Plant Circular RNA Database

Detail information of PGSC0003DMG400046891_circ_igg.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400046891_circ_igg.1
					
						ID in PlantcircBase
						stu_circ_001630
					
						Alias
						chr12:1230102|1232734
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr12: 1230103-1232734  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-No							"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-GA							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	PGSC0003DMG400046891_circ_igg.1
ID in PlantcircBase	stu_circ_001630
Alias	chr12:1230102\|1232734
Organism	Solanum tuberosum
Position	chr12: 1230103-1232734 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-No "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-GA 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  
						
							CAGGTGAATACTACTATTTTAGGCGTGGACGACGACATAGTTAAAGAGAACTAGACTTTGGTTG
TGAAGTTATTTCGGTGAAACTTCTGTTGGGATGCGAtcatcaatattgacaatattcaagaagt
agcaagggaggcagacggatactttattaagagcggaattgttaccgttatcaaggatgcagta
attcccag

									
								

					

						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
						
							TCATCAATATTGACAATATTCAAGAAGTAGCAAGGGAGGCAGACGGATACTTTATTAAGAGCGG
AATTGTTACCGTTATCAAGGATGCAGTAATTCCCAGTGGTACTATCATCTAAGATGGTGAAACT
TGGATTCCTTTAGTTTTTATTTATTTTGCCAAACAACCATGAGTTAAAAGGATTTCTGCACTCC
TTCAAGTGAGTGATCGTCAATGAACCAAAAAAATTGTTTTGTGTTCTTGAAAGTTGAATATAAT
TAGGATGTTAACTCGAAAAAAATATGAATTACTCCATTTTATTTTCTCTGTTCGTTCGTGTTAG
TGTAGTATTCGTTTCCCTCTATCATTATCCATATACATATAATAAGACGGAGAGAGGGATTTTT
CTATTATCAGAATTTGAACTCGAGATCTCTAATCCTAGGCCTAGTTAAAGTTTACTTTCATTGC
TTCATATTTGAAATCTCTATTTTAAGTCCACAACAAAATAGAGATTTAGTACATGGTCATTCAC
ATTCGCTGTCAAAAACACATACACATAATATACTTTAATCTCATGTGAAGAAATTTTGGTATGA
ATTCAGAATTTGAAGTTTAGTTTCAAGAGTAATGATAAAAAGGAAGATATGTAACACCTTGAGG
ACTTGTAGAGAAGTCTAAGAATATTCTTGCTGCTTTACACCAAGAATTAATTCATGGACAACAC
AAAGAAAAACATAACTAACATATATAGCACATGTAGTAGTGCCTTTGTAGATAGACATGCTTAA
TTTCCTCCTCTTCCCCACAAAAACTATATAAACTTGATTACCTTTTTATAGCAAGTTTTATTCC
AAAAGAGGGACACAGAACTTATTCGTATCAGGTGTTTATATCAAACTAATGAATATAATAATCA
GTTGTTACATAGACAATGATGGACTCATACTTGCTTTACTCCTTCCCTCCCAGTTTTTGACTTG
ATACGAAAAATAAGAAATTAATAAAGACATTTCAAATGTAAGCCAAATTTATTAAAAACCATCC
CTTTAAAAAATGATTTAATTAGTGATGTGACCGAATCATAATTGACCACATGTAAGAAATGATT
TTGCAAGATCGGAACGGTTTTCAGTTAGCAAATAATGACATAGATGAGCTTTTTTTCAAGCGAA
AATGGCATAGTTGAGCCAAACTTTTAACGAATGGCATAAATGAGTTTTTTCTCAAAGTTAGATG
ACATATTTGAGCTTTTTCCAAAAAAATATATCATGGGATGTCCTATTTTAGTCCACCCCATTAA
TGTAATATCCATTTTATGTTTTTTTTTTCACGAATATTTAATATCAGACAACTCTTAGACGAAA
GAATATAAGGATAGTTTTGAATCTATACGATAAAGTAAATTAGTTTACAACAAACATAGCTGCA
TTTTTATTTGCATGAAAAATAGTAAAAAGTGATAGAAAATATATACTACCTATACATTATGATA
CACTCAAAAAGTTGAATATAACTTACCTATACATGAACTATATATTGACTATATATTATGATAT
ATTCAAAAAGCTGAATATAGCTTAATTATACATGAAGTATATACTGATTATACATAAATTATAC
ACTGACTATTCAATCCTCCCAACTTAATATTGCTATATAGTGAATATTATGCTATACAAATGTG
TGTATTAGGTGAGCTTTAATATAAGTATCATTTGTAGAGTCTTCTATCTAGATTCAACTATATA
TATTTTCTAAGATTATCTTCAATAAACCCACTTCAGTAGCAGTATATACATATTTTTTTCCCTT
TAATTTTCATTTCAAACAACAGTCAGAACTTAGTTATACCTTTAATTTGTCAAGAACTTGGCCT
AATATTTCAGAGATTTAGCTAATATTTTAGTAGCAATTTATGTTTGTCAATAAATTTTTGATAA
CAAAATCCAAGATAGTGTTTTGCAACAAATAACTATGCTTTTGTAAACTTGAAAAATAACTAAC
GAATATAAATAAATATAAGCTCTTTGAGTATTGTTGCCTTAGTATAGCTCAAGGCCTCATTTGT
ACCGAATGGATTATGAAAAGTTCATTCTAACCCATAAAGAAGTCGAGGCCGATATTATTGTTGC
TACATTTTCGATGGATGGAAAGTGTATATATATATATATATATATATATATATATATATATATA
TATATATATATATATATATATATATATATATATATATATATATATATAGCACGTTACCTGCATT
GCTTTTAACTGCTTTTCAATTGGTTTTTCTGCAAATTTAATAAAAGATCTTTCTTCATTTGGTC
TAACAAATATTGATGAAGAAGTATGTATGATTGAATTTGCGGAGAACCAAAATAGAAGCAGTTG
AAAGCAACTCAGGTAACATGTTATAGTCCTTTTGCATACTTCTCAACAAATACACATGGCATAT
ATATATATATATATATATATATACGAACAAAGATACATACCCAAATAGATGGTACAGATAACTC
GTTCCCAAAAAATTTAATTTGTGTTTGGTGCATTTTCAGGTGAATACTACTATTTTAGGCGTGG
ACGACGACATAGTTAAAGAGAACTAGACTTTGGTTGTGAAGTTATTTCGGTGAAACTTCTGTTG
GGATGCGA
						
					

			
		

Sequences
Splice junction sequence	CAGGTGAATACTACTATTTTAGGCGTGGACGACGACATAGTTAAAGAGAACTAGACTTTGGTTG TGAAGTTATTTCGGTGAAACTTCTGTTGGGATGCGAtcatcaatattgacaatattcaagaagt agcaagggaggcagacggatactttattaagagcggaattgttaccgttatcaaggatgcagta attcccag
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	TCATCAATATTGACAATATTCAAGAAGTAGCAAGGGAGGCAGACGGATACTTTATTAAGAGCGG AATTGTTACCGTTATCAAGGATGCAGTAATTCCCAGTGGTACTATCATCTAAGATGGTGAAACT TGGATTCCTTTAGTTTTTATTTATTTTGCCAAACAACCATGAGTTAAAAGGATTTCTGCACTCC TTCAAGTGAGTGATCGTCAATGAACCAAAAAAATTGTTTTGTGTTCTTGAAAGTTGAATATAAT TAGGATGTTAACTCGAAAAAAATATGAATTACTCCATTTTATTTTCTCTGTTCGTTCGTGTTAG TGTAGTATTCGTTTCCCTCTATCATTATCCATATACATATAATAAGACGGAGAGAGGGATTTTT CTATTATCAGAATTTGAACTCGAGATCTCTAATCCTAGGCCTAGTTAAAGTTTACTTTCATTGC TTCATATTTGAAATCTCTATTTTAAGTCCACAACAAAATAGAGATTTAGTACATGGTCATTCAC ATTCGCTGTCAAAAACACATACACATAATATACTTTAATCTCATGTGAAGAAATTTTGGTATGA ATTCAGAATTTGAAGTTTAGTTTCAAGAGTAATGATAAAAAGGAAGATATGTAACACCTTGAGG ACTTGTAGAGAAGTCTAAGAATATTCTTGCTGCTTTACACCAAGAATTAATTCATGGACAACAC AAAGAAAAACATAACTAACATATATAGCACATGTAGTAGTGCCTTTGTAGATAGACATGCTTAA TTTCCTCCTCTTCCCCACAAAAACTATATAAACTTGATTACCTTTTTATAGCAAGTTTTATTCC AAAAGAGGGACACAGAACTTATTCGTATCAGGTGTTTATATCAAACTAATGAATATAATAATCA GTTGTTACATAGACAATGATGGACTCATACTTGCTTTACTCCTTCCCTCCCAGTTTTTGACTTG ATACGAAAAATAAGAAATTAATAAAGACATTTCAAATGTAAGCCAAATTTATTAAAAACCATCC CTTTAAAAAATGATTTAATTAGTGATGTGACCGAATCATAATTGACCACATGTAAGAAATGATT TTGCAAGATCGGAACGGTTTTCAGTTAGCAAATAATGACATAGATGAGCTTTTTTTCAAGCGAA AATGGCATAGTTGAGCCAAACTTTTAACGAATGGCATAAATGAGTTTTTTCTCAAAGTTAGATG ACATATTTGAGCTTTTTCCAAAAAAATATATCATGGGATGTCCTATTTTAGTCCACCCCATTAA TGTAATATCCATTTTATGTTTTTTTTTTCACGAATATTTAATATCAGACAACTCTTAGACGAAA GAATATAAGGATAGTTTTGAATCTATACGATAAAGTAAATTAGTTTACAACAAACATAGCTGCA TTTTTATTTGCATGAAAAATAGTAAAAAGTGATAGAAAATATATACTACCTATACATTATGATA CACTCAAAAAGTTGAATATAACTTACCTATACATGAACTATATATTGACTATATATTATGATAT ATTCAAAAAGCTGAATATAGCTTAATTATACATGAAGTATATACTGATTATACATAAATTATAC ACTGACTATTCAATCCTCCCAACTTAATATTGCTATATAGTGAATATTATGCTATACAAATGTG TGTATTAGGTGAGCTTTAATATAAGTATCATTTGTAGAGTCTTCTATCTAGATTCAACTATATA TATTTTCTAAGATTATCTTCAATAAACCCACTTCAGTAGCAGTATATACATATTTTTTTCCCTT TAATTTTCATTTCAAACAACAGTCAGAACTTAGTTATACCTTTAATTTGTCAAGAACTTGGCCT AATATTTCAGAGATTTAGCTAATATTTTAGTAGCAATTTATGTTTGTCAATAAATTTTTGATAA CAAAATCCAAGATAGTGTTTTGCAACAAATAACTATGCTTTTGTAAACTTGAAAAATAACTAAC GAATATAAATAAATATAAGCTCTTTGAGTATTGTTGCCTTAGTATAGCTCAAGGCCTCATTTGT ACCGAATGGATTATGAAAAGTTCATTCTAACCCATAAAGAAGTCGAGGCCGATATTATTGTTGC TACATTTTCGATGGATGGAAAGTGTATATATATATATATATATATATATATATATATATATATA TATATATATATATATATATATATATATATATATATATATATATATATAGCACGTTACCTGCATT GCTTTTAACTGCTTTTCAATTGGTTTTTCTGCAAATTTAATAAAAGATCTTTCTTCATTTGGTC TAACAAATATTGATGAAGAAGTATGTATGATTGAATTTGCGGAGAACCAAAATAGAAGCAGTTG AAAGCAACTCAGGTAACATGTTATAGTCCTTTTGCATACTTCTCAACAAATACACATGGCATAT ATATATATATATATATATATATACGAACAAAGATACATACCCAAATAGATGGTACAGATAACTC GTTCCCAAAAAATTTAATTTGTGTTTGGTGCATTTTCAGGTGAATACTACTATTTTAGGCGTGG ACGACGACATAGTTAAAGAGAACTAGACTTTGGTTGTGAAGTTATTTCGGTGAAACTTCTGTTG GGATGCGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.135220874

Conservation Information
Conserved circRNAs	NA
PMCS	0.135220874

			
						 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 PGSC0003DMG400046891_circ_igg.1

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