Plant Circular RNA Database

Detail information of PGSC0003DMG400024881_circ_igg.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400024881_circ_igg.1
					
						ID in PlantcircBase
						stu_circ_000193
					
						Alias
						chr01:80052972|80057049
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr1: 80052973-80057049  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						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-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	PGSC0003DMG400024881_circ_igg.1
ID in PlantcircBase	stu_circ_000193
Alias	chr01:80052972\|80057049
Organism	Solanum tuberosum
Position	chr1: 80052973-80057049 JBrowse»
Reference genome	3.0.38
Type	igg-circRNA
Identification method	CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
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-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  
						
							TTCAATTCAATGTGTTTTGACATTTTTCTCTGTTTTTCAGGAAGAATGTGATGAGTTCAGAAAG
AAAGTCAAAGCTGGGATTTTCAGAAAGCTTACAGTTtggagcttgaacagagggctaaaatcct
tcacgaggacatcacaaagcatgtaggtttcaatctttccaagttacttttaaagttggataat
ttattttt

									
								

					

						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
						
							TGGAGCTTGAACAGAGGGCTAAAATCCTTCACGAGGACATCACAAAGCATGTAGGTTTCAATCT
TTCCAAGTTACTTTTAAAGTTGGATAATTTATTTTTCTTAGGAACTCCTTGTTGATTTGGATAG
TTTGTAGCTCTACAATTTTATATTCCATTGGCATGATAAATACAATTATCGTACAACATGGATT
AAATGTTGTAAAAAGATTTCAGCTTCCATTTCAGTAACATGAAGTTATTAGGGACCTGTTTATT
TTTGTCTTGATTCCATATATATTCGAAACATCTAATATCTGGTGACACCTTCACTTTTAATGGC
AGAGGATTGCTCAAGAGCTTGAATTGTTGCAAAAACTCATTGATCGAGCAAATGAGAAAGGACG
GAGACAGGAATATCCTTTTTTCCTTCTTTTTTGGGTGACTAAATTTATCGTATTTGACAGAACG
CCAAACCAGCCCCAAGGATGGAAAATTTAGCACAGATTTGGTAGTAAGCTTCTGTGTTTGGTCA
CCTGCATTACTTTCTATGATCACCAATTTCATCTTAACCCCTATGTTCCTCTTTTATCATCTCA
TCCTTCATTCCCTAATTTTGTCTGTGTGTACTGTTGTCTCGATGTTCTTCATCCTGGTCCATTC
TGCAAAGAAAGGAAAGTGTTTCCTTAACCCCTTGTTTACACTTTTCCAGCATCTGGAGAAAAGA
AAGCTCCTACAGCAAGCTTCGTACCTGTCATTTGTGCTGCAGAATATTCCCCAAGTGACTCCAG
AGAAAATAGAGCTTGAATCTCTAGATAGGAATGACAATCATATGCATCGAGGAATGGCTGAAGA
TGAGAGGAATGGAAATAAGATGCATCAATGCGAAGATGAGACAACCACCCCTACAAAGAAAAAT
ATTCCTGGGGTGATTCCCGAAAAAGTAGGACTTGAACCTCTGGCTGAAAATGAGGATGAGAACC
TTTCTTCAGACAATTTCAGTGATGGAGGACCTCAGAAGAAAAGGGCTGAAAAGAAAATATGTAC
ACAACAGAAAACAAAGATGCAAAGAAGCGACACTTCACAGAAAAAAGAATTTGTTGGATGGGGA
TCAAAATCTCTAATTGACTTTCTTCAGCTTATAGGTCACGATACCAGAGAAAAATTATCCCCAT
ATGATGTGACATCGATGGTAAGTAAATATGTAAATGAAAATAACCTTATCCATCCGGTTGAAAG
GAGAAAGATCCTTTGTGATGTTCAGTTAGAAGCTATTTTGGGGAAAAAAGTAGTAAACAAAGAC
AAAATATTTAGCCTCCTTATAAGCCATTTTGTTGAAAATGAGGAGCGATTACAAAAGGATGAGC
TTGATCATGATCTTGAAGACAATGACACAGAAATGTTGGTGGCTTCTAAAACTGAGAAAAAGGT
TGAACAAAACAAAAGATCCTCAATTTCGTATTCAACAGCAGCACAAAGTCAATTTGCAGCCTTG
ATTCCTGAAAATATCAAACTCGTTTACCTGAAGAGGAGTTTGCTTCTGGAGATGATCAAGAAGC
CTGAGTCATTTGAAACCAAGATTATAGGAAGTTTTGTTCGGGTCAAGTTAGATCCACGTGATTT
TGAGCTGCGTAACTCTCATCAGCTTGTGCAAATTACAGGTTGTTTTAACAAATGGCTTCATTCT
TTGATTTGTTTTTTTACATAGTTGTTAACATCCCTCGGTGGACTGCTGTGAATGTGTCTGAATG
CTGCATTATGTTCATGTACTCCATACAAAGTTTTAGGATACTTGAAATTATCCAAAATATGACT
GCTGTGAATATGTCTGAATGCTGCAGTATGCTCATGTCTTCCATTCAGAACACCTGTTTTTTAA
ACATAAATGATTTTTGTTTCCTCAACCAACTTGTTTACTCTTTTTGTTGTTATCATGATGTTTA
TAATCTGTTCAAGCACATGAAATAAAAGTTGAAACTCAAAACTCATCTTTTCATCTTCCCGTGA
ACTGAATTTCCTTTGGGTTTGTCAATGTTGTTTTGTTAATATTGAGAGAAGAGTTCATTCTTAA
CACCCTCTATATTTTGTTTGGAACATAAAAACCTTCTTTATTAGTTATTATACTTTGTCTGCTC
ATGTTGTATGATACTATTATTATTTGGTGAGTCGAATTGTTTCTTTTTTTGACTACGATGTGTT
AAATAATCTGGTAAGACTTTACCAAAATAATTGTTATTAGTAGTAATTAATATGTAGTTTTCAA
ATATGTAAATACTATTTTGAAAATAGTAAAGCATCGATTCGGAATTGACATAGAGGATCAGATG
AGTTGATTCCGGATCATACTACTCTTTTCAGGACGGAGGATGGTCGCTGCTAAACTAAAACAAG
TTACATTCTCCAACCCAAAGAAAAAGAGTAGAAAACCTAGTTTGAATAGCTTCAAAGGTTGAGA
GAGAAAACTAGAAATAGGTTACTATAATTAAATTTAATAGGATTTGGATAAATCTGGAAGGAGA
AATTTGATATGTGAATCGAGTGGAATAGATCAATGAAAAGATATGACGTAATGAAATAAGATAA
ATCGATCTCTTAAAGAAGCTCAGTAAATTTGGAAGAGAAAAAAGCAAGCAGGTCAAGTAAATTG
GATGAAGAGAGTGAGGCAATGATCATAATCTTATACTCATATTCTATGTCTTAATATTGAATAT
TTTCTTCCATTGAAAACTTAATGTTGAGCACCAATTTTGCTTTCAAACTGACATCTTTCTTGTT
TAAGCGAGTGTTTCAGGGATCAAGCATGGATCAAGCGATAACTGCTGTTGCAAGAGTTTAATTC
AAGTTTCAAATATCACTGAAAATGTTTGCTTGAACACGCTTTCTGATGATGAGTTTTCTAATGT
AACCTACTTCAACCCTTTCATGATCATTCTACATATACGTTCATTACATATAGATATTAAATGT
TGTTAATCCGAGTCTTTTCATGTACAAATACGTGTCACTCTTCTAACTTAGAGTTAGATTCCAT
ACTGCAAAAAAGTTGTTAATTTTGGATGTTGGTTATTTTCTAGGCTATATTTGTTTTGATCTTT
TAAAAAGGATCAAAGGTTTTCTCTTGTTTTGAGAAGTTGCTATCATTGGCTGTTTCAGATTTTT
ATGTTATTAGTGTCATAATAGATTTCACTCTTGGAAAAGATCCTTATTGCAGCCAATGATAGGA
GGTGTGGCATGTGGATTAGCTATTATTTTCTATACAAACAGAAGAAAATAGCTTTTTAACTCGT
CTTGTAGGTGTAATCTGCACCACAGAAATTGGAACGTTATACGTTTTCTAGTTACGACAACAAC
ACACTCAGTGTAATCCCATATCTAGGGTATGGGGAGGGTAAAGTGTATGCATACCTTACCCCTT
TATGTTTCTAGTTACGGAAAAAAACAAATTCAGTGACTGAAGAGTGGCTTCATTTGGGTTACCA
ATATTCTCAACCTTGTGGAAGCTGAGGTAGATTTGTGTGATCATCAAATTGGAAGTAATTTAAA
ATATCCTAGACGATAAATGTTTGATAGCATTCTAGAGCTGCTGGACTGCCACGTGTAATTGGAG
CACTCCTGTTTTTGTTTAGTCTTTTGAGCTACTCTTGGTGCATTTACACTAATGGGAATTGCTT
ATCCAAAAAAAAAAAATTATAGACCTAATAGAAAGGCACCTACTGATTATTCCCATTTCCATTT
ACTGATTATCACTTTGAGTATTTCTTGAACTGAGGGAAAAAGCTGATTGAATGTTTCTACTAAT
AAAAAAGGAAATGATTGAACGTTTCTAGTAGTCTAGATCCTAATGGAAGCTAGTTTTTTGTTTC
TTCAGAATACAACATAGCATCTTACCCTTAGTTGATCTGAAGCTGTTACATGTATTCATTTATA
CTTGAGAAACATCTTAACAGTGTGGAACTACCCAGTGGCAAAAACTCTACCAAAAAGCTTTCTT
GGTTAACCCTTCAATTCAATGTGTTTTGACATTTTTCTCTGTTTTTCAGGAAGAATGTGATGAG
TTCAGAAAGAAAGTCAAAGCTGGGATTTTCAGAAAGCTTACAGTT
						
					

			
		

Sequences
Splice junction sequence	TTCAATTCAATGTGTTTTGACATTTTTCTCTGTTTTTCAGGAAGAATGTGATGAGTTCAGAAAG AAAGTCAAAGCTGGGATTTTCAGAAAGCTTACAGTTtggagcttgaacagagggctaaaatcct tcacgaggacatcacaaagcatgtaggtttcaatctttccaagttacttttaaagttggataat ttattttt
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	TGGAGCTTGAACAGAGGGCTAAAATCCTTCACGAGGACATCACAAAGCATGTAGGTTTCAATCT TTCCAAGTTACTTTTAAAGTTGGATAATTTATTTTTCTTAGGAACTCCTTGTTGATTTGGATAG TTTGTAGCTCTACAATTTTATATTCCATTGGCATGATAAATACAATTATCGTACAACATGGATT AAATGTTGTAAAAAGATTTCAGCTTCCATTTCAGTAACATGAAGTTATTAGGGACCTGTTTATT TTTGTCTTGATTCCATATATATTCGAAACATCTAATATCTGGTGACACCTTCACTTTTAATGGC AGAGGATTGCTCAAGAGCTTGAATTGTTGCAAAAACTCATTGATCGAGCAAATGAGAAAGGACG GAGACAGGAATATCCTTTTTTCCTTCTTTTTTGGGTGACTAAATTTATCGTATTTGACAGAACG CCAAACCAGCCCCAAGGATGGAAAATTTAGCACAGATTTGGTAGTAAGCTTCTGTGTTTGGTCA CCTGCATTACTTTCTATGATCACCAATTTCATCTTAACCCCTATGTTCCTCTTTTATCATCTCA TCCTTCATTCCCTAATTTTGTCTGTGTGTACTGTTGTCTCGATGTTCTTCATCCTGGTCCATTC TGCAAAGAAAGGAAAGTGTTTCCTTAACCCCTTGTTTACACTTTTCCAGCATCTGGAGAAAAGA AAGCTCCTACAGCAAGCTTCGTACCTGTCATTTGTGCTGCAGAATATTCCCCAAGTGACTCCAG AGAAAATAGAGCTTGAATCTCTAGATAGGAATGACAATCATATGCATCGAGGAATGGCTGAAGA TGAGAGGAATGGAAATAAGATGCATCAATGCGAAGATGAGACAACCACCCCTACAAAGAAAAAT ATTCCTGGGGTGATTCCCGAAAAAGTAGGACTTGAACCTCTGGCTGAAAATGAGGATGAGAACC TTTCTTCAGACAATTTCAGTGATGGAGGACCTCAGAAGAAAAGGGCTGAAAAGAAAATATGTAC ACAACAGAAAACAAAGATGCAAAGAAGCGACACTTCACAGAAAAAAGAATTTGTTGGATGGGGA TCAAAATCTCTAATTGACTTTCTTCAGCTTATAGGTCACGATACCAGAGAAAAATTATCCCCAT ATGATGTGACATCGATGGTAAGTAAATATGTAAATGAAAATAACCTTATCCATCCGGTTGAAAG GAGAAAGATCCTTTGTGATGTTCAGTTAGAAGCTATTTTGGGGAAAAAAGTAGTAAACAAAGAC AAAATATTTAGCCTCCTTATAAGCCATTTTGTTGAAAATGAGGAGCGATTACAAAAGGATGAGC TTGATCATGATCTTGAAGACAATGACACAGAAATGTTGGTGGCTTCTAAAACTGAGAAAAAGGT TGAACAAAACAAAAGATCCTCAATTTCGTATTCAACAGCAGCACAAAGTCAATTTGCAGCCTTG ATTCCTGAAAATATCAAACTCGTTTACCTGAAGAGGAGTTTGCTTCTGGAGATGATCAAGAAGC CTGAGTCATTTGAAACCAAGATTATAGGAAGTTTTGTTCGGGTCAAGTTAGATCCACGTGATTT TGAGCTGCGTAACTCTCATCAGCTTGTGCAAATTACAGGTTGTTTTAACAAATGGCTTCATTCT TTGATTTGTTTTTTTACATAGTTGTTAACATCCCTCGGTGGACTGCTGTGAATGTGTCTGAATG CTGCATTATGTTCATGTACTCCATACAAAGTTTTAGGATACTTGAAATTATCCAAAATATGACT GCTGTGAATATGTCTGAATGCTGCAGTATGCTCATGTCTTCCATTCAGAACACCTGTTTTTTAA ACATAAATGATTTTTGTTTCCTCAACCAACTTGTTTACTCTTTTTGTTGTTATCATGATGTTTA TAATCTGTTCAAGCACATGAAATAAAAGTTGAAACTCAAAACTCATCTTTTCATCTTCCCGTGA ACTGAATTTCCTTTGGGTTTGTCAATGTTGTTTTGTTAATATTGAGAGAAGAGTTCATTCTTAA CACCCTCTATATTTTGTTTGGAACATAAAAACCTTCTTTATTAGTTATTATACTTTGTCTGCTC ATGTTGTATGATACTATTATTATTTGGTGAGTCGAATTGTTTCTTTTTTTGACTACGATGTGTT AAATAATCTGGTAAGACTTTACCAAAATAATTGTTATTAGTAGTAATTAATATGTAGTTTTCAA ATATGTAAATACTATTTTGAAAATAGTAAAGCATCGATTCGGAATTGACATAGAGGATCAGATG AGTTGATTCCGGATCATACTACTCTTTTCAGGACGGAGGATGGTCGCTGCTAAACTAAAACAAG TTACATTCTCCAACCCAAAGAAAAAGAGTAGAAAACCTAGTTTGAATAGCTTCAAAGGTTGAGA GAGAAAACTAGAAATAGGTTACTATAATTAAATTTAATAGGATTTGGATAAATCTGGAAGGAGA AATTTGATATGTGAATCGAGTGGAATAGATCAATGAAAAGATATGACGTAATGAAATAAGATAA ATCGATCTCTTAAAGAAGCTCAGTAAATTTGGAAGAGAAAAAAGCAAGCAGGTCAAGTAAATTG GATGAAGAGAGTGAGGCAATGATCATAATCTTATACTCATATTCTATGTCTTAATATTGAATAT TTTCTTCCATTGAAAACTTAATGTTGAGCACCAATTTTGCTTTCAAACTGACATCTTTCTTGTT TAAGCGAGTGTTTCAGGGATCAAGCATGGATCAAGCGATAACTGCTGTTGCAAGAGTTTAATTC AAGTTTCAAATATCACTGAAAATGTTTGCTTGAACACGCTTTCTGATGATGAGTTTTCTAATGT AACCTACTTCAACCCTTTCATGATCATTCTACATATACGTTCATTACATATAGATATTAAATGT TGTTAATCCGAGTCTTTTCATGTACAAATACGTGTCACTCTTCTAACTTAGAGTTAGATTCCAT ACTGCAAAAAAGTTGTTAATTTTGGATGTTGGTTATTTTCTAGGCTATATTTGTTTTGATCTTT TAAAAAGGATCAAAGGTTTTCTCTTGTTTTGAGAAGTTGCTATCATTGGCTGTTTCAGATTTTT ATGTTATTAGTGTCATAATAGATTTCACTCTTGGAAAAGATCCTTATTGCAGCCAATGATAGGA GGTGTGGCATGTGGATTAGCTATTATTTTCTATACAAACAGAAGAAAATAGCTTTTTAACTCGT CTTGTAGGTGTAATCTGCACCACAGAAATTGGAACGTTATACGTTTTCTAGTTACGACAACAAC ACACTCAGTGTAATCCCATATCTAGGGTATGGGGAGGGTAAAGTGTATGCATACCTTACCCCTT TATGTTTCTAGTTACGGAAAAAAACAAATTCAGTGACTGAAGAGTGGCTTCATTTGGGTTACCA ATATTCTCAACCTTGTGGAAGCTGAGGTAGATTTGTGTGATCATCAAATTGGAAGTAATTTAAA ATATCCTAGACGATAAATGTTTGATAGCATTCTAGAGCTGCTGGACTGCCACGTGTAATTGGAG CACTCCTGTTTTTGTTTAGTCTTTTGAGCTACTCTTGGTGCATTTACACTAATGGGAATTGCTT ATCCAAAAAAAAAAAATTATAGACCTAATAGAAAGGCACCTACTGATTATTCCCATTTCCATTT ACTGATTATCACTTTGAGTATTTCTTGAACTGAGGGAAAAAGCTGATTGAATGTTTCTACTAAT AAAAAAGGAAATGATTGAACGTTTCTAGTAGTCTAGATCCTAATGGAAGCTAGTTTTTTGTTTC TTCAGAATACAACATAGCATCTTACCCTTAGTTGATCTGAAGCTGTTACATGTATTCATTTATA CTTGAGAAACATCTTAACAGTGTGGAACTACCCAGTGGCAAAAACTCTACCAAAAAGCTTTCTT GGTTAACCCTTCAATTCAATGTGTTTTGACATTTTTCTCTGTTTTTCAGGAAGAATGTGATGAG TTCAGAAAGAAAGTCAAAGCTGGGATTTTCAGAAAGCTTACAGTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.159057344

Conservation Information
Conserved circRNAs	NA
PMCS	0.159057344

			
						 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 PGSC0003DMG400024881_circ_igg.1

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