Plant Circular RNA Database

Detail information of PGSC0003DMG400000149_circ_g.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400000149_circ_g.1
					
						ID in PlantcircBase
						stu_circ_000121
					
						Alias
						chr01:71706959|71710122
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr1: 71706960-71710122  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							PGSC0003DMG400000149						
					
						Parent gene annotation
						
							Cytochrome P450
							
						Parent gene strand
						-
					
						Alternative splicing
						
							PGSC0003DMG400000149_circ_g.2 						
					
						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-CA							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
						PGSC0003DMT400000438:2
PGSC0003DMT400000440:3
PGSC0003DMT400000437:1
PGSC0003DMT400000436:2

General Information
CircRNA Name	PGSC0003DMG400000149_circ_g.1
ID in PlantcircBase	stu_circ_000121
Alias	chr01:71706959\|71710122
Organism	Solanum tuberosum
Position	chr1: 71706960-71710122 JBrowse»
Reference genome	3.0.38
Type	e-circRNA
Identification method	CIRI2
Parent gene	PGSC0003DMG400000149
Parent gene annotation	Cytochrome P450
Parent gene strand	-
Alternative splicing	PGSC0003DMG400000149_circ_g.2
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-CA 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	PGSC0003DMT400000438:2 PGSC0003DMT400000440:3 PGSC0003DMT400000437:1 PGSC0003DMT400000436:2

			
						 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  
						
							TGAAATTCAGTATAATATCTCTGAGATACCGATTAGTCATTTTTTCTGGATCCTTCTTGCTCTC
TACCAGAAACCTTGAGAGTATGTCCTCCTTATCCATgaatcttgtttcatctctagctgtttgc
gccttgttctaatcaattcatcaacaaattctcggatgaatttgatgttctttttcaggagaaa
ttcagacc

									
								

					

						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
						
							GAATCTTGTTTCATCTCTAGCTGTTTGCGCCTTGTTCTAATCAATTCATCAACAAATTCTCGGA
TGAATTTGATGTTCTTTTTCAGGAGAAATTCAGACCCAATGTTGAAGTATCTCTTAAGCTTCCA
GAATGGATCGACATAACGCCAATATGACAATGCATTTGAATCATCAAAGGCCGTAATGAATTTG
TTATCATTTCCACTTGACCCTTCCAGGCAGTTCAGATCAACTCCAAAGCCAACTTTAAATATTG
AATCCAGGGAGCCTCTCATTAGCAGTTCCTACAAGTGTGCTAGAATATTTTAGTGATAAAAATT
GGCTAGTGATATAAGTGATAAAACCCTGAAATTCATCAAGTTCTTCAATGACTTACTTGCATAT
CAAAAACTTGGTTGGCAAGAGAGAACTCAGAAACCTTGCTGACCAATTTGGCTGCTCCTTTTCT
GAAAACTTTGCAGCTAAAGTCTCTCAATGCTCTAGCTGAGAACTCAAAACTTGCAAGCTTTCTC
TGTTTCTTCCATTTCTCACCATCTACCGCGAAAATCCCTTCCCCAAACAAATCCATTATAATCT
CTTGATTCCGTTCGCCTTTGGAGTACTTACCAAAGTTGGTTTTAAGAATGTCTTCAACATTTCT
TGAATCAGTGGTATATATTTCACTCTGATCCGGCGCCAGAAACCGGAAAGTAGGGGCCTTTTTA
GCCAATTCTGTTTGATAGTCATACATCCTGTTGAAGTATAAGAGCTGATGGAACACAGTCCCCT
CCACTGGTGCATATTTGGGGTTTCTGATTGACTTGCCAGCATAGATCCTTACTATTAAAACTAA
TATAGGAGTCACACAAATGAACAAGAGAATAGCTATAGAGGTGAACATTGTATAGAGAATATCC
ATTTCTTTTTCCAGAAATGTTGTATATTTGGAGATATGACCACCATCTCTAGGTACTATTTAAC
ACACAAATAGCAAAGTCAAATCAAGAAAATTGTTCACAAATCATATAGAAAATGAACTGACAGA
AACTTGCAGAATAAACAATAGAACATGTCACTGTTCTCTTGGAGTATGATTTAATTAGACATTT
ATACTAATATAGGTTGGGCCCTCTGTGGATTTGAATATAGATATGGCGCTTCATCATCAGTCAC
ACAGATATCTAAGGTTTATCTAGTGTGCAACTTACCCTGCTGTTTTTGCATGTGTGTCCTCACA
CCAGCAATCACCATCCTTAATTTCTATGCTTATATGAGCACTAATTTAACTTGCACAGTTATCC
CAACAAGATTGAACATAATGTTGGGATTGAAATAACAACAGACGTTGTGAAAACTAACAATTGC
AAACGTTTAAGGGCGATAAATAGAACAATAAAAGTAAAATTCTACAAGGGGCGTAAAAAGTTAT
TTATTTTGGTCCATGGAAACTAATATTACCCTCTATCCATAATATTTACCTAGATTATATATAA
GTATTTTATGACAATATATTGTATTTACTACCAAACATACAAAAATCACTTGTTTTCTCGAAAA
ATACATTTATATAGGAGCAATATTTTTCTTTCTAACCTGAGGATAAAGGGGTTCTCTGGTAGCT
GGAAGTTTGTTATGATTTCAACTCCTTTTTAGTTTGTTATTCAAGTTCACCAAAAAAGCCAGGT
TACGAATATGGAATTCTGAGTGCAACATCTCACTAATATGAAGTCATTCCTTACTTTTAAGACG
AAATCAAGAACATGATGGAATATTAGCATCCACTTTCTTGTCACAAAGTTGAACTTATAGTTCA
TATGATGGAATGGAAAGTAATTACATCTGTAGATTAGCTTTAAAGATGACTTATATAGATTGAA
ATTTGAAAGTGCCTTTGTGTATTTCATGCTTCTACTAATCCTCTTCTTGGAACTGCACGAACCT
GCAGCCCTTCTTTGATGTGGAGTGTAAACATGGTTCTATAAGTTACTTCTTTCGTGTCATCGGA
TAATTTGAACCTGAAGAAATGGAGAAGAGCCATTGATACTATCTTCATTTTCCGATAAGCAAAA
TCTTTGCCTAGACATAATCTTGGACCAGCCTGTAAATTTAATAAACCACTGAGTTAGAGAAGAG
ATAATATGATGCAACCCCAGTGTCAAGGAAGATTTAGCAGTATCCCTTGTGGTATTCTAATCCC
AATTGCAGATGATATACAATACAGGCCAAAAGAATATATAGATTCTTTAGACCAAAGTAAATTA
CTATCTTCGCGGTTACAGACTAACATAAACCCCAAAAAGCCCTTGGTGAGATCTTGATCAGCTC
TCTGCTAAACCTAGCTAGCTCATAAGGTGAGGATTTCCCAAGTCCATATAAAAAGACCACGTGT
CCATTCCCCAACCAATGTGGGACTCTAACCCACTCTAACACGAACTGTACGTAACAACAACTAT
ATAGCCTCAGTGATCACCTATATCATTTCGGGAGACACTAAGTATGAATAATTAAAACATACGC
TTACATGAAATGCTATGAATTTGAATGGTGACTCTGGCTGGAAAATCCCATCTTTCAACCATCT
TTCTGGTCGGAAATCCTCAGCATCATCCCCCCAAACGTAAGGCATCCTCCCCATTGCATAGGAC
ATATAATAAACCCCATCCCCTTTCTTGATGTGAAAGCCATCAGGAAGAACATCATCTGCATCTG
CACACCTGCCATCCTGCATATCAACAAATGACATGTTGCATATGAGATATAGTCACAGATAGAT
ACAACAGGGCAGAAATGCTAGATTTATTTGGTTTTGCATATATTGCAGTTTTATGGACAGAAGT
AGTACCACTGGGACAGCAGGGTATAGCCTCAAGGTCTCTGTCAATGTTGCATGAAGATAATGCA
TTTTCTCGAGGACCTCTTCTGTAATACTTGCTACAAAATCATCCACACTTCCATTATCCTTCAT
GTTATTATCAATAACTTCTCTTATTTCCTCAACAATCTTTATTTGGATTAAGGGGTTCTTGCAA
AGCACATAGAAAAACCATGAAAGAGTATTAGCAGTACTATCTTTGCCAGCAAGCATGAAATTCA
GTATAATATCTCTGAGATACCGATTAGTCATTTTTTCTGGATCCTTCTTGCTCTCTACCAGAAA
CCTTGAGAGTATGTCCTCCTTATCCAT
						
					

			
		

Sequences
Splice junction sequence	TGAAATTCAGTATAATATCTCTGAGATACCGATTAGTCATTTTTTCTGGATCCTTCTTGCTCTC TACCAGAAACCTTGAGAGTATGTCCTCCTTATCCATgaatcttgtttcatctctagctgtttgc gccttgttctaatcaattcatcaacaaattctcggatgaatttgatgttctttttcaggagaaa ttcagacc
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	GAATCTTGTTTCATCTCTAGCTGTTTGCGCCTTGTTCTAATCAATTCATCAACAAATTCTCGGA TGAATTTGATGTTCTTTTTCAGGAGAAATTCAGACCCAATGTTGAAGTATCTCTTAAGCTTCCA GAATGGATCGACATAACGCCAATATGACAATGCATTTGAATCATCAAAGGCCGTAATGAATTTG TTATCATTTCCACTTGACCCTTCCAGGCAGTTCAGATCAACTCCAAAGCCAACTTTAAATATTG AATCCAGGGAGCCTCTCATTAGCAGTTCCTACAAGTGTGCTAGAATATTTTAGTGATAAAAATT GGCTAGTGATATAAGTGATAAAACCCTGAAATTCATCAAGTTCTTCAATGACTTACTTGCATAT CAAAAACTTGGTTGGCAAGAGAGAACTCAGAAACCTTGCTGACCAATTTGGCTGCTCCTTTTCT GAAAACTTTGCAGCTAAAGTCTCTCAATGCTCTAGCTGAGAACTCAAAACTTGCAAGCTTTCTC TGTTTCTTCCATTTCTCACCATCTACCGCGAAAATCCCTTCCCCAAACAAATCCATTATAATCT CTTGATTCCGTTCGCCTTTGGAGTACTTACCAAAGTTGGTTTTAAGAATGTCTTCAACATTTCT TGAATCAGTGGTATATATTTCACTCTGATCCGGCGCCAGAAACCGGAAAGTAGGGGCCTTTTTA GCCAATTCTGTTTGATAGTCATACATCCTGTTGAAGTATAAGAGCTGATGGAACACAGTCCCCT CCACTGGTGCATATTTGGGGTTTCTGATTGACTTGCCAGCATAGATCCTTACTATTAAAACTAA TATAGGAGTCACACAAATGAACAAGAGAATAGCTATAGAGGTGAACATTGTATAGAGAATATCC ATTTCTTTTTCCAGAAATGTTGTATATTTGGAGATATGACCACCATCTCTAGGTACTATTTAAC ACACAAATAGCAAAGTCAAATCAAGAAAATTGTTCACAAATCATATAGAAAATGAACTGACAGA AACTTGCAGAATAAACAATAGAACATGTCACTGTTCTCTTGGAGTATGATTTAATTAGACATTT ATACTAATATAGGTTGGGCCCTCTGTGGATTTGAATATAGATATGGCGCTTCATCATCAGTCAC ACAGATATCTAAGGTTTATCTAGTGTGCAACTTACCCTGCTGTTTTTGCATGTGTGTCCTCACA CCAGCAATCACCATCCTTAATTTCTATGCTTATATGAGCACTAATTTAACTTGCACAGTTATCC CAACAAGATTGAACATAATGTTGGGATTGAAATAACAACAGACGTTGTGAAAACTAACAATTGC AAACGTTTAAGGGCGATAAATAGAACAATAAAAGTAAAATTCTACAAGGGGCGTAAAAAGTTAT TTATTTTGGTCCATGGAAACTAATATTACCCTCTATCCATAATATTTACCTAGATTATATATAA GTATTTTATGACAATATATTGTATTTACTACCAAACATACAAAAATCACTTGTTTTCTCGAAAA ATACATTTATATAGGAGCAATATTTTTCTTTCTAACCTGAGGATAAAGGGGTTCTCTGGTAGCT GGAAGTTTGTTATGATTTCAACTCCTTTTTAGTTTGTTATTCAAGTTCACCAAAAAAGCCAGGT TACGAATATGGAATTCTGAGTGCAACATCTCACTAATATGAAGTCATTCCTTACTTTTAAGACG AAATCAAGAACATGATGGAATATTAGCATCCACTTTCTTGTCACAAAGTTGAACTTATAGTTCA TATGATGGAATGGAAAGTAATTACATCTGTAGATTAGCTTTAAAGATGACTTATATAGATTGAA ATTTGAAAGTGCCTTTGTGTATTTCATGCTTCTACTAATCCTCTTCTTGGAACTGCACGAACCT GCAGCCCTTCTTTGATGTGGAGTGTAAACATGGTTCTATAAGTTACTTCTTTCGTGTCATCGGA TAATTTGAACCTGAAGAAATGGAGAAGAGCCATTGATACTATCTTCATTTTCCGATAAGCAAAA TCTTTGCCTAGACATAATCTTGGACCAGCCTGTAAATTTAATAAACCACTGAGTTAGAGAAGAG ATAATATGATGCAACCCCAGTGTCAAGGAAGATTTAGCAGTATCCCTTGTGGTATTCTAATCCC AATTGCAGATGATATACAATACAGGCCAAAAGAATATATAGATTCTTTAGACCAAAGTAAATTA CTATCTTCGCGGTTACAGACTAACATAAACCCCAAAAAGCCCTTGGTGAGATCTTGATCAGCTC TCTGCTAAACCTAGCTAGCTCATAAGGTGAGGATTTCCCAAGTCCATATAAAAAGACCACGTGT CCATTCCCCAACCAATGTGGGACTCTAACCCACTCTAACACGAACTGTACGTAACAACAACTAT ATAGCCTCAGTGATCACCTATATCATTTCGGGAGACACTAAGTATGAATAATTAAAACATACGC TTACATGAAATGCTATGAATTTGAATGGTGACTCTGGCTGGAAAATCCCATCTTTCAACCATCT TTCTGGTCGGAAATCCTCAGCATCATCCCCCCAAACGTAAGGCATCCTCCCCATTGCATAGGAC ATATAATAAACCCCATCCCCTTTCTTGATGTGAAAGCCATCAGGAAGAACATCATCTGCATCTG CACACCTGCCATCCTGCATATCAACAAATGACATGTTGCATATGAGATATAGTCACAGATAGAT ACAACAGGGCAGAAATGCTAGATTTATTTGGTTTTGCATATATTGCAGTTTTATGGACAGAAGT AGTACCACTGGGACAGCAGGGTATAGCCTCAAGGTCTCTGTCAATGTTGCATGAAGATAATGCA TTTTCTCGAGGACCTCTTCTGTAATACTTGCTACAAAATCATCCACACTTCCATTATCCTTCAT GTTATTATCAATAACTTCTCTTATTTCCTCAACAATCTTTATTTGGATTAAGGGGTTCTTGCAA AGCACATAGAAAAACCATGAAAGAGTATTAGCAGTACTATCTTTGCCAGCAAGCATGAAATTCA GTATAATATCTCTGAGATACCGATTAGTCATTTTTTCTGGATCCTTCTTGCTCTCTACCAGAAA CCTTGAGAGTATGTCCTCCTTATCCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.126922026

Conservation Information
Conserved circRNAs	NA
PMCS	0.126922026

			
						 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 PGSC0003DMG400000149_circ_g.1

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