Plant Circular RNA Database

Detail information of PGSC0003DMG400033029_circ_g.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400033029_circ_g.1
					
						ID in PlantcircBase
						stu_circ_000834
					
						Alias
						chr06:52124272|52128274
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr6: 52124273-52128274  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							PGSC0003DMG400033029						
					
						Parent gene annotation
						
							Enhanced disease susceptibility 1 protein
							
						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-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
						PGSC0003DMT400083027:2
PGSC0003DMT400083030:1
PGSC0003DMT400083028:1

General Information
CircRNA Name	PGSC0003DMG400033029_circ_g.1
ID in PlantcircBase	stu_circ_000834
Alias	chr06:52124272\|52128274
Organism	Solanum tuberosum
Position	chr6: 52124273-52128274 JBrowse»
Reference genome	3.0.38
Type	e-circRNA
Identification method	CIRI2
Parent gene	PGSC0003DMG400033029
Parent gene annotation	Enhanced disease susceptibility 1 protein
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-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	PGSC0003DMT400083027:2 PGSC0003DMT400083030:1 PGSC0003DMT400083028:1

			
						 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  
						
							AACATTCCAGACACCAGAGAGCTGCCAGAATAGCTATAGCACCACCGGACGAGTGCCCTGCAAA
CACTACTTGTCTTCCTTTTGACATTGCCTTCTCCACtcctttttaagtgaagatttgtccagta
tgtcttgaaatcttctagcaaatgcttcattgaccttagctacctcatcagtgccaacacttct
caaagatg

									
								

					

						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
						
							TCCTTTTTAAGTGAAGATTTGTCCAGTATGTCTTGAAATCTTCTAGCAAATGCTTCATTGACCT
TAGCTACCTCATCAGTGCCAACACTTCTCAAAGATGGAAACAGAGTGGTGTTAATCTCTGTCTC
TCCAAAAGAAGTGTTACTGTACCAACCATCAAAAGACAAAGTTCCAGCAAAAGCAAAAACAACA
TCAGTAGACCGATCTATTTTCTTGTAAATATAAGGTATCCCAGGTGATAATTTGTGAGCTTCCA
TGGCTAAGTTACAAGCTTTCTTGATTAGCTCTTCTCTGACTTCAAATTCCTTCTTCCAAATTTT
TCACCATTTTTTGCTTCTTAGCTGCTTAAAGATTGCAACTTTACTGTTTAGTTTTCAAAAATCT
TTGAAGAAAGATTGAGGATGGAGAGATGGAATGAAGGTAAAGGGGAAATGGGTATTTAAGCTTT
TGGTGATTGGATGAAATGTAGAGGAAATGAGTCATTGACTTTTGAAGTCTTTGTTTTGCTTTGC
TTGACTCTTGCCTGTGGAAATTGAATAGGAAGATAAATAGTATCTATCAAGGAAATTTCCTACT
AATTGTTCTGCAAAATGGTTAATGTACGGACTCTTCAAAAATGTTATTTTTATAGAAATGATTA
CTGTGGAAGGATTTGATATGCACTCGCTTTTTATTTGTCGTGAATTCCCCTTTATGTCTTCCAT
AAGAACAAGAGGGATGGGCTCTCCGCCAACACTTTTCATATACTTGTCGACATTTTTAAAAGTT
TGAACGACATTGTATATTTTACTTTTATTTTTGTTCTAGCTTGTTTCAAAAAAATATATCATAT
TTCTATTTTACTTTTTAAAATAGTACTCCCTCCGTTTCACAAAGAATGACCTTCTTTCCTTTTT
AGTCAGTTTCAAAAAAATGACCTCTTTCCTTTTTTGGTAACATTTTACTTTTTGCTTTCCACGT
GACATGTTTAAGACCACAAGATTAAGGACAATTTTGTACATTTAACATAACTTTAATTTAGGAC
CACAAGATTCAAAAATCTTCTTTAATTTCTTAAACTTCATGCCAAGTCAAACCAGACCAATCTT
TTTGAAACGGAGGGAGTACTTTAATATAAGCTAATATGTAATGTTTAAGAATACAAATACTTTT
ATTTTGTTATGCACGTATTTAATTTAAGAGAACAAAATTAAAAGAATCTTTTTCTTTATATTCT
ACTCCCTCTGTCCCATTTTATGTGAGATAGTTTGACTCGGCACGAAGTTTAAGAAAGAAATGAA
GACTTCTAAAATTTGTGGTCCAAAATGAATGATAGAAATTTGTGTGGTTGAAGAAAGATTGAGG
ATGGAGAGATGGAATGAAGGTAAAGGGGAAATGGGTATTTAAGCTTTTGGTGATTGGATGAAAT
GTAGAGGAAATGAGTCTTTCATAAGAGCAAGAGGGGTGGGCTCTCTACTAACACTTTTCATATA
TTTGTCGACATTTTTGAAAAGTCATTTAAAATGAAATAGTATATTTTACTTTTATTTTTGTTCT
AGTTTGTTTCAAAAAAATATATCATATTTCTATTTTACTTTTAATAATAGTACTTTAATATAAG
ATAATATGATATGTTTAAGAATATAGGTATTTTTATTTTGTTACACACGTATTTAATTTAAGAT
AACAAAATTAGAAGAATTTTTTTCTTTATATTCTAATTTTTATGCACATTACACATCAAATGCG
ACCGACACATGGAAAGTGAAAAGGGGGGAGCATATTGGTGCTATTATATTCTTTCTCTTGATTA
TATATTTTGAAAAGTTGGTACTTTCTTTGTTTTTTCTTTAAAAAAATTTATAAGAAATAAAGGT
TGGGAAGTTAGACAAGGCAACTCGTTTTGAAGAAAAATAAAATTTTGGGAATGACAATCAAAAT
ATCTCGTGTTCACCTTGGATCCAAAGAAGGGCCTAACCCGAGATACAAATAGAATAGAAAAGCT
ACTTTGTTATTGTCTCTATTTGATTAAGGTTTATTAAAACTGTTTAGTGATTAACGAGCAAAAC
AAACAATTCTAATAGACTAGAGTTTAGTTTTGCACATTATTAAAACTGCTTTATGGACAAACTC
CCTTTCACTAGTTCCTTGAAGGTGACTTGTAAAAAGCCCATGGTTCAGCAGAAGTATACTCTGT
CACCTGCTTAATGTTCAAGAAACTTTCAAGACCCCTGCATCAATGCACAAACGATTATCACTTA
TCAGTCCGATCAGATCAGATCAGAGGTATCAAGTTTGTGCATTGAAAAATGATACATAGCTACT
TATCTGGCTGCTCTTATTAGGGGCATTGGAATATACGTGGTGGAATGTTATAGGTGTCTGTAAG
TTGGCTCGGATACCATCTTTATCAAGATATTAAGGCGCAAGGCGCTAAGGAGTTATTTTCCTTG
ATACCCAAGATGTCTGTTTGTGCTGAGTAGGGAGTGTTTTCCACCATTTGGTATAGGTAGATTC
AGGGAAGAAAACATCATCGCCAAGAAGGCTACTCTGGATCCAGCCATTTGCAGCTGTTTCTAAA
CTCAGAATCTTGTCTTGCACTTGTGCAAATGGCTTGTTTCTTAGTTCCTCCACTTCTGCCCAGA
AACAAGACTCGGAACGTGCACCAGCATGCACTTTATCAAAATGCTCTAACCATCTCTGTGTGAA
CCGATAACGCTTAGGCCTACCCCTGATCAAGTAAGGTCCACTATCTTCATTCTTCAAGTGCCTG
TAATAGTTTGCAATATCTAAGGGCTCAACTTGCCTGCGAAACTGTGTCCCTAGTTCTATCCAGT
CTTTTTGTCCCTCGAAGCTATCTGGGAGCTCATACCTTTTCAACATTTCAATGATCTCATTCCA
TATACCTGCTAGCTCATGCCTTTTCACATTAGCATTGAAGTCATCATCAGTGTTTTGAATCTTG
AATGCATCATAATACCCAACTTTATGGATATCACACTTGGTCTGGTACTCCTGTATCTTGCTTA
ATGCGTCCCTGATGCTTCTCTTATTTTGTTCAATCTTTTCCTCGTTCTTCTTCTTCTGCTTCTC
CCACTCTCCTGCTGCACGAAGACACAGCCTTGCTCTTGTGCTCTGAGATTTAGATAACGTGAAA
ACGCCTATTAGCTTGAGCAAGATAGACAATTCTGTTGAAAATGAAAATTAACCATATCTATTGC
TTACCAGGCCAAGGTCATTCAGTGCTGAATTCATACTTGCAACTTCATCGCTTGGATCAACATT
TGAAGATAAAGGAATATCAGTAAGATTGTTGAGATGAATGACATCTTGCATCTCTAAGCTATCT
TGCATTTCGTTTGTATACAACAGGTGATCGTTTAAACTTCTAGCAACGACTACTACAGCTTCTG
CTTCGGAACTCAATTGAGAGGAATAGAACAGTAACTGCAGAACAGCATCAGGGTTCTCAACGAC
AACCAGTTTCCTATTCCCAGTGCAGAAGATGTAAGTTCCAAAGGGTATATAAGGGCTGAGTTGA
ACAATGTTGGAAACAGTTTCCAAGAGCAAGTTTGTGCATCCCTTCAGATTACATGCAGCATAGC
TTGCAACAGAGGATGCATTCCTCATTACAGTCATAAAGAAATTCAATGCATTACTTGATCGTGC
AACAGCATCGCGCTGAGAATACTGGGACTTCGGATTGATGAAGGGAGAGATTGCTTGAAGCAAT
TCTTGAATTGATGAAAGAGGAGCAAGCATCATCCTGGGGACAATGTCGTACTTCATGACAAAAT
GTATGAAGTAACGAGCCCAGTTTTCGCGCCTGAGGGCATGAGACCATATCTTGTTGCCAACAAG
AGGGGATCCAAAAGTCATACAGTATAGATGGACTAACATGTCACCTTCTGGTCTTGTGCGGCAA
CATTCCAGACACCAGAGAGCTGCCAGAATAGCTATAGCACCACCGGACGAGTGCCCTGCAAACA
CTACTTGTCTTCCTTTTGACATTGCCTTCTCCAC
						
					

			
		

Sequences
Splice junction sequence	AACATTCCAGACACCAGAGAGCTGCCAGAATAGCTATAGCACCACCGGACGAGTGCCCTGCAAA CACTACTTGTCTTCCTTTTGACATTGCCTTCTCCACtcctttttaagtgaagatttgtccagta tgtcttgaaatcttctagcaaatgcttcattgaccttagctacctcatcagtgccaacacttct caaagatg
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	TCCTTTTTAAGTGAAGATTTGTCCAGTATGTCTTGAAATCTTCTAGCAAATGCTTCATTGACCT TAGCTACCTCATCAGTGCCAACACTTCTCAAAGATGGAAACAGAGTGGTGTTAATCTCTGTCTC TCCAAAAGAAGTGTTACTGTACCAACCATCAAAAGACAAAGTTCCAGCAAAAGCAAAAACAACA TCAGTAGACCGATCTATTTTCTTGTAAATATAAGGTATCCCAGGTGATAATTTGTGAGCTTCCA TGGCTAAGTTACAAGCTTTCTTGATTAGCTCTTCTCTGACTTCAAATTCCTTCTTCCAAATTTT TCACCATTTTTTGCTTCTTAGCTGCTTAAAGATTGCAACTTTACTGTTTAGTTTTCAAAAATCT TTGAAGAAAGATTGAGGATGGAGAGATGGAATGAAGGTAAAGGGGAAATGGGTATTTAAGCTTT TGGTGATTGGATGAAATGTAGAGGAAATGAGTCATTGACTTTTGAAGTCTTTGTTTTGCTTTGC TTGACTCTTGCCTGTGGAAATTGAATAGGAAGATAAATAGTATCTATCAAGGAAATTTCCTACT AATTGTTCTGCAAAATGGTTAATGTACGGACTCTTCAAAAATGTTATTTTTATAGAAATGATTA CTGTGGAAGGATTTGATATGCACTCGCTTTTTATTTGTCGTGAATTCCCCTTTATGTCTTCCAT AAGAACAAGAGGGATGGGCTCTCCGCCAACACTTTTCATATACTTGTCGACATTTTTAAAAGTT TGAACGACATTGTATATTTTACTTTTATTTTTGTTCTAGCTTGTTTCAAAAAAATATATCATAT TTCTATTTTACTTTTTAAAATAGTACTCCCTCCGTTTCACAAAGAATGACCTTCTTTCCTTTTT AGTCAGTTTCAAAAAAATGACCTCTTTCCTTTTTTGGTAACATTTTACTTTTTGCTTTCCACGT GACATGTTTAAGACCACAAGATTAAGGACAATTTTGTACATTTAACATAACTTTAATTTAGGAC CACAAGATTCAAAAATCTTCTTTAATTTCTTAAACTTCATGCCAAGTCAAACCAGACCAATCTT TTTGAAACGGAGGGAGTACTTTAATATAAGCTAATATGTAATGTTTAAGAATACAAATACTTTT ATTTTGTTATGCACGTATTTAATTTAAGAGAACAAAATTAAAAGAATCTTTTTCTTTATATTCT ACTCCCTCTGTCCCATTTTATGTGAGATAGTTTGACTCGGCACGAAGTTTAAGAAAGAAATGAA GACTTCTAAAATTTGTGGTCCAAAATGAATGATAGAAATTTGTGTGGTTGAAGAAAGATTGAGG ATGGAGAGATGGAATGAAGGTAAAGGGGAAATGGGTATTTAAGCTTTTGGTGATTGGATGAAAT GTAGAGGAAATGAGTCTTTCATAAGAGCAAGAGGGGTGGGCTCTCTACTAACACTTTTCATATA TTTGTCGACATTTTTGAAAAGTCATTTAAAATGAAATAGTATATTTTACTTTTATTTTTGTTCT AGTTTGTTTCAAAAAAATATATCATATTTCTATTTTACTTTTAATAATAGTACTTTAATATAAG ATAATATGATATGTTTAAGAATATAGGTATTTTTATTTTGTTACACACGTATTTAATTTAAGAT AACAAAATTAGAAGAATTTTTTTCTTTATATTCTAATTTTTATGCACATTACACATCAAATGCG ACCGACACATGGAAAGTGAAAAGGGGGGAGCATATTGGTGCTATTATATTCTTTCTCTTGATTA TATATTTTGAAAAGTTGGTACTTTCTTTGTTTTTTCTTTAAAAAAATTTATAAGAAATAAAGGT TGGGAAGTTAGACAAGGCAACTCGTTTTGAAGAAAAATAAAATTTTGGGAATGACAATCAAAAT ATCTCGTGTTCACCTTGGATCCAAAGAAGGGCCTAACCCGAGATACAAATAGAATAGAAAAGCT ACTTTGTTATTGTCTCTATTTGATTAAGGTTTATTAAAACTGTTTAGTGATTAACGAGCAAAAC AAACAATTCTAATAGACTAGAGTTTAGTTTTGCACATTATTAAAACTGCTTTATGGACAAACTC CCTTTCACTAGTTCCTTGAAGGTGACTTGTAAAAAGCCCATGGTTCAGCAGAAGTATACTCTGT CACCTGCTTAATGTTCAAGAAACTTTCAAGACCCCTGCATCAATGCACAAACGATTATCACTTA TCAGTCCGATCAGATCAGATCAGAGGTATCAAGTTTGTGCATTGAAAAATGATACATAGCTACT TATCTGGCTGCTCTTATTAGGGGCATTGGAATATACGTGGTGGAATGTTATAGGTGTCTGTAAG TTGGCTCGGATACCATCTTTATCAAGATATTAAGGCGCAAGGCGCTAAGGAGTTATTTTCCTTG ATACCCAAGATGTCTGTTTGTGCTGAGTAGGGAGTGTTTTCCACCATTTGGTATAGGTAGATTC AGGGAAGAAAACATCATCGCCAAGAAGGCTACTCTGGATCCAGCCATTTGCAGCTGTTTCTAAA CTCAGAATCTTGTCTTGCACTTGTGCAAATGGCTTGTTTCTTAGTTCCTCCACTTCTGCCCAGA AACAAGACTCGGAACGTGCACCAGCATGCACTTTATCAAAATGCTCTAACCATCTCTGTGTGAA CCGATAACGCTTAGGCCTACCCCTGATCAAGTAAGGTCCACTATCTTCATTCTTCAAGTGCCTG TAATAGTTTGCAATATCTAAGGGCTCAACTTGCCTGCGAAACTGTGTCCCTAGTTCTATCCAGT CTTTTTGTCCCTCGAAGCTATCTGGGAGCTCATACCTTTTCAACATTTCAATGATCTCATTCCA TATACCTGCTAGCTCATGCCTTTTCACATTAGCATTGAAGTCATCATCAGTGTTTTGAATCTTG AATGCATCATAATACCCAACTTTATGGATATCACACTTGGTCTGGTACTCCTGTATCTTGCTTA ATGCGTCCCTGATGCTTCTCTTATTTTGTTCAATCTTTTCCTCGTTCTTCTTCTTCTGCTTCTC CCACTCTCCTGCTGCACGAAGACACAGCCTTGCTCTTGTGCTCTGAGATTTAGATAACGTGAAA ACGCCTATTAGCTTGAGCAAGATAGACAATTCTGTTGAAAATGAAAATTAACCATATCTATTGC TTACCAGGCCAAGGTCATTCAGTGCTGAATTCATACTTGCAACTTCATCGCTTGGATCAACATT TGAAGATAAAGGAATATCAGTAAGATTGTTGAGATGAATGACATCTTGCATCTCTAAGCTATCT TGCATTTCGTTTGTATACAACAGGTGATCGTTTAAACTTCTAGCAACGACTACTACAGCTTCTG CTTCGGAACTCAATTGAGAGGAATAGAACAGTAACTGCAGAACAGCATCAGGGTTCTCAACGAC AACCAGTTTCCTATTCCCAGTGCAGAAGATGTAAGTTCCAAAGGGTATATAAGGGCTGAGTTGA ACAATGTTGGAAACAGTTTCCAAGAGCAAGTTTGTGCATCCCTTCAGATTACATGCAGCATAGC TTGCAACAGAGGATGCATTCCTCATTACAGTCATAAAGAAATTCAATGCATTACTTGATCGTGC AACAGCATCGCGCTGAGAATACTGGGACTTCGGATTGATGAAGGGAGAGATTGCTTGAAGCAAT TCTTGAATTGATGAAAGAGGAGCAAGCATCATCCTGGGGACAATGTCGTACTTCATGACAAAAT GTATGAAGTAACGAGCCCAGTTTTCGCGCCTGAGGGCATGAGACCATATCTTGTTGCCAACAAG AGGGGATCCAAAAGTCATACAGTATAGATGGACTAACATGTCACCTTCTGGTCTTGTGCGGCAA CATTCCAGACACCAGAGAGCTGCCAGAATAGCTATAGCACCACCGGACGAGTGCCCTGCAAACA CTACTTGTCTTCCTTTTGACATTGCCTTCTCCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.127240686

Conservation Information
Conserved circRNAs	NA
PMCS	0.127240686

			
						 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 PGSC0003DMG400033029_circ_g.1

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