Plant Circular RNA Database

Detail information of PGSC0003DMG400002086_circ_ig.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400002086_circ_ig.1
					
						ID in PlantcircBase
						stu_circ_000318
					
						Alias
						chr02:36106805|36111100
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr2: 36106806-36111100  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							PGSC0003DMG400002086_circ_ig.2 PGSC0003DMG400002086_circ_ig.3 						
					
						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-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	PGSC0003DMG400002086_circ_ig.1
ID in PlantcircBase	stu_circ_000318
Alias	chr02:36106805\|36111100
Organism	Solanum tuberosum
Position	chr2: 36106806-36111100 JBrowse»
Reference genome	3.0.38
Type	ig-circRNA
Identification method	CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	PGSC0003DMG400002086_circ_ig.2 PGSC0003DMG400002086_circ_ig.3
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-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  
						
							TTAGTCCATTTTTTTATTAATTTTGGTTACTGTTGTTGCAGGTCATATCAAGGATGGAAGCAAT
GGAGATGTTGCTGTTGATCACTACAATCGTTATTTGaggacattaagctcatggaagatatggg
tgttaatggctatcgtttctctatctcgtgggcaagaattctgcccagtaagttataactgtca
ctagtctc

									
								

					

						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
						
							AGGACATTAAGCTCATGGAAGATATGGGTGTTAATGGCTATCGTTTCTCTATCTCGTGGGCAAG
AATTCTGCCCAGTAAGTTATAACTGTCACTAGTCTCTTCCCTTCATTTTCAGCAAGTACTCCTT
ATTGTCATTTCCATTGAACAATCTTTTACTTTGTCGGTTGTAAATTTGACTCAGAGGGGACATT
CGGAGATGTTAATATGGCTGGAATTGAGCACTATAGTAAGCTTATTGATGCACTCCTACAGAAA
GGTCGGTTCTGCTTCACTTGCTAACAGTTTTAAGCTATAGATAAATCAAAAATGAAGCAAAAAA
AAAGTAAAATTTTGGGCTCAGACGACTTCTTTATGCATTCTGAATTCAGGGATCCAACCGCTTA
TCACACTAACACATTATGACATACCACAAGAACTTGAGGAAAGATATGGTGGTTGGCTAAGTTC
ACGAATACAGTAAGTAACTGGTCCCATCTTACACTTTAAGGTAGTTGTAGATCCCATCAAAAAG
CTGTAACGATGAACAAGCTAACTTGTCTTGTGTCTCAGGGATGATTTCAGCTACTATGCAGACA
TATGCTTCAAATATTTTGGGGACAGGGTCAAATACTGGACAACCATCAATGAGCCTAACCTCAT
GGCTGGTCGTGGCTATAGAGAGGGAACTTACCCTCCAGCTCGATGCTCCAGTGTATTTGGGAAT
TGTAGTGCTGGTGATTCAGAAAGGGAGCCTTTCATCGCAGCTCACAATATGATCCTATCTCATG
CAGCTGCTGTCGGCATTTACCGCACCAGATATCAGGTTCTTTCGATGGCTCTATGCCCTTATTC
CTCATCGCCATGTCAACTCTCAAATGGCATGATCTTGAAATAGTAATCCATATGGATTCTTCTT
TAGTGCAACGCTATCTTCTAGCTTGTAAATGACATGAAGGTGAATTTTGGGGGAGTAAAACAGG
AAAATGGTTTACGTAGAAGACTAAAGCTCGAAAATTTATGCTTGGAAACTGCTTCTTCCCTCTA
TTTATCAAATGGTATATTATAAAAGTTCATTAGAAGACAATACAAGTATCAGTAACATAGTCCA
TTTTATGCTACTTTTCAGAAAAGACAAGGAGGAATGATTGGAATTTCTTTGGATACCCAATGGT
ATGAACCATTTAGCAATTCCTCAGAAGACATAGCTGCAACTGAGAGAGCTCGGTCATTCTACGT
CAACTGGTAACCTTTCCTTATCAGTAGTTCAGTACTACAATTTGGTTTCTTGTGCATCAGAAAG
AGAGGAAAAGAATGCTTTTTATTTTTTGAATAAGTACGTTTTTTTTTAATAAGTACCCCTATGC
AGGTTTCTAGACCCTATTATATTAGGAAGATATCCCAAAGAAATGGTACAAATTCTGGGATCTA
ATCTGCCAGACTTTTCAAAGAATGATTTGAGCAAGCTGAGTTATGGCCTAGATTTCATTGGCAT
CAATTACTATACGGCTAAATATATCAAAGATTGCTTATATTCTGCCTGTGAACATGGAAACACT
TGGTCAGAGGGTTCCTATTTTGTTACTACAGAAAAAGACGGTGTCTACATTGGCCAATCTGTAT
GTTTTCTCCTCTTTAAAATTTGAGCATTCCTCATCTTCTAACCCTCCACTCTGCCAAACTATTA
CTGGCACTTTGTGCTTGCTGAATTTTATTTATTTTCCACAACTTTAAATGAATCAGACTGAAGT
GGAATGGCTCTTTCTGTACCCTCAAGGTATGAAAAAAATTGTGATGTACATGAAGGACAGATTC
AACAATACTCCAATGGTTATCACCGAAAATGGTAAGAAGAAAAGAAATTTCACATTCTTTTCAT
TTAAAAGCGAGATATAGTTTAATTTATCAACTAATAACCTGAACAAGATGCATTTGGATCTGTT
GGGATGCATCCACTGACACAACTGGCAATGTTGCAGGCATTGCTGAGAACGATAATCTGAATCC
TTCAATAACGGACACCTTGAATGATATTCATAGAGTGAACTATATGCATAGCTACTTAAATTCA
TTGGCAAATGCAATCACGGATGGTGCAGATGTGAGGGGGTACTTTGTTTGGTCCCTTCTCGACA
ACTTTGAGTGGCTAGATGGATATAAGCTAAGATTTGGACTTCACTATGTCAACTATACTAATCT
TCAGAGAATACCAAAATTATCAGCTACCATGTATAAACAACTCATGTATAACTTCAACATACAG
CTTGAAACAAATACTGCCCAGAACTAGTGGGAGAAGATGATGAAAATCGGAGGTTTGTAAAGAT
TATTTTCATTGCAATGGAACTGTAATCATGTAAACAAGATCTATTAATTAAATAAATAGAAATA
TTCTGTTGAAAGTTGTGTTGGAAGAGGTTATGTCATACTTGAATGATAGTCTTTATCGACTATA
ACTTGTTGGCGTAGAGACCCAAGCTAACTAGGATCTACAACAACTCGATTATTGGAATGTCCAA
ACTCGAGAATGAGGTTCAAGAGAGAGCAACCATTTCAATCTTGCGGATTATATTTTGTACTTTG
TTAAATGGTGCAGTTATAGAATTGACAGTTGGTAGATTTTCAGATGGGTATATTTCTAATTTTT
ATTTATCGTAAATTAACAGATTTGTCGACATTAGTACAACCAACTACATTAGCTTGATATATCA
TGAAATAAACAATAACTATAAGACAAAAAACAAAATCATCCAAGATTCTTATATGAGGAACCCA
CAAAATTAAGTTATCGAATATAAATATTTCAATAACACCATATTAAAGTAACAAGAAAGCGTTG
AAAAGTATAAGGGATCAATAATTCAATTATTTCCACTTCTTTTCATCTTTCACAGTTGCAACAC
ACAAAAGTTTTGAGTGCTGATTTTTTTGGTTGAATTCCGAATGAACCAAAAGAAGACAACTGCA
ACACATTAAAAAATGGCCCCTTTCTCAGCTTACAAAACCTTATTGTCCTATTTGATTGATGACT
CAAAGGTGACAAAGCATAAAATTATATTTAGTCACTAGCGTTGTAAAAATTCGAAGCAAAAGGC
TTCCAACAACACAAAGCTTGATAAACCATACACACCAACAATGATGAATTTTAGATTTATAGTA
AATGACCAAAATGAACACATTTTGTCATACATTAAAGACTATATCAATTAAGTGAAATATATTA
AGGATCAAAATGAACATATTTGTTATAATCATTTTAATAAAGTGAAATACATTAAAGACCAAGA
TAAAGAATTACCCATATATTAACGACCATTTTGGTCATTTTTGTTGGGTATTATTTGCCTCGAT
AGGTTTTCCTTTTTCTAAAAGGGAAAACATTAAGTCTTCATATTTGACTAGTCTTTTTCTTGTA
AGAAAAGATTTAAGATTAGCTAGTCCTTTTCTTGTAGAAAAAGGTTTAGGAATCTGAGGTTTGT
TCTTTCTAACTTAATCAACTTTCACAATGTAGTCCTTAGGAATTTTGAAAATTTTGGTTAGGGT
GAGAATTTGTGGAACACAATTGATAACAAGTGATATGTTATCACTTGTGTGAACCTCCTTGTAT
TTCGATCGAACCACGTTAAATCTTTGTGTCTTTTGATTTCTCATTTGTTTTTTTACTTGTAGTC
TTTCGAGGTTTGCTTCGTTTGTCTTCTTACTTGTGGTCTCTTGAGGTTTGCTTTGCTAGCTTCC
GCATGACATTTAATTATTTCGGTCCTAACAATTTTCTCATGTTCTTTATGTCTTTTTCCCAGGA
GCTTAAAAAAGAAACATCAAGAACCACTTCTCTCTGAGTTTTCCACTTTCACTTAACAAATCAA
AGCTGTATGCTTCCTGCAATGTTTTATCACATATCAATTTGCATGTTGTTTTGTGGTTTCAATT
TCATAGTATCATCATGTCATCAAATAGACAACCTTAATATTCTCAAAGAAAATGCTAACCAAGT
TACATCTTCAAGCAATTTCTTGTTTGGAACAGCCTCTTCTTGTTACCAGGTACTTCCTACACTT
GTTTTCTTTTTTGGGGCTGGATTGTTGTTCTGAGTACAACTTTTTTCTTGTTTTCTCCGCAGTT
TGAAGGAGCATTTCTCAGTGATGGAAAAGGTCTCAACAATTGGGACGTTTTTACTCATGAAGCT
GGTCAGCTTCTAAAATTAATGAATGTCAATTTCTTTTAGTCCATTTTTTTATTAATTTTGGTTA
CTGTTGTTGCAGGTCATATCAAGGATGGAAGCAATGGAGATGTTGCTGTTGATCACTACAATCG
TTATTTG
						
					

			
		

Sequences
Splice junction sequence	TTAGTCCATTTTTTTATTAATTTTGGTTACTGTTGTTGCAGGTCATATCAAGGATGGAAGCAAT GGAGATGTTGCTGTTGATCACTACAATCGTTATTTGaggacattaagctcatggaagatatggg tgttaatggctatcgtttctctatctcgtgggcaagaattctgcccagtaagttataactgtca ctagtctc
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	AGGACATTAAGCTCATGGAAGATATGGGTGTTAATGGCTATCGTTTCTCTATCTCGTGGGCAAG AATTCTGCCCAGTAAGTTATAACTGTCACTAGTCTCTTCCCTTCATTTTCAGCAAGTACTCCTT ATTGTCATTTCCATTGAACAATCTTTTACTTTGTCGGTTGTAAATTTGACTCAGAGGGGACATT CGGAGATGTTAATATGGCTGGAATTGAGCACTATAGTAAGCTTATTGATGCACTCCTACAGAAA GGTCGGTTCTGCTTCACTTGCTAACAGTTTTAAGCTATAGATAAATCAAAAATGAAGCAAAAAA AAAGTAAAATTTTGGGCTCAGACGACTTCTTTATGCATTCTGAATTCAGGGATCCAACCGCTTA TCACACTAACACATTATGACATACCACAAGAACTTGAGGAAAGATATGGTGGTTGGCTAAGTTC ACGAATACAGTAAGTAACTGGTCCCATCTTACACTTTAAGGTAGTTGTAGATCCCATCAAAAAG CTGTAACGATGAACAAGCTAACTTGTCTTGTGTCTCAGGGATGATTTCAGCTACTATGCAGACA TATGCTTCAAATATTTTGGGGACAGGGTCAAATACTGGACAACCATCAATGAGCCTAACCTCAT GGCTGGTCGTGGCTATAGAGAGGGAACTTACCCTCCAGCTCGATGCTCCAGTGTATTTGGGAAT TGTAGTGCTGGTGATTCAGAAAGGGAGCCTTTCATCGCAGCTCACAATATGATCCTATCTCATG CAGCTGCTGTCGGCATTTACCGCACCAGATATCAGGTTCTTTCGATGGCTCTATGCCCTTATTC CTCATCGCCATGTCAACTCTCAAATGGCATGATCTTGAAATAGTAATCCATATGGATTCTTCTT TAGTGCAACGCTATCTTCTAGCTTGTAAATGACATGAAGGTGAATTTTGGGGGAGTAAAACAGG AAAATGGTTTACGTAGAAGACTAAAGCTCGAAAATTTATGCTTGGAAACTGCTTCTTCCCTCTA TTTATCAAATGGTATATTATAAAAGTTCATTAGAAGACAATACAAGTATCAGTAACATAGTCCA TTTTATGCTACTTTTCAGAAAAGACAAGGAGGAATGATTGGAATTTCTTTGGATACCCAATGGT ATGAACCATTTAGCAATTCCTCAGAAGACATAGCTGCAACTGAGAGAGCTCGGTCATTCTACGT CAACTGGTAACCTTTCCTTATCAGTAGTTCAGTACTACAATTTGGTTTCTTGTGCATCAGAAAG AGAGGAAAAGAATGCTTTTTATTTTTTGAATAAGTACGTTTTTTTTTAATAAGTACCCCTATGC AGGTTTCTAGACCCTATTATATTAGGAAGATATCCCAAAGAAATGGTACAAATTCTGGGATCTA ATCTGCCAGACTTTTCAAAGAATGATTTGAGCAAGCTGAGTTATGGCCTAGATTTCATTGGCAT CAATTACTATACGGCTAAATATATCAAAGATTGCTTATATTCTGCCTGTGAACATGGAAACACT TGGTCAGAGGGTTCCTATTTTGTTACTACAGAAAAAGACGGTGTCTACATTGGCCAATCTGTAT GTTTTCTCCTCTTTAAAATTTGAGCATTCCTCATCTTCTAACCCTCCACTCTGCCAAACTATTA CTGGCACTTTGTGCTTGCTGAATTTTATTTATTTTCCACAACTTTAAATGAATCAGACTGAAGT GGAATGGCTCTTTCTGTACCCTCAAGGTATGAAAAAAATTGTGATGTACATGAAGGACAGATTC AACAATACTCCAATGGTTATCACCGAAAATGGTAAGAAGAAAAGAAATTTCACATTCTTTTCAT TTAAAAGCGAGATATAGTTTAATTTATCAACTAATAACCTGAACAAGATGCATTTGGATCTGTT GGGATGCATCCACTGACACAACTGGCAATGTTGCAGGCATTGCTGAGAACGATAATCTGAATCC TTCAATAACGGACACCTTGAATGATATTCATAGAGTGAACTATATGCATAGCTACTTAAATTCA TTGGCAAATGCAATCACGGATGGTGCAGATGTGAGGGGGTACTTTGTTTGGTCCCTTCTCGACA ACTTTGAGTGGCTAGATGGATATAAGCTAAGATTTGGACTTCACTATGTCAACTATACTAATCT TCAGAGAATACCAAAATTATCAGCTACCATGTATAAACAACTCATGTATAACTTCAACATACAG CTTGAAACAAATACTGCCCAGAACTAGTGGGAGAAGATGATGAAAATCGGAGGTTTGTAAAGAT TATTTTCATTGCAATGGAACTGTAATCATGTAAACAAGATCTATTAATTAAATAAATAGAAATA TTCTGTTGAAAGTTGTGTTGGAAGAGGTTATGTCATACTTGAATGATAGTCTTTATCGACTATA ACTTGTTGGCGTAGAGACCCAAGCTAACTAGGATCTACAACAACTCGATTATTGGAATGTCCAA ACTCGAGAATGAGGTTCAAGAGAGAGCAACCATTTCAATCTTGCGGATTATATTTTGTACTTTG TTAAATGGTGCAGTTATAGAATTGACAGTTGGTAGATTTTCAGATGGGTATATTTCTAATTTTT ATTTATCGTAAATTAACAGATTTGTCGACATTAGTACAACCAACTACATTAGCTTGATATATCA TGAAATAAACAATAACTATAAGACAAAAAACAAAATCATCCAAGATTCTTATATGAGGAACCCA CAAAATTAAGTTATCGAATATAAATATTTCAATAACACCATATTAAAGTAACAAGAAAGCGTTG AAAAGTATAAGGGATCAATAATTCAATTATTTCCACTTCTTTTCATCTTTCACAGTTGCAACAC ACAAAAGTTTTGAGTGCTGATTTTTTTGGTTGAATTCCGAATGAACCAAAAGAAGACAACTGCA ACACATTAAAAAATGGCCCCTTTCTCAGCTTACAAAACCTTATTGTCCTATTTGATTGATGACT CAAAGGTGACAAAGCATAAAATTATATTTAGTCACTAGCGTTGTAAAAATTCGAAGCAAAAGGC TTCCAACAACACAAAGCTTGATAAACCATACACACCAACAATGATGAATTTTAGATTTATAGTA AATGACCAAAATGAACACATTTTGTCATACATTAAAGACTATATCAATTAAGTGAAATATATTA AGGATCAAAATGAACATATTTGTTATAATCATTTTAATAAAGTGAAATACATTAAAGACCAAGA TAAAGAATTACCCATATATTAACGACCATTTTGGTCATTTTTGTTGGGTATTATTTGCCTCGAT AGGTTTTCCTTTTTCTAAAAGGGAAAACATTAAGTCTTCATATTTGACTAGTCTTTTTCTTGTA AGAAAAGATTTAAGATTAGCTAGTCCTTTTCTTGTAGAAAAAGGTTTAGGAATCTGAGGTTTGT TCTTTCTAACTTAATCAACTTTCACAATGTAGTCCTTAGGAATTTTGAAAATTTTGGTTAGGGT GAGAATTTGTGGAACACAATTGATAACAAGTGATATGTTATCACTTGTGTGAACCTCCTTGTAT TTCGATCGAACCACGTTAAATCTTTGTGTCTTTTGATTTCTCATTTGTTTTTTTACTTGTAGTC TTTCGAGGTTTGCTTCGTTTGTCTTCTTACTTGTGGTCTCTTGAGGTTTGCTTTGCTAGCTTCC GCATGACATTTAATTATTTCGGTCCTAACAATTTTCTCATGTTCTTTATGTCTTTTTCCCAGGA GCTTAAAAAAGAAACATCAAGAACCACTTCTCTCTGAGTTTTCCACTTTCACTTAACAAATCAA AGCTGTATGCTTCCTGCAATGTTTTATCACATATCAATTTGCATGTTGTTTTGTGGTTTCAATT TCATAGTATCATCATGTCATCAAATAGACAACCTTAATATTCTCAAAGAAAATGCTAACCAAGT TACATCTTCAAGCAATTTCTTGTTTGGAACAGCCTCTTCTTGTTACCAGGTACTTCCTACACTT GTTTTCTTTTTTGGGGCTGGATTGTTGTTCTGAGTACAACTTTTTTCTTGTTTTCTCCGCAGTT TGAAGGAGCATTTCTCAGTGATGGAAAAGGTCTCAACAATTGGGACGTTTTTACTCATGAAGCT GGTCAGCTTCTAAAATTAATGAATGTCAATTTCTTTTAGTCCATTTTTTTATTAATTTTGGTTA CTGTTGTTGCAGGTCATATCAAGGATGGAAGCAATGGAGATGTTGCTGTTGATCACTACAATCG TTATTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.134117592

Conservation Information
Conserved circRNAs	NA
PMCS	0.134117592

			
						 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 PGSC0003DMG400002086_circ_ig.1

Address

Any questions?

Supported by