Plant Circular RNA Database

Detail information of PGSC0003DMG400033137_circ_g.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400033137_circ_g.1
					
						ID in PlantcircBase
						stu_circ_000814
					
						Alias
						chr06:47763325|47766962
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr6: 47763326-47766962  JBrowse»						
					
						Reference genome
						
							3.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							PGSC0003DMG400033137						
					
						Parent gene annotation
						
							60S ribosomal protein L7A
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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  
						
							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
						PGSC0003DMT400083241:1
PGSC0003DMT400083240:2
PGSC0003DMT400083237:4
PGSC0003DMT400083239:3

General Information
CircRNA Name	PGSC0003DMG400033137_circ_g.1
ID in PlantcircBase	stu_circ_000814
Alias	chr06:47763325\|47766962
Organism	Solanum tuberosum
Position	chr6: 47763326-47766962 JBrowse»
Reference genome	3.0.38
Type	e-circRNA
Identification method	CIRI2
Parent gene	PGSC0003DMG400033137
Parent gene annotation	60S ribosomal protein L7A
Parent gene strand	+
Alternative splicing	NA
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	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	PGSC0003DMT400083241:1 PGSC0003DMT400083240:2 PGSC0003DMT400083237:4 PGSC0003DMT400083239:3

			
						 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  
						
							TGCACAGATCGTGCATAAGAAAACTGCTTCAGCCTTGTGTTTGACAACCGTGAAGAATGAAGAC
AAAATGGAGTTTAGCAGAGTTTTGGAGGCAATTAAGctaacttcaacgacaagtacgaagagaa
caggaagaagtggggcggtggtatcatgggctctaagtcacaggccaggaccaaggccaaagaa
agagttct

									
								

					

						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
						
							CTAACTTCAACGACAAGTACGAAGAGAACAGGAAGAAGTGGGGCGGTGGTATCATGGGCTCTAA
GTCACAGGCCAGGACCAAGGCCAAAGAAAGAGTTCTAGCCAAGGAAGCTGCCCAGAGATTGAAC
TAAGAGCTTGCTGTGATATATACACTGCAATTTAATTAGAGAGATGCTCTGCCAAGTTTTGTAT
TTGGTTCACATGCTTTACATTGTTAAAGATATCAAGTACCTTTATGTTTGCCTTGACAATGAAT
TATCAGACATTTTATTAAAAATTTTGTTAGTATGTGTTTTTATGGCTCCGAAATGGCGTTTTTA
TTTAAATTCCTACACTTCACTACAAGTTCTTTCTTGAAATAGTGCACTTAAATGGATGCTCCTC
AAGCTCCATGATCTGAGTCTGTACTGTGTCATGTAACACCACCAAAGTAAATGAAACTTTTAGA
GATATTGGTAATCAGTTCAGAAGAAGTTGAGTACTTCAGGGCACAACCATAAATAATTTTGAGT
TTAATTAGCAACTTTTCTAGCGTACAAAAAAAGAACTTCCAAACACTTTCCCCAGAGTTTGCAA
TCACAAGCTTTTCGAAAATCAAAGAAAGTAACAAAAAGTGATTCATAATTCACAATAATAGTCA
ATCTATTTGAAATCCATCTTGAAGACAAAACAAAGAGTGAACCATTTGCAAAACATGGGGGAAA
AAATTAGGAGAAAATTTAAGTATAAATTATAGGAACCACATATTATAATTACTTAATAACATCC
TATCCCTTCTAGTTTTTTATTTACCAAAAATCCCTTAAAAATGATGTTTGTGGGATACATAACA
TTGTGCACGGGATACATTAGGTTTGATACATTCCATATAGCGGGATACATAGCATTGTGCACGG
GATACATTAGGTTTGATACATTCCATATAGCGGGATACATAGCATTGTGCACGGGATACATTAG
GTTTGATACATTCCATATAGCGGGATACATAGCATTGTGCACGGGATACATTAGGTTTGATACA
TTCCATATAGCGGGGGGATACATAGTGTTGTGCACGGGATACATTAGGTTTGATACATTCCACA
TAACGGGATACATAGCGTTGTGCACGGGATACATAGGTAAAATAAGGGATTTTTGAAAATTTTG
AAATAAGTTGGGATAAATGGATATTAAGGTAGGTAAATGAGTGTAGTTAAGTAATTTGTCCAAA
AATTTAATCTAAAGGCATAGCTTCAAATTTTAATTAAATTTATAATCAGATTTTATTCCACATT
GAATATGACTATTTCTCAACTAATTTGCAAAGTGGCTATTATTTAAATAGATTGTCGAATGGCT
AGGTCGTGCTAATTTTTCTTATTAAAAGGAGTCCATGGCCCAAATCCATACAAATTCGCTTATG
CCTTATATAAGATAGGCTGTTTCTCCGGGTTTAGTCCTCCGGTCGCCGTCTCAAGCAAAAATGG
TAAAGCTCTTAGCCATGGTTAACTTCCTTCTTCTTCACAACTCCTTTTTGGAATATGTAATCTC
ATTTTTGTTTCTTTCTTTGCGGAAAATGTAGGCTCCAAAGAAGGGTGTTGCAGTAGCAGCAAAG
AAGAAGCCAGAGAAGGCGAAGGTGGTGAATCCACTGTTCGAGAAGCGGCCAAAGCAGTTCGGTA
TCGGTGGAGCGCTGCCGCCGAAGAAGGATGTAACAAGGAATGTAAGATGGCCTCGGAATGTTAC
CCTACAAAGGAAGAAGAGAATTCTCAAGATGCGATTGAAGGTTCCTCCTGCTCTAAACCAGTTC
ACCAAAACCCTTGATAAGAATCTCGGTCAGTATACTACTATTATCCTAATCTTTTCCTGTTGCG
ATTTTGGTTAATTAGTTGCTGTTAACAATTAGACAACCAATCATCTATTTCCAATTCACTGTAA
TTGCAGCTGCTTATAATGATAATACTTTTTACCTGTATATTCATTTCGCACTATTTTGTCGAGC
TAGTTAGTATTATTTGTTTTAGCTTTTATGTAAGTATGTTTGATGCTGCATGTTATCAATGTGA
ACTTTTACGGAACTTGTGTCATGACTCACGAGTAGCAAAGAAATTATTAGGAATTGAGTATTTT
ATTGGAATTTGGAACTATAATGTGTTTCCATAGATGTTTGAACTATGCCTCACTTACTTGAAGA
CAATTGAATGAGTTGTTATTGTGCTTGGCTTGTGGATTCTTATAATTCCAATTATGTCACCTCT
CGGTGAAAGTTTGCTAAGACCGCGTCTTTTGATGGGCGAGCAATATGGATGACACCTCCAGGCT
CACATCTCTGAAACTGTTGGCTGGCTTATTTTATTAGTTCATAACCAACTAACCAAGTGGCAGA
CTGAGCTATTATTGTCCCTTGTAGAAACTGTGAAGAATATTATTTTCCCTTTTAGAAGAAGCTT
TTTTGGGGAGAAGTACAGTTAATTCAGAAACTACCACTGTTATATTTTGTTGGAATTCATCATG
GAATAATACATTTTGCATATTTTTAGTATTATACATTTGTGTTGTTTCTTTAAGGGGTGTTAGA
TTTGATTGTACCAAATCAGATAGTGATATTTGTTCAAGACAATTTTTTTCCAGCATGTTGGACT
TTACTGTCTCTCTGCCTATAGAATCATGTTAGACTTTACTGTCTCTCTGCCTATAGAATCATGT
TGGACTATAGGGAAATGATTAAGTAGTGGTCAGTGTATTTTTGTCTCTTCATTTCTTATTTCTC
ATTTTCTTTTGTAAAATGGACTTGTGCTTTTTTGTGGTTTTGGAAAGTAAAAAATTACTGGGGC
ATTTATAATTTTTTGTTGCATTTGCTTTTCACTGCTAACCTAACACCTGAAATCATCCTGAAAA
TATATCGATCATTTTGTGGCAAAATACTTTGTTTTGGGAAAATGTAGTATTACCTTTTTGTAGT
CATTCTTAAAAGGCTAAGTTGCTGCCATGTAACCATTATTTATCATCTCTCAACTCATTTGTTT
TTCTTTACTTGCATGAGTTATTTATTTCAGTGATACTGATTTGAATTTTTCCAATGTCTTTGCC
TTCTGAATGCAGCTACAAACCTTTTCAAGATGCTTCTTAAGTACAGGCCTGAGGACAAAGCTGC
AAAGAAGGAGCGTCTTGTCAAAAGGGCTCAAGCTGAAGCCGAAGGAAAAACTCCCGAGACAAAG
AAACCTATTATTGTGAAGTATGGGCTTAAGCACATCACTTACCTTATTGAGCAGGTTTGTTTTG
GTCTTGCAAATTCTCTTCTACTTTCAAGCACATCTCTTTTCATCTATGTAGTAACTATTTTCCA
TTGATGTCTTTTCAGAACAAAGCTCAGTTAGTAGTGATTGCTCATGATGTGGACCCAATAGAGT
TGGTTGTCTGGCTTCCTGCACTATGCAGAAAGATGGAAATTCCATACTGCATTGTGAAGGGGAA
AGCACGTTTAGGATCGGTAAGTAATACTAAGTCTGTATTCTCAATGCTTCTAGACCTATGAGAT
ACTGATATTGATGACTGTGCACAGATCGTGCATAAGAAAACTGCTTCAGCCTTGTGTTTGACAA
CCGTGAAGAATGAAGACAAAATGGAGTTTAGCAGAGTTTTGGAGGCAATTAAG
						
					

			
		

Sequences
Splice junction sequence	TGCACAGATCGTGCATAAGAAAACTGCTTCAGCCTTGTGTTTGACAACCGTGAAGAATGAAGAC AAAATGGAGTTTAGCAGAGTTTTGGAGGCAATTAAGctaacttcaacgacaagtacgaagagaa caggaagaagtggggcggtggtatcatgggctctaagtcacaggccaggaccaaggccaaagaa agagttct
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	CTAACTTCAACGACAAGTACGAAGAGAACAGGAAGAAGTGGGGCGGTGGTATCATGGGCTCTAA GTCACAGGCCAGGACCAAGGCCAAAGAAAGAGTTCTAGCCAAGGAAGCTGCCCAGAGATTGAAC TAAGAGCTTGCTGTGATATATACACTGCAATTTAATTAGAGAGATGCTCTGCCAAGTTTTGTAT TTGGTTCACATGCTTTACATTGTTAAAGATATCAAGTACCTTTATGTTTGCCTTGACAATGAAT TATCAGACATTTTATTAAAAATTTTGTTAGTATGTGTTTTTATGGCTCCGAAATGGCGTTTTTA TTTAAATTCCTACACTTCACTACAAGTTCTTTCTTGAAATAGTGCACTTAAATGGATGCTCCTC AAGCTCCATGATCTGAGTCTGTACTGTGTCATGTAACACCACCAAAGTAAATGAAACTTTTAGA GATATTGGTAATCAGTTCAGAAGAAGTTGAGTACTTCAGGGCACAACCATAAATAATTTTGAGT TTAATTAGCAACTTTTCTAGCGTACAAAAAAAGAACTTCCAAACACTTTCCCCAGAGTTTGCAA TCACAAGCTTTTCGAAAATCAAAGAAAGTAACAAAAAGTGATTCATAATTCACAATAATAGTCA ATCTATTTGAAATCCATCTTGAAGACAAAACAAAGAGTGAACCATTTGCAAAACATGGGGGAAA AAATTAGGAGAAAATTTAAGTATAAATTATAGGAACCACATATTATAATTACTTAATAACATCC TATCCCTTCTAGTTTTTTATTTACCAAAAATCCCTTAAAAATGATGTTTGTGGGATACATAACA TTGTGCACGGGATACATTAGGTTTGATACATTCCATATAGCGGGATACATAGCATTGTGCACGG GATACATTAGGTTTGATACATTCCATATAGCGGGATACATAGCATTGTGCACGGGATACATTAG GTTTGATACATTCCATATAGCGGGATACATAGCATTGTGCACGGGATACATTAGGTTTGATACA TTCCATATAGCGGGGGGATACATAGTGTTGTGCACGGGATACATTAGGTTTGATACATTCCACA TAACGGGATACATAGCGTTGTGCACGGGATACATAGGTAAAATAAGGGATTTTTGAAAATTTTG AAATAAGTTGGGATAAATGGATATTAAGGTAGGTAAATGAGTGTAGTTAAGTAATTTGTCCAAA AATTTAATCTAAAGGCATAGCTTCAAATTTTAATTAAATTTATAATCAGATTTTATTCCACATT GAATATGACTATTTCTCAACTAATTTGCAAAGTGGCTATTATTTAAATAGATTGTCGAATGGCT AGGTCGTGCTAATTTTTCTTATTAAAAGGAGTCCATGGCCCAAATCCATACAAATTCGCTTATG CCTTATATAAGATAGGCTGTTTCTCCGGGTTTAGTCCTCCGGTCGCCGTCTCAAGCAAAAATGG TAAAGCTCTTAGCCATGGTTAACTTCCTTCTTCTTCACAACTCCTTTTTGGAATATGTAATCTC ATTTTTGTTTCTTTCTTTGCGGAAAATGTAGGCTCCAAAGAAGGGTGTTGCAGTAGCAGCAAAG AAGAAGCCAGAGAAGGCGAAGGTGGTGAATCCACTGTTCGAGAAGCGGCCAAAGCAGTTCGGTA TCGGTGGAGCGCTGCCGCCGAAGAAGGATGTAACAAGGAATGTAAGATGGCCTCGGAATGTTAC CCTACAAAGGAAGAAGAGAATTCTCAAGATGCGATTGAAGGTTCCTCCTGCTCTAAACCAGTTC ACCAAAACCCTTGATAAGAATCTCGGTCAGTATACTACTATTATCCTAATCTTTTCCTGTTGCG ATTTTGGTTAATTAGTTGCTGTTAACAATTAGACAACCAATCATCTATTTCCAATTCACTGTAA TTGCAGCTGCTTATAATGATAATACTTTTTACCTGTATATTCATTTCGCACTATTTTGTCGAGC TAGTTAGTATTATTTGTTTTAGCTTTTATGTAAGTATGTTTGATGCTGCATGTTATCAATGTGA ACTTTTACGGAACTTGTGTCATGACTCACGAGTAGCAAAGAAATTATTAGGAATTGAGTATTTT ATTGGAATTTGGAACTATAATGTGTTTCCATAGATGTTTGAACTATGCCTCACTTACTTGAAGA CAATTGAATGAGTTGTTATTGTGCTTGGCTTGTGGATTCTTATAATTCCAATTATGTCACCTCT CGGTGAAAGTTTGCTAAGACCGCGTCTTTTGATGGGCGAGCAATATGGATGACACCTCCAGGCT CACATCTCTGAAACTGTTGGCTGGCTTATTTTATTAGTTCATAACCAACTAACCAAGTGGCAGA CTGAGCTATTATTGTCCCTTGTAGAAACTGTGAAGAATATTATTTTCCCTTTTAGAAGAAGCTT TTTTGGGGAGAAGTACAGTTAATTCAGAAACTACCACTGTTATATTTTGTTGGAATTCATCATG GAATAATACATTTTGCATATTTTTAGTATTATACATTTGTGTTGTTTCTTTAAGGGGTGTTAGA TTTGATTGTACCAAATCAGATAGTGATATTTGTTCAAGACAATTTTTTTCCAGCATGTTGGACT TTACTGTCTCTCTGCCTATAGAATCATGTTAGACTTTACTGTCTCTCTGCCTATAGAATCATGT TGGACTATAGGGAAATGATTAAGTAGTGGTCAGTGTATTTTTGTCTCTTCATTTCTTATTTCTC ATTTTCTTTTGTAAAATGGACTTGTGCTTTTTTGTGGTTTTGGAAAGTAAAAAATTACTGGGGC ATTTATAATTTTTTGTTGCATTTGCTTTTCACTGCTAACCTAACACCTGAAATCATCCTGAAAA TATATCGATCATTTTGTGGCAAAATACTTTGTTTTGGGAAAATGTAGTATTACCTTTTTGTAGT CATTCTTAAAAGGCTAAGTTGCTGCCATGTAACCATTATTTATCATCTCTCAACTCATTTGTTT TTCTTTACTTGCATGAGTTATTTATTTCAGTGATACTGATTTGAATTTTTCCAATGTCTTTGCC TTCTGAATGCAGCTACAAACCTTTTCAAGATGCTTCTTAAGTACAGGCCTGAGGACAAAGCTGC AAAGAAGGAGCGTCTTGTCAAAAGGGCTCAAGCTGAAGCCGAAGGAAAAACTCCCGAGACAAAG AAACCTATTATTGTGAAGTATGGGCTTAAGCACATCACTTACCTTATTGAGCAGGTTTGTTTTG GTCTTGCAAATTCTCTTCTACTTTCAAGCACATCTCTTTTCATCTATGTAGTAACTATTTTCCA TTGATGTCTTTTCAGAACAAAGCTCAGTTAGTAGTGATTGCTCATGATGTGGACCCAATAGAGT TGGTTGTCTGGCTTCCTGCACTATGCAGAAAGATGGAAATTCCATACTGCATTGTGAAGGGGAA AGCACGTTTAGGATCGGTAAGTAATACTAAGTCTGTATTCTCAATGCTTCTAGACCTATGAGAT ACTGATATTGATGACTGTGCACAGATCGTGCATAAGAAAACTGCTTCAGCCTTGTGTTTGACAA CCGTGAAGAATGAAGACAAAATGGAGTTTAGCAGAGTTTTGGAGGCAATTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.154948978

Conservation Information
Conserved circRNAs	NA
PMCS	0.154948978

			
						 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 PGSC0003DMG400033137_circ_g.1

Address

Any questions?

Supported by