Plant Circular RNA Database

Detail information of PGSC0003DMG401020463_circ_igg.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG401020463_circ_igg.1
					
						ID in PlantcircBase
						stu_circ_000794
					
						Alias
						chr06:45710249|45712716
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr6: 45710250-45712718  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  
						
							TA-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	PGSC0003DMG401020463_circ_igg.1
ID in PlantcircBase	stu_circ_000794
Alias	chr06:45710249\|45712716
Organism	Solanum tuberosum
Position	chr6: 45710250-45712718 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	TA-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  
						
							TGCAGCTTCCTTTAGCATCAACAGGATATACTAAACCTCAAAATCTTCGAATTGCCAAAAACAT
TGAACATAGCAAAAAAATGTTCAATTATCTAAAGGTtccgggtggttctaccagtcttgagcat
acgagtcctgatgatttgaataagagtcgaataatgaattcatctatgacacacccttgtgatc
cttctcta

									
								

					

						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
						
							TCCGGGTGGTTCTACCAGTCTTGAGCATACGAGTCCTGATGATTTGAATAAGAGTCGAATAATG
AATTCATCTATGACACACCCTTGTGATCCTTCTCTAGTTCCTTCCCGAAAGTAAGTACCCTTCA
TTGTGTACAGTTAGTACTAATTCAAATTTAGCTCATGTCTGTTTTTGGATGGCCCATCTTTGCT
AGTAATCAGCTGACTGATTAACTACTCTTTGTAATTTCCTTATTGATAAATACGAAAACATATA
TAATACACTTTTTCAACAACATAATGTTCGTCCATGATGAGATGGCATAGTGGTTAAGGCTTAG
GACTAACAACTTGGACATTCTAGGTTTGAATCCCAGCTACAACACATTGTGCGCCCATCTGATT
TAGACTTACTGGGAACCATTAGCGTGTCAATATGTGTTTGTGGGATGGACTAGTTGCCCAATGA
ATTAGTTGGGGTACATGCAAGTTGGTTGGGACGCCATTAGTATCGCTAAAATAATGAGTAGGGC
ACTGAAGAATATATGATATAATGATAATCTGAATGTGTACTGCTTAGTCAGATGATAATTGATC
TAATCTCTCTTCTTCTTTGCATTTCAGGGGAAGTTCTGACATCTTAGGTGCTTTGGAATTTGTA
CCTAGGATGCTCAATAGTTGTATCCTGGCTCATCCTCCTTCTAGAGTTAGATGTAAGGTGTATG
AGTTCTCAGGTCATTTGCCTGATACTCTTAAATTTGAACTTGTTCCCCGTGGGGATACTTGGGA
AAGTCTATTTAACAATCATATTCCGAGTAAAGAAGATATAGGACTGTATTTTTTAGCAAGTGAG
AAAGAAAGGTCAGCTTCTACCTTATATATCTATCCGTAAATGGGCAATGGGTTGCGAAGTAGAA
GTCCCCCTTGCCCAGGAAGGTTTTTACTAGAAACTGATTCTCATTTCCCATTATATGTAGGTCT
GAGAGATATATTGCTCTAGTGGAGTTCATGCGTAGCAAGGATTTGGTGATGAGAACGCTTATTA
ATGATGTTGAGCTCCTTATACTTACATCCACAACCATGTGCACTGATTCTCAAAGTACGTCTAT
AATTTCTATATTTTTTCCTCATTTTCAATGAATTTTTAGGTAATAATACATTTACTTGTGTATG
CAGAAGATTATGACTTTTTAAAGTGAGGATACTTGTTTGGTTTCATTTGTTCATCAAGGTTTTT
GCTCTATAACAGATTGTCCAAAAGAAGATGTTAACAACAACTAGGGTGTGTCTAATGGGATAAC
ATTTAAGTAAAAAATAACAAACTTAAATAGAATACTTGGAATGAACTGGTGGATATGCTTCTGC
TAGATATTATGAGAGAAAAAGAGAACTTGATTTTACTGATTATGATTTAGCTTTCTGTATCTGA
TAACATTTTGTCTCCACATATCATTATGTTCATATGGTAATCTTAATTCCAATCAAGTGTTTGT
CAACTTCTAAATTTCTTGTGATTTCTATGTGAACTTGCAGAAAAAATGTGAAATTTGCGGTGAC
ACAAGTTTTGAAAAAGCAATTACGTGCATCAGTAAGTTTTCTCTCTCTCTCTCTTTCTCTTTTT
GTAGCATGAAAAGGTGGAAAATTAGTTAGAAAATCTGAAAGTCATGTCTCTCTTTCAAGCTTCA
TCACTTTGTGTCATATCTATATGTTCTTTGTAAATCTCAAACATTGGCCCAATCCCAAACCCTT
TTTTTTTTAAGTTTACTTGACATTTCTAAGAGAGATGTTGATCTTTTTACAGAAGGGGTTGCTT
CTCTCGAAGGAAATTGCTAGTTAGATTATCAGTTTTGCTTTCCTTTTTGATTTTTTTTTCATGT
TGTGGCATTTAATTCTCATAAATACTGCCTATATCTTTTATGCATACATAGTCCTCTTCTTGTT
TTAAATATTCTGTTTTTTTTCTCTTCCTTTAAGATATTACATGTTGGGTTGTTGTGTTGATGCA
CCAGTGGATTGGTGTTGTGAAGAATCTGATATTAGCAAAGGGATAATGTCTACATCAAGTGGAC
TAGAAAATGTGCATTATGAGGGATCCAAGTTACATGCATTTGAAAAGATTTGTCAGAGTACTGT
GCAGCCAAAGAAACATAGTAAGTTTCCTCGTGCATATCGTATTAATGGGGAAAAGAAGGTACAT
ACCGGGAAAATGAGATATCTACCTGTTGAAGAAGCACTTGGTCTTTCATCAAGCATCAAGAAAT
ATGGATCTACGCTGATAAATACGGTATCCTCAAGAGTTGTGTCAACCAAATCCATAGCAACCAT
GACTCGAGGGATTTTTGGCAAGCCTAGAGCTCAAATTTCAAACTCTTTTTGTGAGAAGAGCAAA
GTGCAGCTTCCTTTAGCATCAACAGGATATACTAAACCTCAAAATCTTCGAATTGCCAAAAACA
TTGAACATAGCAAAAAAATGTTCAATTATCTAAAGGT
						
					

			
		

Sequences
Splice junction sequence	TGCAGCTTCCTTTAGCATCAACAGGATATACTAAACCTCAAAATCTTCGAATTGCCAAAAACAT TGAACATAGCAAAAAAATGTTCAATTATCTAAAGGTtccgggtggttctaccagtcttgagcat acgagtcctgatgatttgaataagagtcgaataatgaattcatctatgacacacccttgtgatc cttctcta
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	TCCGGGTGGTTCTACCAGTCTTGAGCATACGAGTCCTGATGATTTGAATAAGAGTCGAATAATG AATTCATCTATGACACACCCTTGTGATCCTTCTCTAGTTCCTTCCCGAAAGTAAGTACCCTTCA TTGTGTACAGTTAGTACTAATTCAAATTTAGCTCATGTCTGTTTTTGGATGGCCCATCTTTGCT AGTAATCAGCTGACTGATTAACTACTCTTTGTAATTTCCTTATTGATAAATACGAAAACATATA TAATACACTTTTTCAACAACATAATGTTCGTCCATGATGAGATGGCATAGTGGTTAAGGCTTAG GACTAACAACTTGGACATTCTAGGTTTGAATCCCAGCTACAACACATTGTGCGCCCATCTGATT TAGACTTACTGGGAACCATTAGCGTGTCAATATGTGTTTGTGGGATGGACTAGTTGCCCAATGA ATTAGTTGGGGTACATGCAAGTTGGTTGGGACGCCATTAGTATCGCTAAAATAATGAGTAGGGC ACTGAAGAATATATGATATAATGATAATCTGAATGTGTACTGCTTAGTCAGATGATAATTGATC TAATCTCTCTTCTTCTTTGCATTTCAGGGGAAGTTCTGACATCTTAGGTGCTTTGGAATTTGTA CCTAGGATGCTCAATAGTTGTATCCTGGCTCATCCTCCTTCTAGAGTTAGATGTAAGGTGTATG AGTTCTCAGGTCATTTGCCTGATACTCTTAAATTTGAACTTGTTCCCCGTGGGGATACTTGGGA AAGTCTATTTAACAATCATATTCCGAGTAAAGAAGATATAGGACTGTATTTTTTAGCAAGTGAG AAAGAAAGGTCAGCTTCTACCTTATATATCTATCCGTAAATGGGCAATGGGTTGCGAAGTAGAA GTCCCCCTTGCCCAGGAAGGTTTTTACTAGAAACTGATTCTCATTTCCCATTATATGTAGGTCT GAGAGATATATTGCTCTAGTGGAGTTCATGCGTAGCAAGGATTTGGTGATGAGAACGCTTATTA ATGATGTTGAGCTCCTTATACTTACATCCACAACCATGTGCACTGATTCTCAAAGTACGTCTAT AATTTCTATATTTTTTCCTCATTTTCAATGAATTTTTAGGTAATAATACATTTACTTGTGTATG CAGAAGATTATGACTTTTTAAAGTGAGGATACTTGTTTGGTTTCATTTGTTCATCAAGGTTTTT GCTCTATAACAGATTGTCCAAAAGAAGATGTTAACAACAACTAGGGTGTGTCTAATGGGATAAC ATTTAAGTAAAAAATAACAAACTTAAATAGAATACTTGGAATGAACTGGTGGATATGCTTCTGC TAGATATTATGAGAGAAAAAGAGAACTTGATTTTACTGATTATGATTTAGCTTTCTGTATCTGA TAACATTTTGTCTCCACATATCATTATGTTCATATGGTAATCTTAATTCCAATCAAGTGTTTGT CAACTTCTAAATTTCTTGTGATTTCTATGTGAACTTGCAGAAAAAATGTGAAATTTGCGGTGAC ACAAGTTTTGAAAAAGCAATTACGTGCATCAGTAAGTTTTCTCTCTCTCTCTCTTTCTCTTTTT GTAGCATGAAAAGGTGGAAAATTAGTTAGAAAATCTGAAAGTCATGTCTCTCTTTCAAGCTTCA TCACTTTGTGTCATATCTATATGTTCTTTGTAAATCTCAAACATTGGCCCAATCCCAAACCCTT TTTTTTTTAAGTTTACTTGACATTTCTAAGAGAGATGTTGATCTTTTTACAGAAGGGGTTGCTT CTCTCGAAGGAAATTGCTAGTTAGATTATCAGTTTTGCTTTCCTTTTTGATTTTTTTTTCATGT TGTGGCATTTAATTCTCATAAATACTGCCTATATCTTTTATGCATACATAGTCCTCTTCTTGTT TTAAATATTCTGTTTTTTTTCTCTTCCTTTAAGATATTACATGTTGGGTTGTTGTGTTGATGCA CCAGTGGATTGGTGTTGTGAAGAATCTGATATTAGCAAAGGGATAATGTCTACATCAAGTGGAC TAGAAAATGTGCATTATGAGGGATCCAAGTTACATGCATTTGAAAAGATTTGTCAGAGTACTGT GCAGCCAAAGAAACATAGTAAGTTTCCTCGTGCATATCGTATTAATGGGGAAAAGAAGGTACAT ACCGGGAAAATGAGATATCTACCTGTTGAAGAAGCACTTGGTCTTTCATCAAGCATCAAGAAAT ATGGATCTACGCTGATAAATACGGTATCCTCAAGAGTTGTGTCAACCAAATCCATAGCAACCAT GACTCGAGGGATTTTTGGCAAGCCTAGAGCTCAAATTTCAAACTCTTTTTGTGAGAAGAGCAAA GTGCAGCTTCCTTTAGCATCAACAGGATATACTAAACCTCAAAATCTTCGAATTGCCAAAAACA TTGAACATAGCAAAAAAATGTTCAATTATCTAAAGGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.163418196

Conservation Information
Conserved circRNAs	NA
PMCS	0.163418196

			
						 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 PGSC0003DMG401020463_circ_igg.1

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