Plant Circular RNA Database

Detail information of PGSC0003DMG400001342_circ_g.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400001342_circ_g.1
					
						ID in PlantcircBase
						stu_circ_000372
					
						Alias
						chr02:45949320|45953040
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr2: 45949321-45953040  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							PGSC0003DMG400001342						
					
						Parent gene annotation
						
							Conserved gene of unknown function
							
						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
						PGSC0003DMT400003401:6
PGSC0003DMT400003400:6
PGSC0003DMT400003402:6

General Information
CircRNA Name	PGSC0003DMG400001342_circ_g.1
ID in PlantcircBase	stu_circ_000372
Alias	chr02:45949320\|45953040
Organism	Solanum tuberosum
Position	chr2: 45949321-45953040 JBrowse»
Reference genome	3.0.38
Type	e-circRNA
Identification method	CIRI2
Parent gene	PGSC0003DMG400001342
Parent gene annotation	Conserved gene of unknown function
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	PGSC0003DMT400003401:6 PGSC0003DMT400003400:6 PGSC0003DMT400003402:6

			
						 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  
						
							CAAGAAACAAAACAAAAGATATGTCAAATCACTTACAAAGTAAAGAAGATAGCAAACAACTGCC
GTGAGGACATACACAGCTGAGAAATGGATCCATAACaaggaggccaaacaaaagaatcctggga
atctcactgtggtaaggaactgaagggacctcaaactcatcatcatatttcctacaaatatttc
tctttata

									
								

					

						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
						
							AAGGAGGCCAAACAAAAGAATCCTGGGAATCTCACTGTGGTAAGGAACTGAAGGGACCTCAAAC
TCATCATCATATTTCCTACAAATATTTCTCTTTATAAAATTGGAAACGAGTGTTGACAGCTGAA
AAAGTTCTGAGGAAGTGCTGGTCCATCCTGATGTAACCACATAAGCGATAAAGAAAGTTGCCTG
CAAGACGAATAGGAACTCAGTTCTCTAGTAGTAACTGTTGACTATGCAATAAGTACGTATTGAA
CTTTGTCATCTTTCTCATTAGTGTTATTTAGTATAACAAACAGTACTAAAACAGGTATATCAGA
TCCATATTCCACATGAAAGTTAGATGTCAGAGATTTCTGCCTTCCGATTGCATTCTACAACATT
TCATTTCAAAACTTCATATGATTCTAGTGACTCAACTAATCACATAAAGCCGTCGATCTTTTAT
TTTTTTATTTTTTTTACAAAGTCAAAGCCATAGATATATCCATGCAAAATGCTAAAAGAGGTAA
CATTAAGCTATCCTACCAACATGTTCAGTTCCTACATAACCATCTCTCCCAATAAAAAATGAAC
TTCCTCATGAGTTCGGTAGGAAAATGCTTAAAATAAAAGTTCACTTTGTTGTTAAGAGAGATTT
TTGCCAGAATATTCCACAAGAGTGGAGCACCTATTCACTTTAGTCTTCAAATATCATTTTACCA
TTTCTGGTCTTAGCTAAATTATCCTTCTGTAACATCAGCTGCAGAGATCACCACTAACCCCAAG
TGTTCTGTAAACATGCGGTCAAGATTATTTCAGTTATTGTCCAAAAATCAAATGGTTAACTCTA
CCCTCTTACTTAGCATCCTAATCAAAATTAAACTTTAACGTTATATATTGCAGGAAAATAGATG
TGGTGGCCAATGTACCCTAGTCTGTGCTGAAAAGATATTTGCAAAAAGCAATTACGTGGTAGTC
TTAATTGAGAAAATAAGTGATGAAATCACTTCTTCATCATGTTTGCTTGGACAATGTAGTTTGT
TGTGTCCCAAACTTCTTTTTATTTATCAGTCAAACATTGATAACAATTTATCCAAAAACAATAG
ATTGAGCTACAGTTGATATTGTACAAATCTTCTAAAACATATTTAAGGATCAAACTTCTTCTAT
TTCAAGAAGATGATTACCATAATGATAACTGAACCACACTCACCTGTCCTGGAACTGCTACAGC
TAATATGGCAGGAATATTTTTGGGCTCAAGAAAAATTTCAACTCGATAGAGAGCCGATCCAGAG
AGCACATTTGCAAAGAAAATGTTCCATATAGTAAACCAAAGAACTTTGATGCATGCACTTTTCT
CTATCTGGCTCATAGCAATGTATCCTTGTATGGATGAGAACATAATCATTATGGATGGCACAAC
ATAGAGAAACAGTTGAAGTACAAGACTAGGAAGATATCCGGTAATCACTTGGCTAACAAATGCT
CTGCAAGGCACATTAACTTATTTTACCACCATGCAAAGACATCAGAAAGTATAGTAACATGCTC
ATTAAGCTGAAACTTCCCAAAGTTTTCAGTTACCACTTACATTCTAAGCAAGCCTTTCAAAAAG
GGAAACCAGATTTCCAACTGCTCAAGATGTGTAAGCCCTTGGACTATTAAAACGGGTATAAGAA
ATAGCACCGTAAGGAGGACGCATGCCACAACAACCACCAGGTTGCTAATCCATCTCTTTAGAAA
TGATGCTGAAAAGAAAGGCCAATACACATCCTCTGGATCAGGAGCTGTCTCAGTGACCCATTGT
GTAGGATTTACACCTTGCTGCATGTGTATAGCTGAAGCTGCGGCAAAACGTGTCCTGAAAGATA
CAAAAGCAGCTCCTACCTCCTGTTATATAGGATATGCATAATTAATTGAAGACAATCAGACATT
TATGAAGCCTACCTTAAGAAAGATAGGAAATAGATGAGCATGTAACATTTTAGTGACCAATAAA
ATGGAAAATAGCATCTTAGAAACTAATTTTCTTCTACACTTTACCTAGGGATCTTTATTGCAAC
ATATACATATGAGGTAAGCAATAACATGGTGGTGGTGGAATGGCTTCATATGCATTCTTTTGTC
AGTTCTTCCACATTTTAAATTCAAAATTCTTCAGCAGTTATTGTTTGTTCCCAATGCTTTCAGG
ATTTAGCAAATTCATTTGTTAGATAAATCACGTAGTTTAACTACATGACTTGGTTAAGCTTGCT
TCTCAAATGCATCTATGATCAGCTGCACTTAAAACCCTAATGTATTGATAACTTTATACACATC
AAGTAGAGTAGTCTTGTCCATGTTGACAGAAGTAACTACTAAAAAGACAAGTGCTAAGCCATGT
CCAGATACAATTCTGTATTGTGAAACAAGCATCACACATACACAATCAGAACATGTAAACCCTG
ATGATTACCTTTCCCAGACATGAAGATTGTTCGGCCCTTACATTGTCTTCGATAACTTCGAGCT
TCTTTTCATAGTGATCAAGTAGATCAACTCTCTGTCCAAAAAGGCCCATGAAACCAGCACGCCC
GAACCTTTCTCGATCAGGGTTGGCTGATTTCAAGTTCACAAGCCTTCTGTACAACCTTTTAGAA
TTTTTCTGCACAAACAAATGGCACAGACCGCCACAGCAAAACAATAAACTGGTCAATACGTTCT
GGCATCCAAATTATAACTCTGCTTGCACCACTATAGTGAAAGACTCGCCTTCACAGCAAACTTA
TTATACAACAACGACAGATCAAAATGTCAGAGAATTTAAATTATTGTTCTTGTAGTACCTTCAC
TTTCAATATTTTAATCTGCATTTACATTACTTCATTTTCTTGCATGTTGAAATATTTCGTGTAG
GGCAATATCAGATAATGCATAAGCATAACAATATGGAGCTGTGAAATGCAACAGAATGTGGTGG
GCAACATGAAGATATTAAATCCGGGAACTGGGACGAACTTTATTTTGAGGAATATAGGGCTTGA
TAATAGATGGGAACATGCCATTCACCAATGTGTTTCCACTGTATAATGAACCACATTCTACCAT
GTTTTATTAGATAAAATGTACAGTGAAAGCTCCTTATCTGAAAAAAGAAATTTTGAAACAACTT
CAGCAATTGAAAGAAGAGCATTGGCTGGGAAATCTTTATTGAAAAATATTAACAGGTAAAAAGA
ATAAGAGGGTACAAGCACACATCAACTTCTACTTAACAAAGTAGAATAATAAAAGAATTATGTC
CACTCAAAAACAGAAAAACATAACTAACAAGTGATGAAAAATGGTAAACAAGAAACATTCTATC
ATAACTGAAGTTAATGTGGCTATCATTCTTACAATGAGATCTTGGAGTTTGCTTGCTCGCCGGA
CAACCCAGTGTGAAAGATATGTAGCAGGATAATACTCTGAAAAAAAACTTTCAACTGTTTCACT
GTAACTTCTTCCTGATGAAGCTGGAATACTTCGAACTAAAATGGTAAACTGATGTGGATGAGGT
TTTGATGAATAAAAGTAAGAAATTCTCTTTGATGAAATATAGTCATACTCCTGGAAATAAGGTG
GTATCTCACTGTAAGTTGAAGTTTAGCAAGGATGAACAAGAAACAAAACAAAAGATATGTCAAA
TCACTTACAAAGTAAAGAAGATAGCAAACAACTGCCGTGAGGACATACACAGCTGAGAAATGGA
TCCATAAC
						
					

			
		

Sequences
Splice junction sequence	CAAGAAACAAAACAAAAGATATGTCAAATCACTTACAAAGTAAAGAAGATAGCAAACAACTGCC GTGAGGACATACACAGCTGAGAAATGGATCCATAACaaggaggccaaacaaaagaatcctggga atctcactgtggtaaggaactgaagggacctcaaactcatcatcatatttcctacaaatatttc tctttata
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	AAGGAGGCCAAACAAAAGAATCCTGGGAATCTCACTGTGGTAAGGAACTGAAGGGACCTCAAAC TCATCATCATATTTCCTACAAATATTTCTCTTTATAAAATTGGAAACGAGTGTTGACAGCTGAA AAAGTTCTGAGGAAGTGCTGGTCCATCCTGATGTAACCACATAAGCGATAAAGAAAGTTGCCTG CAAGACGAATAGGAACTCAGTTCTCTAGTAGTAACTGTTGACTATGCAATAAGTACGTATTGAA CTTTGTCATCTTTCTCATTAGTGTTATTTAGTATAACAAACAGTACTAAAACAGGTATATCAGA TCCATATTCCACATGAAAGTTAGATGTCAGAGATTTCTGCCTTCCGATTGCATTCTACAACATT TCATTTCAAAACTTCATATGATTCTAGTGACTCAACTAATCACATAAAGCCGTCGATCTTTTAT TTTTTTATTTTTTTTACAAAGTCAAAGCCATAGATATATCCATGCAAAATGCTAAAAGAGGTAA CATTAAGCTATCCTACCAACATGTTCAGTTCCTACATAACCATCTCTCCCAATAAAAAATGAAC TTCCTCATGAGTTCGGTAGGAAAATGCTTAAAATAAAAGTTCACTTTGTTGTTAAGAGAGATTT TTGCCAGAATATTCCACAAGAGTGGAGCACCTATTCACTTTAGTCTTCAAATATCATTTTACCA TTTCTGGTCTTAGCTAAATTATCCTTCTGTAACATCAGCTGCAGAGATCACCACTAACCCCAAG TGTTCTGTAAACATGCGGTCAAGATTATTTCAGTTATTGTCCAAAAATCAAATGGTTAACTCTA CCCTCTTACTTAGCATCCTAATCAAAATTAAACTTTAACGTTATATATTGCAGGAAAATAGATG TGGTGGCCAATGTACCCTAGTCTGTGCTGAAAAGATATTTGCAAAAAGCAATTACGTGGTAGTC TTAATTGAGAAAATAAGTGATGAAATCACTTCTTCATCATGTTTGCTTGGACAATGTAGTTTGT TGTGTCCCAAACTTCTTTTTATTTATCAGTCAAACATTGATAACAATTTATCCAAAAACAATAG ATTGAGCTACAGTTGATATTGTACAAATCTTCTAAAACATATTTAAGGATCAAACTTCTTCTAT TTCAAGAAGATGATTACCATAATGATAACTGAACCACACTCACCTGTCCTGGAACTGCTACAGC TAATATGGCAGGAATATTTTTGGGCTCAAGAAAAATTTCAACTCGATAGAGAGCCGATCCAGAG AGCACATTTGCAAAGAAAATGTTCCATATAGTAAACCAAAGAACTTTGATGCATGCACTTTTCT CTATCTGGCTCATAGCAATGTATCCTTGTATGGATGAGAACATAATCATTATGGATGGCACAAC ATAGAGAAACAGTTGAAGTACAAGACTAGGAAGATATCCGGTAATCACTTGGCTAACAAATGCT CTGCAAGGCACATTAACTTATTTTACCACCATGCAAAGACATCAGAAAGTATAGTAACATGCTC ATTAAGCTGAAACTTCCCAAAGTTTTCAGTTACCACTTACATTCTAAGCAAGCCTTTCAAAAAG GGAAACCAGATTTCCAACTGCTCAAGATGTGTAAGCCCTTGGACTATTAAAACGGGTATAAGAA ATAGCACCGTAAGGAGGACGCATGCCACAACAACCACCAGGTTGCTAATCCATCTCTTTAGAAA TGATGCTGAAAAGAAAGGCCAATACACATCCTCTGGATCAGGAGCTGTCTCAGTGACCCATTGT GTAGGATTTACACCTTGCTGCATGTGTATAGCTGAAGCTGCGGCAAAACGTGTCCTGAAAGATA CAAAAGCAGCTCCTACCTCCTGTTATATAGGATATGCATAATTAATTGAAGACAATCAGACATT TATGAAGCCTACCTTAAGAAAGATAGGAAATAGATGAGCATGTAACATTTTAGTGACCAATAAA ATGGAAAATAGCATCTTAGAAACTAATTTTCTTCTACACTTTACCTAGGGATCTTTATTGCAAC ATATACATATGAGGTAAGCAATAACATGGTGGTGGTGGAATGGCTTCATATGCATTCTTTTGTC AGTTCTTCCACATTTTAAATTCAAAATTCTTCAGCAGTTATTGTTTGTTCCCAATGCTTTCAGG ATTTAGCAAATTCATTTGTTAGATAAATCACGTAGTTTAACTACATGACTTGGTTAAGCTTGCT TCTCAAATGCATCTATGATCAGCTGCACTTAAAACCCTAATGTATTGATAACTTTATACACATC AAGTAGAGTAGTCTTGTCCATGTTGACAGAAGTAACTACTAAAAAGACAAGTGCTAAGCCATGT CCAGATACAATTCTGTATTGTGAAACAAGCATCACACATACACAATCAGAACATGTAAACCCTG ATGATTACCTTTCCCAGACATGAAGATTGTTCGGCCCTTACATTGTCTTCGATAACTTCGAGCT TCTTTTCATAGTGATCAAGTAGATCAACTCTCTGTCCAAAAAGGCCCATGAAACCAGCACGCCC GAACCTTTCTCGATCAGGGTTGGCTGATTTCAAGTTCACAAGCCTTCTGTACAACCTTTTAGAA TTTTTCTGCACAAACAAATGGCACAGACCGCCACAGCAAAACAATAAACTGGTCAATACGTTCT GGCATCCAAATTATAACTCTGCTTGCACCACTATAGTGAAAGACTCGCCTTCACAGCAAACTTA TTATACAACAACGACAGATCAAAATGTCAGAGAATTTAAATTATTGTTCTTGTAGTACCTTCAC TTTCAATATTTTAATCTGCATTTACATTACTTCATTTTCTTGCATGTTGAAATATTTCGTGTAG GGCAATATCAGATAATGCATAAGCATAACAATATGGAGCTGTGAAATGCAACAGAATGTGGTGG GCAACATGAAGATATTAAATCCGGGAACTGGGACGAACTTTATTTTGAGGAATATAGGGCTTGA TAATAGATGGGAACATGCCATTCACCAATGTGTTTCCACTGTATAATGAACCACATTCTACCAT GTTTTATTAGATAAAATGTACAGTGAAAGCTCCTTATCTGAAAAAAGAAATTTTGAAACAACTT CAGCAATTGAAAGAAGAGCATTGGCTGGGAAATCTTTATTGAAAAATATTAACAGGTAAAAAGA ATAAGAGGGTACAAGCACACATCAACTTCTACTTAACAAAGTAGAATAATAAAAGAATTATGTC CACTCAAAAACAGAAAAACATAACTAACAAGTGATGAAAAATGGTAAACAAGAAACATTCTATC ATAACTGAAGTTAATGTGGCTATCATTCTTACAATGAGATCTTGGAGTTTGCTTGCTCGCCGGA CAACCCAGTGTGAAAGATATGTAGCAGGATAATACTCTGAAAAAAAACTTTCAACTGTTTCACT GTAACTTCTTCCTGATGAAGCTGGAATACTTCGAACTAAAATGGTAAACTGATGTGGATGAGGT TTTGATGAATAAAAGTAAGAAATTCTCTTTGATGAAATATAGTCATACTCCTGGAAATAAGGTG GTATCTCACTGTAAGTTGAAGTTTAGCAAGGATGAACAAGAAACAAAACAAAAGATATGTCAAA TCACTTACAAAGTAAAGAAGATAGCAAACAACTGCCGTGAGGACATACACAGCTGAGAAATGGA TCCATAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.175161221

Conservation Information
Conserved circRNAs	NA
PMCS	0.175161221

			
						 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 PGSC0003DMG400001342_circ_g.1

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