Plant Circular RNA Database

Detail information of PGSC0003DMG400024837_circ_ig.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400024837_circ_ig.1
					
						ID in PlantcircBase
						stu_circ_000547
					
						Alias
						chr04:57718077|57722251
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr4: 57718078-57722251  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
						
							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  
						
							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
						NA

General Information
CircRNA Name	PGSC0003DMG400024837_circ_ig.1
ID in PlantcircBase	stu_circ_000547
Alias	chr04:57718077\|57722251
Organism	Solanum tuberosum
Position	chr4: 57718078-57722251 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	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	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	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  
						
							GTGCTTGCACACACATTTGAAACGCAAGAGTGATTCCACTGGCAATCTCAATAGAATATCAACT
ACTAGATCTTCTGGTAAAGGACGGCGACCATCCATAttataagctgatgaagaagaagtgccgc
aattacgacaaggtaaaaatggaaaaagagattggattgattgagtggtgttgtagaaatacct
ccaacagt

									
								

					

						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
						
							TTATAAGCTGATGAAGAAGAAGTGCCGCAATTACGACAAGGTAAAAATGGAAAAAGAGATTGGA
TTGATTGAGTGGTGTTGTAGAAATACCTCCAACAGTTGACTACTTCCTCACTTTCCTACACTTC
TTTTGTCATTTTAGTTTATATAACTCCCCTTAATTCCTTTTATCCAAGTTTTTAATACCAAGGG
ATATGATGGAGTAATAAGTACTTATTCATTGTTAATTAGAGGTCTTGGATTTGAATCTTTTGGC
TATGAAGTCATCCGTGTTAGGGAGCACTTTACCCATAATGTGAGATTTTTCGACTGGGCTCTAA
TATGGATACCGAACATTGAGCGATTTTTCTTTTTTTACCTTAGTGGTCATTTGGTAGGTGGATA
AAGCTACATCTAATACATGAATCACTACAAGAAAAGTGCTGATTACCTGGGAATTATTGTAGAG
AATATATGATAACCCTAATGGGTGGAGGGAGGACCAATTTATAGAGGTTATGATTTAATCTGGT
ATATCCATCAAGTAACCAATGTACGGACGAGATCTATTCCTTATTAAATATTATTTATGGTATT
ACTTGCGTTACTAGTAAACTTGAGCCATAAGTAAGAAATAATTAATAATAATTAATAATAATTC
TTACACTTCGGGGTGCCTTCGCCATAGTTCAAGTCTGGAGTCGGCCATTTCAGTTCTTGAAAGC
TTTTAATCTAGCTAGTGTTATTCATAGTACTTCCGTGTACTTATCGACCTTATGTGAGTCCAAA
CTCGTTTGAGTTATACATTTACTTTCTAATTGTGCACGAGTATACATACTTTCTAGGCTTATAG
AGGTCCAGTTAGGTTATAGATTATTGCTTTACTTTACTACTTCGTTCTTTTCAGACTCGTGAGC
TATATAGTTAGACTTTCCGTTATTGCTTTGTTCATTTGACCTCTAATTACTGTTACTTTCATAT
TCTTCATATTGTTTTTACTTTCCAAGTTCAGTTGACCTATGATGCCTACTGGACACCTGTTGTT
CTGATATTCATGCTACACTCCACATCTGTTTTCTTGATGTGGATTTGAGCGCCAGCCGACAACG
GTGATTGGAGCCTAAGTAATGCGGAGATCTTCTGAGATGAATGGTGAGCTAATGGCGTCCTAGT
TCGACTTATCTCCATATGTATATAATTTTTTACATGTCTTTTGTATTCGAGACAAATTTATTAA
GTTAGTCAATAGCATAGGCTCGAAACTATGACTAGAACATTGAGTGCATGACATGCACATCTTA
CTCCTTACTTTCCTTATTCGTGCCTGTTTTTTTCATACTTTCTAACTTTCACTAGTACATTATC
CCTTGTTAAGGAAAATTATGTAAACAAAATAGTAAATGGCCTGATCCACTTAAGAGTGAGGGCT
AGTTCATTGATTGATACAGCTAAATCACATTAAATAATAAATACGGAGGAGGGCCTAAAATACC
CTTCAAGTATAGGTAATGGAACAAAAATACCCTCTTCCACCTTTAGGCTCCAAAATACCCTTCC
ATCCATCTATATGGACCTATATTACCCTTTCACTTAACAGATTCTTTAAGACTAATAATTAATC
TTTTCATTAATGATGTGACAGTCTTTAATTGGTTGAAATTGGAATTAACCAAAATAAGAATTTC
TCTTAATTAAACCCAGATCCAACTAAATTCCACCCGACTCACTTAAAATTCTATTGACCCATAT
CTTAAATAATCAAACTTCAATCAACAACTTGCTCCAGTTATTTTTAATCCCAGTCAAAAAAGAG
GTACATTAGACCATAAACAACATGAAACTTCCGAAAATTCCCTGGAAACATTCCAAGAAGGAAG
AAGTGAAATACAAGATCAAGTGCCACTATAATCATATACCAATATACACCATATTTTGAAACAC
TATGAAAAGTCCAGCAAATCTCCAATCTCTGGGAAACATAAACTCAAAGCGGTAAAATTTCTCA
AAATCCGAAACCCTAGAGTTCAAAAATTATTTCACTTCTTTCTTTTTTGCGATTCATATAAAGC
ACCGCACGCAAAAAGCAAAACCAACATAATTTTGGGAAATTCTCAAAGCAGAATCATGGAATAG
AATATAAAAAAAAAATAAAAAATTTAGCCATAGCAAGAGATTATATACTTGATGAAGAAAAGCG
ATAGATATCGCTTTTCTTCATCTGCAAATTTTACGAGAAAATTATATGGAGAGAAATTCAGTGT
ACAGAGAAAAAAAAGGAAACTCACCGCTACACACTCGATTCTTCTTGTTTTTTTTTAAAGATAT
GGGTCAGTAAAATTTTACGTGGGTTGGGTAGAGTTTAGTTGGATCCGGGTTTGATTTGGAGAAA
TTATTGTTTTTGCTTAATCTAAATTCCAGCCAATTAAAGATTGTCACATCATTAATGAAAAGAT
TAATTATTACTCATAAAAAATCTGTTAAGTGAAAGGGTAATATAGGTCCATATAGATGGATGAA
AGGGTATTTTTGAGCCCAAAGGTGGATGGAGGGTATTTTTGTTCCATTCCCTATACTTGAAGGG
TATGTTAGGCCCTTCTCCGTAATATATATTACATTTTTGAACTGTTAAACTAGAAACAAGATTT
AGGATTTTTCAAGTGGACCAAAATACAGATATTGATGCCGAGTACTTAAAGTCTGTTGCTTGCC
GATACTCTAAAAGTAGTAGTGTATTTTTGGAGAATCTAACATGAGTGGAGAGTACACGCGCAAC
TTAGCTTAAATTGTGTTGGTCCAAAAGGAATGCCCCTTGATACCATAAACAAAAAATACCATGT
CAGCTTTTTATTCAATAATAGTACAAAGATGACTGATCCAAACAATTTTAAGCTCAAACACAAT
GTTATAAGAAGACAAGATACGAACTAATGTCACAATATTACAGGTAAATCGTTTTTTTTTCTTC
CTGTTTTTCAATTATTATCATTATAGTATTTTGTATTCCAAATCTTAACGATACTCATCCATTG
GTATGGTATAGAAGAAGTGTTCAATTTGCTCGACCTCGCCCTGTGTCTCGTTTCCTCTCTTTAT
TGGAGCTAGGCTCTCCTTGTAATTGAAAACCCAACAGCCAGCAATGTTAAGGTCCAGGTGAAAT
CCAAGATCTGTAACTTGTCTTGTTTTAGGGTCATATCGCACCAGCTGTGAAGTTTCTGTGATCT
CGAAAACCATCTTATCATTATCCAAGATGTTGCGAGGCCAATGAGCATCTATATGAGGTTGTAC
AGTTAGAACTTTGGACCAATTTCTGTCTTGTTTCATTACCCACACATCGTATATGGATGTCATT
GGTTTACCAGGGTCTCCGGTTAACATAGCAAGTGAGCCGCCATGCAATGTAAGTGTCCCCCAAT
GTTCACTTGGAATATCTGGGACTTGCATCTCCCCAAACTGTTCGCTGCCCATGTCAAAAGAGCG
AATCGTGTAGATCTCATCAAGGCCCCTACAAAGCCAATAATAAACCCCGTTGAGATAAGTGGCG
TCAAGGGGTGCAGATAAGGTAGAACTGGGAGGGAATTCAGGAGTAAGGTATTTCCATGAATTGT
TGCATGAGGAATAGACACAGGCATAGACACGATTATTAGCACCTTGTCCCAGTTCATCCCAGAA
CACTCGAATCCATACAACCTTATAATCTAGAGTCAACAGGTCAAATCCCAATCCGAACTGATGA
TCATGGTCCGAGAAAAAGTACTCAATCACAAAAGGCGCAGGAGGCAGAGACCTGAACTCTCTGG
TGGCAGGATTCCACAAACCCAAGCAGACATTGTATCCATAAAACTTCTTCTGCACTAAGAATAA
GCCATTAACTGGACCAGCAACACACGTGAAATCAGTGATCCGAAGCTGAAGGAGAGTTTTTTGT
TCAGGGGTCACACCTGGAACAATTTCTTCAGGGAGCAAGGAGAATACAACAGACCTTACGATGG
GGTGTACACGTGCTACTTTCAAGATGCAAACAAGGAGGCGGGCACAATTATTCTTGTGATGAAA
ATGTTTTTCTATGAAACTCGGACTTTTGATGAGAGCATACCAGTGCTTGCACACACATTTGAAA
CGCAAGAGTGATTCCACTGGCAATCTCAATAGAATATCAACTACTAGATCTTCTGGTAAAGGAC
GGCGACCATCCATA
						
					

			
		

Sequences
Splice junction sequence	GTGCTTGCACACACATTTGAAACGCAAGAGTGATTCCACTGGCAATCTCAATAGAATATCAACT ACTAGATCTTCTGGTAAAGGACGGCGACCATCCATAttataagctgatgaagaagaagtgccgc aattacgacaaggtaaaaatggaaaaagagattggattgattgagtggtgttgtagaaatacct ccaacagt
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	TTATAAGCTGATGAAGAAGAAGTGCCGCAATTACGACAAGGTAAAAATGGAAAAAGAGATTGGA TTGATTGAGTGGTGTTGTAGAAATACCTCCAACAGTTGACTACTTCCTCACTTTCCTACACTTC TTTTGTCATTTTAGTTTATATAACTCCCCTTAATTCCTTTTATCCAAGTTTTTAATACCAAGGG ATATGATGGAGTAATAAGTACTTATTCATTGTTAATTAGAGGTCTTGGATTTGAATCTTTTGGC TATGAAGTCATCCGTGTTAGGGAGCACTTTACCCATAATGTGAGATTTTTCGACTGGGCTCTAA TATGGATACCGAACATTGAGCGATTTTTCTTTTTTTACCTTAGTGGTCATTTGGTAGGTGGATA AAGCTACATCTAATACATGAATCACTACAAGAAAAGTGCTGATTACCTGGGAATTATTGTAGAG AATATATGATAACCCTAATGGGTGGAGGGAGGACCAATTTATAGAGGTTATGATTTAATCTGGT ATATCCATCAAGTAACCAATGTACGGACGAGATCTATTCCTTATTAAATATTATTTATGGTATT ACTTGCGTTACTAGTAAACTTGAGCCATAAGTAAGAAATAATTAATAATAATTAATAATAATTC TTACACTTCGGGGTGCCTTCGCCATAGTTCAAGTCTGGAGTCGGCCATTTCAGTTCTTGAAAGC TTTTAATCTAGCTAGTGTTATTCATAGTACTTCCGTGTACTTATCGACCTTATGTGAGTCCAAA CTCGTTTGAGTTATACATTTACTTTCTAATTGTGCACGAGTATACATACTTTCTAGGCTTATAG AGGTCCAGTTAGGTTATAGATTATTGCTTTACTTTACTACTTCGTTCTTTTCAGACTCGTGAGC TATATAGTTAGACTTTCCGTTATTGCTTTGTTCATTTGACCTCTAATTACTGTTACTTTCATAT TCTTCATATTGTTTTTACTTTCCAAGTTCAGTTGACCTATGATGCCTACTGGACACCTGTTGTT CTGATATTCATGCTACACTCCACATCTGTTTTCTTGATGTGGATTTGAGCGCCAGCCGACAACG GTGATTGGAGCCTAAGTAATGCGGAGATCTTCTGAGATGAATGGTGAGCTAATGGCGTCCTAGT TCGACTTATCTCCATATGTATATAATTTTTTACATGTCTTTTGTATTCGAGACAAATTTATTAA GTTAGTCAATAGCATAGGCTCGAAACTATGACTAGAACATTGAGTGCATGACATGCACATCTTA CTCCTTACTTTCCTTATTCGTGCCTGTTTTTTTCATACTTTCTAACTTTCACTAGTACATTATC CCTTGTTAAGGAAAATTATGTAAACAAAATAGTAAATGGCCTGATCCACTTAAGAGTGAGGGCT AGTTCATTGATTGATACAGCTAAATCACATTAAATAATAAATACGGAGGAGGGCCTAAAATACC CTTCAAGTATAGGTAATGGAACAAAAATACCCTCTTCCACCTTTAGGCTCCAAAATACCCTTCC ATCCATCTATATGGACCTATATTACCCTTTCACTTAACAGATTCTTTAAGACTAATAATTAATC TTTTCATTAATGATGTGACAGTCTTTAATTGGTTGAAATTGGAATTAACCAAAATAAGAATTTC TCTTAATTAAACCCAGATCCAACTAAATTCCACCCGACTCACTTAAAATTCTATTGACCCATAT CTTAAATAATCAAACTTCAATCAACAACTTGCTCCAGTTATTTTTAATCCCAGTCAAAAAAGAG GTACATTAGACCATAAACAACATGAAACTTCCGAAAATTCCCTGGAAACATTCCAAGAAGGAAG AAGTGAAATACAAGATCAAGTGCCACTATAATCATATACCAATATACACCATATTTTGAAACAC TATGAAAAGTCCAGCAAATCTCCAATCTCTGGGAAACATAAACTCAAAGCGGTAAAATTTCTCA AAATCCGAAACCCTAGAGTTCAAAAATTATTTCACTTCTTTCTTTTTTGCGATTCATATAAAGC ACCGCACGCAAAAAGCAAAACCAACATAATTTTGGGAAATTCTCAAAGCAGAATCATGGAATAG AATATAAAAAAAAAATAAAAAATTTAGCCATAGCAAGAGATTATATACTTGATGAAGAAAAGCG ATAGATATCGCTTTTCTTCATCTGCAAATTTTACGAGAAAATTATATGGAGAGAAATTCAGTGT ACAGAGAAAAAAAAGGAAACTCACCGCTACACACTCGATTCTTCTTGTTTTTTTTTAAAGATAT GGGTCAGTAAAATTTTACGTGGGTTGGGTAGAGTTTAGTTGGATCCGGGTTTGATTTGGAGAAA TTATTGTTTTTGCTTAATCTAAATTCCAGCCAATTAAAGATTGTCACATCATTAATGAAAAGAT TAATTATTACTCATAAAAAATCTGTTAAGTGAAAGGGTAATATAGGTCCATATAGATGGATGAA AGGGTATTTTTGAGCCCAAAGGTGGATGGAGGGTATTTTTGTTCCATTCCCTATACTTGAAGGG TATGTTAGGCCCTTCTCCGTAATATATATTACATTTTTGAACTGTTAAACTAGAAACAAGATTT AGGATTTTTCAAGTGGACCAAAATACAGATATTGATGCCGAGTACTTAAAGTCTGTTGCTTGCC GATACTCTAAAAGTAGTAGTGTATTTTTGGAGAATCTAACATGAGTGGAGAGTACACGCGCAAC TTAGCTTAAATTGTGTTGGTCCAAAAGGAATGCCCCTTGATACCATAAACAAAAAATACCATGT CAGCTTTTTATTCAATAATAGTACAAAGATGACTGATCCAAACAATTTTAAGCTCAAACACAAT GTTATAAGAAGACAAGATACGAACTAATGTCACAATATTACAGGTAAATCGTTTTTTTTTCTTC CTGTTTTTCAATTATTATCATTATAGTATTTTGTATTCCAAATCTTAACGATACTCATCCATTG GTATGGTATAGAAGAAGTGTTCAATTTGCTCGACCTCGCCCTGTGTCTCGTTTCCTCTCTTTAT TGGAGCTAGGCTCTCCTTGTAATTGAAAACCCAACAGCCAGCAATGTTAAGGTCCAGGTGAAAT CCAAGATCTGTAACTTGTCTTGTTTTAGGGTCATATCGCACCAGCTGTGAAGTTTCTGTGATCT CGAAAACCATCTTATCATTATCCAAGATGTTGCGAGGCCAATGAGCATCTATATGAGGTTGTAC AGTTAGAACTTTGGACCAATTTCTGTCTTGTTTCATTACCCACACATCGTATATGGATGTCATT GGTTTACCAGGGTCTCCGGTTAACATAGCAAGTGAGCCGCCATGCAATGTAAGTGTCCCCCAAT GTTCACTTGGAATATCTGGGACTTGCATCTCCCCAAACTGTTCGCTGCCCATGTCAAAAGAGCG AATCGTGTAGATCTCATCAAGGCCCCTACAAAGCCAATAATAAACCCCGTTGAGATAAGTGGCG TCAAGGGGTGCAGATAAGGTAGAACTGGGAGGGAATTCAGGAGTAAGGTATTTCCATGAATTGT TGCATGAGGAATAGACACAGGCATAGACACGATTATTAGCACCTTGTCCCAGTTCATCCCAGAA CACTCGAATCCATACAACCTTATAATCTAGAGTCAACAGGTCAAATCCCAATCCGAACTGATGA TCATGGTCCGAGAAAAAGTACTCAATCACAAAAGGCGCAGGAGGCAGAGACCTGAACTCTCTGG TGGCAGGATTCCACAAACCCAAGCAGACATTGTATCCATAAAACTTCTTCTGCACTAAGAATAA GCCATTAACTGGACCAGCAACACACGTGAAATCAGTGATCCGAAGCTGAAGGAGAGTTTTTTGT TCAGGGGTCACACCTGGAACAATTTCTTCAGGGAGCAAGGAGAATACAACAGACCTTACGATGG GGTGTACACGTGCTACTTTCAAGATGCAAACAAGGAGGCGGGCACAATTATTCTTGTGATGAAA ATGTTTTTCTATGAAACTCGGACTTTTGATGAGAGCATACCAGTGCTTGCACACACATTTGAAA CGCAAGAGTGATTCCACTGGCAATCTCAATAGAATATCAACTACTAGATCTTCTGGTAAAGGAC GGCGACCATCCATA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.115038021

Conservation Information
Conserved circRNAs	NA
PMCS	0.115038021

			
						 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 PGSC0003DMG400024837_circ_ig.1

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