggaaagaagatgcatc cacctttgactctacatagacaccctttatgtgctgatgtaagtttctcacattgttaaattag attagatt
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	TTTTGAACTCAAGGAAAGAAGATGCATCCACCTTTGACTCTACATAGACACCCTTTATGTGCTG ATGTAAGTTTCTCACATTGTTAAATTAGATTAGATTCATCTTGTGCTTTTGAAGCACTGCCTTT GCATGTGTTTATTTGCATTGACATGCTATTTTCCTCGGACTCTTCAAAATGTCAACGGGTGCGT GTCGGATTCGCCAAAAGTATTGTATTTTTGGAGAATTCAACACGGGTGTGACATCAAAAGTGAA GAGTCGGTGCAACTTAGTTGACATGTAGTCTCGTCGTGTGTATATCATAGTTTGTAGATTAATT TGTTCTTTTTATTGGTTAATTTCAAGAAACAATTGCCAAAACATCTCAAATACACTAAAGATGG CTATGTCGCCGTGGTGCAGATAATTGAAGAGTTTCAGAAATGTCATACAGACCACCCACTAGGA AAATTCCTTGGGCAATGCACAGAACTGAAAGTAAAGCTTGACCGGTGCTTTAGGCAGGAAGTAA GGTTTCTTGCTTTACCTATTCGGAAATTATATGTCTTTGAAAACATATCTTCAGTGTTCCTCAT GTATGAGCCATTAAAAAAATATGATGTCCTTCTGCAGAAAGCTATAAAGAGGAAAGCAAATTTT GAACAGAGCAAGAAGTTGAAAGAGAGGCTCCAAGCTTACAGGAAAGAAACTGCTGACATGCAAT CTTGAATCTGATAATAGTTATGTTGACAAGACACTGTTGTGCAATATTTCAACACACGAAGGAA AACTTAACGGCTAGGATTTATCAGAGAAAGATTGGTGAATAGAATTGTCGTTCGTCTATTCTGA TGTTTTCGTCAATCTCCATTATTTAAGTTAGTTAAAGTAAATAAGATGTATAGACACAAGAATT GATAAATTACAGGAGCAACTTATCAGACCATTCAATTTTGGTAAAATGTCAAACATCAAAATAC TGAAATAACTGTGTGAACTGATAGAATGTTCCTGGTGGGAGGTAGCTAGCCTCTTAATATTAGT CGAGGTGCGTGCAAGGTGATCCAGCACAAACATAGACCTTGTTTGGATATTTTTAGACAAAGCA AATGTGAATTGTTCTAATACAAGCTGTAAGCGAAGTTTTTTTTTTTTTTTTTGGGAACTTGGAG CCTGGAGTGCATACTAAACTCTTAAGCTTGTGTTGTTGGCCAGTTGGAAGAATATTTGCCATGA ATTTGCTCCACAAAAATAGAGTTTCTGTAGGATGGCCAATGTGATATTTAAATGGACTCTTGCT GTTATTTAAATCAAACATTATTTCTATTCCTTTCAAAATGAATAATGTGAGTAGTAACTCTTCC TGTTGCAACACAAATGGAGGTTTGAGAGTTCCAAATTTGTTTCTATTTTAGAAGTGCACCACTG GTAATTAACACCAGTTCTAGCATCCAATTGTGTGACCTAGTCTTCAACGAAGTGGTTGAGAATC AAGAGGTCTCATGTTCAATTTCGTTGAGACAAAAAACACTAGGTGATTTTTTCCATTTGTCCTA ATCTTGGTGGACAGAGTTACATGATACTTGTTGCTGGTGGACACTGAATATTGTTATTGGTAGG AGGTGAAAGGTATTAAGTGAAATTAAGCCTTGATATAAAAGCAATTATGAGATGCCAAAATTGG GACATATACAAGTGTTGTAGGTCTCTATGGTGGTATCACATGTCTAAATAGAAACTTTCATGGC TTAAAACAGAATCTTCCTATTCAAATTTTAAAGTTCAATGTGTCAAAGCTTAACACATCATTTT TCACACATAGGATAAGATATATAATATTAATATACAGGAAATTCTAGACCCATATATAATATCA AGAATGCAATGAATTTAGTCTTGGAAGGTAAAAAAATTTAACTCATCAAATTTTAATATTGGAT TTATTCAGTCTTGGATTTCTAACTAACCAAAACTTTGTTCCCTCCACAAGCTAAATTATCTTTG TCGATAGTGTCAAAAGAAAATGAAATGGATTAGGAATTAATCTGATTTGGATTAGCCGATATGT CTTTTGCCAAATATTGTTGCATGAAAAAAAGAATTATACTTATGACAAATGGATCTAACTCAAC TGTAAAAGCTAACTCATGAGAAAAAGATTATCAAGTCCATATAAGTAGACCTTCAATCAATTTT CCAACCAATTTTAATACCCCTTCGTGCTCAAGCCGTCCAGCTTTAGCGTGTACTAAGAGTCCAA ACAGAAATGGACTTGGCCCTGATACTATATAAAAATATGACATATCGACTAACTCAATTTCAAA AGTTAGCTTATGAGAAAGGATTATATAAGTTCATATAAGCAAGCCACCAATTCATTTTCCAATC TAAAATCCCCATACAAAGTCGAATAGCATCACTCCTTTTGTAGTGTTTGGAAGACTCAGAAATA TTCCAAAAAGGTATTCATATGGCATTTTACATTATTTTCTATTTTTGTTTTTTTTTTCCCTTTG AAATAATGGAAGCAAATTTAAAGTTACTTTGGGGAATTAGGTGTTTAAAAAATAGAGCATATTT TAAGAAATCTTCTTTGATTAATAAGTTGGTTTTTTTTTAAAGATTATATCAATTTCAATATTTG CTTTTCTAATATGTGTTTGATACGACATAAATTGTCATAAAAAAATTATTAATCTCCAATTATC ACTTGTTCCTCCTAAGTAAAAAAGTAACATATTTCGTTCTTGATTTGTTCACGTGTTACATGTG AGTTGAACGCACGTCATGATTTATGTCCGTTATAACAGAAAAAACGTTGTTCAATTGGGAGGAC ATACAACATGGTTCATGCCTTACTGTAACAAGAACACTTTTATTCGATTTGAAAATGAACTGAT AACTTGTTATTCAAGTAAAAAGAATCGAGCATAGATATATTACGTATCAAAATTTGAATCAAAA TACGTGCACGATTAACCTTCCAAAATTTGTCAAATATAAAAAGAATATATAAAAAATAACATAA AATGCCAATGATTGGCCACTATTGGAGCATACTTTCAAATCAAGGGAAATATTCGCAACCTACA TTTTTAAAGTATCTCAACTAATTCTATCATATTTTTTGTTAAATCAACACATTAATTAATGTCG TTTTACTACTCTAAATGAGCAAAAAAAAAATCATTTTGCTATAAGTGATAGTGCAACTATTGTT TACACCACCAGTACAATTTAATTCACTCATTATTTTATCATGTTGTAGATTAACATTAAAAATA AATAAATACTTAAAACTATTTTATGAGTAGACTTAATTTATAATATTTTTCAAACTCTACGACC AAAAATATTTGTACAATGTCTTTAATCCTCATAGATTTTGAAGTTGAAATTTAGAAAAATATTA GAAAAAAATAGTTTTTATTTTCAAAATGATGGTATTTAAAAGTTAAAGTTGTGTTTGGCCATGA ATATAAATTGAAATTGTTTTTGAATTTTTTAGAGTACATGACTTTTTGGTATTCTTCAAATTTT GAGTTTTATTGTCAAATTTTGAATTTTATGTGTTTCGGAGTTTAACGATTATGACCAACACCGT CTTAAAATTATTAAAAGATTAGATTTTCTAAATAAATTAAATTTTATGATCAAATAAATATTTA AAGATGAATTTTTAAAATTAACGTCAAACAAATAATCTTCAAAAACATATTACTATTGATTATT CTATTTTTTTTAACAGAAAATAAAAAGGAAGAGAAAAAAAATCAAAGTTAGAACATTCACCGTA AACGCCGCCAGGGTCAGGTTTGACAACTAGACTCGGACGTATTACAAAAGCTATAGGTTCGGAA CATCCAGCTGTATACAGCCTGTTATTTTTAGTATTTCATTTTTTCATTATATTTTTGTATATTT CACATTTAAACATTATAAATCTCAATTATAATTTCCAATTCTGGGTTTGGTTTATTCGCTGGCG ACAGCCTGTTTCCAACAAAGCTCTCCTACCACACTACCCCCACACCCCCCTCTATCTTCTCCCC CATTTTCCCTCACTCTTCTCTTCCATCAATCCTCTCTCTCTCTCTCTCTTTTTTTTCTTCTGTA CTTAGGGTTTTTTTCTTCTTCTCCCGATTCTCACTGGATACAAGAAGATTCAGAATTTGCGCTT TTCAGATCAAGATTCTCCGTCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.134481682

Conservation Information
Conserved circRNAs	NA
PMCS	0.134481682

			
						 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 PGSC0003DMG400024874_circ_ag.3

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