Plant Circular RNA Database

Detail information of PGSC0003DMG400038806_circ_ig.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400038806_circ_ig.1
					
						ID in PlantcircBase
						stu_circ_000952
					
						Alias
						chr07:50612153|50616470
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr7: 50612154-50616470  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
						
							PGSC0003DMG400017319_circ_ig.1 PGSC0003DMG400017319_circ_ig.2 PGSC0003DMG400017322_circ_igg.1 PGSC0003DMG400017323_circ_ig.1 						
					
						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	PGSC0003DMG400038806_circ_ig.1
ID in PlantcircBase	stu_circ_000952
Alias	chr07:50612153\|50616470
Organism	Solanum tuberosum
Position	chr7: 50612154-50616470 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	PGSC0003DMG400017319_circ_ig.1 PGSC0003DMG400017319_circ_ig.2 PGSC0003DMG400017322_circ_igg.1 PGSC0003DMG400017323_circ_ig.1
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  
						
							TTGCATCGCCATCAATCTTTTGTCAATGATACACCTAATTGTCGTTTGAATTTCCTTTTCGATT
TCCAGCATTCTTTTCTTCTTCTTACTAGGCAAGAACtcgaccctggtatataaatcgaaaaaac
ttgttccattacatactcagcttgttctttctgaagttcaaatactattctcccttcttcatag
ctactccc

									
								

					

						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
						
							TCGACCCTGGTATATAAATCGAAAAAACTTGTTCCATTACATACTCAGCTTGTTCTTTCTGAAG
TTCAAATACTATTCTCCCTTCTTCATAGCTACTCCCAAATGCAGTTCGAGAAATGACTTCACCG
GTCATTAGTTGAAAGTGTGGCCATACATCGAGCTCGACTGATGTTTCCTTTGGAACAGCCTCCT
CCCATTTGCTTAGCATTTCACTACAACTCTGATAAAATGCTAGAACCATATGCTGTTACTTAGA
CAGGTTAATCACTCATGATCACTATACTAGCTATACGCAAAAAGAAAAAAATAGTAATATGTAT
AACCTTTAGTTTCTCAAAATGGAAGGCGGGATTGATGATTTTTCTATATTTAGCCCATTTCTGT
TCCTCAAGGGTAACGAGACCTCGAACCAATAACTTCGCGAATGGATTAGAATGCTTATTCTTGT
TATACACATAATGTTTTTCAAAAATTATCTTTATAAGTGAAGGTTCTGTGATGAATACTATAGG
CTTGGGGCCTAGCCAGGCAAAAGAATTTTTACCTGCAGAGTATTTAGCAGTTTTGTGTTAGTAA
AAAAAGCAGGGCTTATACTAAACCTAAATCAAACTCTATATCGAGTATCCAGAATCCATAAACT
CAAAATCTTAGCTCCATCCTGGGTACAAACGTTTTACAAGAAGAACTATACTATGCCACAATAC
TTCAACTAGAGGAGCGACCAGTTGGTTCACCAAACCCCAACCTAGCGTCACATGTTCTCTTCAA
ATACAAGGAGATCTAGAGACAAACTACCGACTCCTCCAAAAATTACATTATTAAGCGAAAAATA
ATTGTTAGTGGACCACCACCACTTTTTAACAATTGCATGAAGTCGAAGACATAATTCCGTAGAT
AAAAGTTTGCTCCCTTTAATAGTTTGCATGATCACACATTTAAACATGATATCAGATCAGGAAA
AGCAAAGATTGGATTCATGTCTTATATAAAAAAAAATATATGTGATTGGTCCATGAAAAGAATA
TGATTATGCAGACATGATATCAGATCAGGCAAGGAAGAAAAATAAGTAATAAAAAAAAAAATTA
AAAACTAGATTGTTGTAGTTACCATTTTGTTGATGGAGTCACAGAAAAAAGGGATGAGCCTTTG
AGGTACATCATCAGAGAAATTGATAGGCTTAGATTTGGCTTCATTGAGTTTATTTGTAAGCTCT
TTCAAATCTCCATAGAGTAATTTGTATGGATTTCCCTTAAGACCACTCTTTCTTAAGTATTTCT
CAAGTTTTTTTGGGCTTCGTCCTATACTCATATACAAACATTTATGCCTTTGGTTTTCTATAGA
CACTTTTTCTTTTGAATTTTCTATAAAAAAATTTTAAATATTTGCTTTATGTTATATCATGTAT
TCAGAATAGTAAATCAGAAATACTGAGTCCACATAATTCACTATGTGTTCTTAAGAAATTTAAT
CCACTCAATGTACCCGAGGTTGTGGATTATTGCCTCCCAGGATAAAATGGATATACCTATTAAA
AAAGTAGTGGTACCTCACACTTCAATAACTTCAGCAAACTCAAAAGTCAGCAACGAAATCATCA
TACATATTAAAGAAGTAGTGATACCTCACACTTTAGCAACAAAATCATACATATTAAAGAAGTA
GTGGTACCTCACACTTTAATAATTTCAGCGAACTCAAAAGACAGCAACGAAATCACACAATGAC
TCTACTTTAAGGAGAAAATTCCAACAAAATACTTGGTTTGTAAGAAAATACGTGTATGCAGAAG
AAGGAAAAAAATTGATATGATGGTGCGGTGTGAACTCACATGTTCAGAATAGGCATGTCGATGC
CGAGGCCGAGCGAGCGACGATGATGCGAGGGCACCCTCTCCTTAGCCCTTTAAGGGGTAAAGGA
AGTGTTTCACTAAACATAAATTCGATTGCTAAGAAAAAAAATTAAAATCAATCAAAAGCTAAAT
AACCTTGATAACATTAACAAAACTGCAGTTAATGTTTTAAATTCGAAGCATGACTTCCGCGATC
ACCCAACAATTTAGTATCGATCATTTGAATGATGCATGTAGATCAACGTACAACGCAAATGACG
TACATATCATCTTAAAGTTTGCGCATAAGCAGAGGAGCACCATACTGAGGATGAATAGACACTA
CTGCAACTGGAGCATGTGTATATGATGGTGAGAGTTCAAAGGAGAACTTTTGTAGTATCATTGT
TATTGCCATCTTTGCTTCCATCATTGCAAAGTTTTGTCCAATGCAAATTCGGGGTCCCCAACCA
AATGGAATAAACGAGACTTGTCCATTTGTTGCCTTTGACACTCCTTCACTGAATCTTTCAGGTT
TGAATTCCTTCGCGTCTTCACCCCATAATTCCTTGTTATAATGTACTAAGATTGCGGGTATAAC
GAGTAGTACTTCAGCTGGCAGACTCAGCTCACCCAATTTGACTTCATCTTTGTTCCTTCTACCA
TATATCGGTGCTGGGGGGAACAACCTTAACGTCTCGTACAAGATCATTGTCACCTAAGGAAAAC
AAACATGTATTGCATAAGTTGACAGTAGAATTATTTCACTTATGAGAAATTCTGAAAACTACTT
ACAATTTTGAGACGACTTAGTCCTTCAAAATCTGGTTTTTCATTTCCGAATACATTCAAAACCT
CCTCTCTTGCACGTACTTGCCACTCTGGATGTAGGCATAGTAATATCGTTGTCCATACGAGCAA
CACTGAAGTGGTATCTTGTCCAGCAAAATAGAATAACTTGCACTCTTCAATCACTTCTATTGTT
GTCAATCCGAAATCTTTGCTTCCGTGTTGTTCAATTTCTTTCGTATTGGATTCAAGTAATATGC
CTAATAAATCTTCATTATTAGTCTCCCCTGCTTGCATCGCCATCAATCTTTTGTCAATGATACG
CCTAATTGTCGTTTGAATTTCCTTTTCGATTTCCAGCATTCTTTTCTTCTTCTTACTAGGCAAG
AACCTTATAACAAAAATCCAAGTAAATTCTCTATGCTATGAAGTAGAAATTTGATCAAATACTT
TAAAATTGTACGTACCTCGATCCTGGTATATAAATCGAAAAAACTTGTTCCATTACATACTCAG
CTTGTTCTTTTTGCAGTTCAAATACTTTTCTTCCTTCTTCATAACTACTCCCAAATGCAATTCG
AGAAATGACTTCACCTATCATTAGTTGAAAATGTGGCCATACATCGAGCTCGACTGATGTTTCC
TTTGGAACAGCCTCCTCCCATTTGCTTAGCATTTCACTACAACTCTGATAAAATGCTAGAACCA
TATGCTGTTACTTAGACAGGTTAATCACTCATGATCACTATACTAGCTATACGCAAAAAGAAAA
AAATAGTAATATGTATAACCTTTAGTTTCTCAAAATGGAAGGCGGGATTGATGATTTTTCTATA
TTTAGCCCATTTCTGTTCCTCAAGGGTAACGAGACCTCGAACCAATAACTTCGCGAATGGATTA
GAATGCTTATTCTTGTTATACACATAATGTTTTTCAAAAATTATCTTTATAAGTGAAGGTTCTG
TGATGAATACTATAGGCTTGGGGCCTAGCCAGGCAAAAGAATTTTTACCTGCAGAGTATTTATC
AGTTTTGTGTTAGTAAAAAAAGCAAAGCTTATACTAAAATAGATTGTAAGTGATATATCGCCTA
CGGGTTCAACAAAACTAGTACTAGTTTTAGTTCAAACTCTATATCAGACTCAGCTCACCCAATT
TGACTTCATCTTTGTTCCTTCTACCATATATCGGTGCTGGGGGGAACAACCTTAACGTCTCGTA
CAAGATCATTGTCACCTAAGGAAAACAAACATGTATTGCATAAGTTGACAGTAGAATTATTTCA
CTTATGAGAAATTCTGAAAACTACTTACAATTTTGAGACGACTTAGTCCTTCAAAATCTGGTTT
TTCATTTCCGAATACATTCAAAACCTCCTCTCTTGCACGTACTTGCCACTCTGGATGTAGGCAT
AGTAATATCGTTGTCCATACGAGCAACACTGAAGTGGTATCTTGTCCAGCAAAATAGAATAACT
TGCACTCTTCAATCACTTCTATTGTTGTCAATCCGAAATCTTTGCTTCCGTGTTGTTCAATTTC
TTTCGTATTGGATTCAAGTAATATGCCTAATAAATCTTCATTATTAGTCTCCCCTGCTTGCATC
GCCATCAATCTTTTGTCAATGATACACCTAATTGTCGTTTGAATTTCCTTTTCGATTTCCAGCA
TTCTTTTCTTCTTCTTACTAGGCAAGAAC
						
					

			
		

Sequences
Splice junction sequence	TTGCATCGCCATCAATCTTTTGTCAATGATACACCTAATTGTCGTTTGAATTTCCTTTTCGATT TCCAGCATTCTTTTCTTCTTCTTACTAGGCAAGAACtcgaccctggtatataaatcgaaaaaac ttgttccattacatactcagcttgttctttctgaagttcaaatactattctcccttcttcatag ctactccc
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	TCGACCCTGGTATATAAATCGAAAAAACTTGTTCCATTACATACTCAGCTTGTTCTTTCTGAAG TTCAAATACTATTCTCCCTTCTTCATAGCTACTCCCAAATGCAGTTCGAGAAATGACTTCACCG GTCATTAGTTGAAAGTGTGGCCATACATCGAGCTCGACTGATGTTTCCTTTGGAACAGCCTCCT CCCATTTGCTTAGCATTTCACTACAACTCTGATAAAATGCTAGAACCATATGCTGTTACTTAGA CAGGTTAATCACTCATGATCACTATACTAGCTATACGCAAAAAGAAAAAAATAGTAATATGTAT AACCTTTAGTTTCTCAAAATGGAAGGCGGGATTGATGATTTTTCTATATTTAGCCCATTTCTGT TCCTCAAGGGTAACGAGACCTCGAACCAATAACTTCGCGAATGGATTAGAATGCTTATTCTTGT TATACACATAATGTTTTTCAAAAATTATCTTTATAAGTGAAGGTTCTGTGATGAATACTATAGG CTTGGGGCCTAGCCAGGCAAAAGAATTTTTACCTGCAGAGTATTTAGCAGTTTTGTGTTAGTAA AAAAAGCAGGGCTTATACTAAACCTAAATCAAACTCTATATCGAGTATCCAGAATCCATAAACT CAAAATCTTAGCTCCATCCTGGGTACAAACGTTTTACAAGAAGAACTATACTATGCCACAATAC TTCAACTAGAGGAGCGACCAGTTGGTTCACCAAACCCCAACCTAGCGTCACATGTTCTCTTCAA ATACAAGGAGATCTAGAGACAAACTACCGACTCCTCCAAAAATTACATTATTAAGCGAAAAATA ATTGTTAGTGGACCACCACCACTTTTTAACAATTGCATGAAGTCGAAGACATAATTCCGTAGAT AAAAGTTTGCTCCCTTTAATAGTTTGCATGATCACACATTTAAACATGATATCAGATCAGGAAA AGCAAAGATTGGATTCATGTCTTATATAAAAAAAAATATATGTGATTGGTCCATGAAAAGAATA TGATTATGCAGACATGATATCAGATCAGGCAAGGAAGAAAAATAAGTAATAAAAAAAAAAATTA AAAACTAGATTGTTGTAGTTACCATTTTGTTGATGGAGTCACAGAAAAAAGGGATGAGCCTTTG AGGTACATCATCAGAGAAATTGATAGGCTTAGATTTGGCTTCATTGAGTTTATTTGTAAGCTCT TTCAAATCTCCATAGAGTAATTTGTATGGATTTCCCTTAAGACCACTCTTTCTTAAGTATTTCT CAAGTTTTTTTGGGCTTCGTCCTATACTCATATACAAACATTTATGCCTTTGGTTTTCTATAGA CACTTTTTCTTTTGAATTTTCTATAAAAAAATTTTAAATATTTGCTTTATGTTATATCATGTAT TCAGAATAGTAAATCAGAAATACTGAGTCCACATAATTCACTATGTGTTCTTAAGAAATTTAAT CCACTCAATGTACCCGAGGTTGTGGATTATTGCCTCCCAGGATAAAATGGATATACCTATTAAA AAAGTAGTGGTACCTCACACTTCAATAACTTCAGCAAACTCAAAAGTCAGCAACGAAATCATCA TACATATTAAAGAAGTAGTGATACCTCACACTTTAGCAACAAAATCATACATATTAAAGAAGTA GTGGTACCTCACACTTTAATAATTTCAGCGAACTCAAAAGACAGCAACGAAATCACACAATGAC TCTACTTTAAGGAGAAAATTCCAACAAAATACTTGGTTTGTAAGAAAATACGTGTATGCAGAAG AAGGAAAAAAATTGATATGATGGTGCGGTGTGAACTCACATGTTCAGAATAGGCATGTCGATGC CGAGGCCGAGCGAGCGACGATGATGCGAGGGCACCCTCTCCTTAGCCCTTTAAGGGGTAAAGGA AGTGTTTCACTAAACATAAATTCGATTGCTAAGAAAAAAAATTAAAATCAATCAAAAGCTAAAT AACCTTGATAACATTAACAAAACTGCAGTTAATGTTTTAAATTCGAAGCATGACTTCCGCGATC ACCCAACAATTTAGTATCGATCATTTGAATGATGCATGTAGATCAACGTACAACGCAAATGACG TACATATCATCTTAAAGTTTGCGCATAAGCAGAGGAGCACCATACTGAGGATGAATAGACACTA CTGCAACTGGAGCATGTGTATATGATGGTGAGAGTTCAAAGGAGAACTTTTGTAGTATCATTGT TATTGCCATCTTTGCTTCCATCATTGCAAAGTTTTGTCCAATGCAAATTCGGGGTCCCCAACCA AATGGAATAAACGAGACTTGTCCATTTGTTGCCTTTGACACTCCTTCACTGAATCTTTCAGGTT TGAATTCCTTCGCGTCTTCACCCCATAATTCCTTGTTATAATGTACTAAGATTGCGGGTATAAC GAGTAGTACTTCAGCTGGCAGACTCAGCTCACCCAATTTGACTTCATCTTTGTTCCTTCTACCA TATATCGGTGCTGGGGGGAACAACCTTAACGTCTCGTACAAGATCATTGTCACCTAAGGAAAAC AAACATGTATTGCATAAGTTGACAGTAGAATTATTTCACTTATGAGAAATTCTGAAAACTACTT ACAATTTTGAGACGACTTAGTCCTTCAAAATCTGGTTTTTCATTTCCGAATACATTCAAAACCT CCTCTCTTGCACGTACTTGCCACTCTGGATGTAGGCATAGTAATATCGTTGTCCATACGAGCAA CACTGAAGTGGTATCTTGTCCAGCAAAATAGAATAACTTGCACTCTTCAATCACTTCTATTGTT GTCAATCCGAAATCTTTGCTTCCGTGTTGTTCAATTTCTTTCGTATTGGATTCAAGTAATATGC CTAATAAATCTTCATTATTAGTCTCCCCTGCTTGCATCGCCATCAATCTTTTGTCAATGATACG CCTAATTGTCGTTTGAATTTCCTTTTCGATTTCCAGCATTCTTTTCTTCTTCTTACTAGGCAAG AACCTTATAACAAAAATCCAAGTAAATTCTCTATGCTATGAAGTAGAAATTTGATCAAATACTT TAAAATTGTACGTACCTCGATCCTGGTATATAAATCGAAAAAACTTGTTCCATTACATACTCAG CTTGTTCTTTTTGCAGTTCAAATACTTTTCTTCCTTCTTCATAACTACTCCCAAATGCAATTCG AGAAATGACTTCACCTATCATTAGTTGAAAATGTGGCCATACATCGAGCTCGACTGATGTTTCC TTTGGAACAGCCTCCTCCCATTTGCTTAGCATTTCACTACAACTCTGATAAAATGCTAGAACCA TATGCTGTTACTTAGACAGGTTAATCACTCATGATCACTATACTAGCTATACGCAAAAAGAAAA AAATAGTAATATGTATAACCTTTAGTTTCTCAAAATGGAAGGCGGGATTGATGATTTTTCTATA TTTAGCCCATTTCTGTTCCTCAAGGGTAACGAGACCTCGAACCAATAACTTCGCGAATGGATTA GAATGCTTATTCTTGTTATACACATAATGTTTTTCAAAAATTATCTTTATAAGTGAAGGTTCTG TGATGAATACTATAGGCTTGGGGCCTAGCCAGGCAAAAGAATTTTTACCTGCAGAGTATTTATC AGTTTTGTGTTAGTAAAAAAAGCAAAGCTTATACTAAAATAGATTGTAAGTGATATATCGCCTA CGGGTTCAACAAAACTAGTACTAGTTTTAGTTCAAACTCTATATCAGACTCAGCTCACCCAATT TGACTTCATCTTTGTTCCTTCTACCATATATCGGTGCTGGGGGGAACAACCTTAACGTCTCGTA CAAGATCATTGTCACCTAAGGAAAACAAACATGTATTGCATAAGTTGACAGTAGAATTATTTCA CTTATGAGAAATTCTGAAAACTACTTACAATTTTGAGACGACTTAGTCCTTCAAAATCTGGTTT TTCATTTCCGAATACATTCAAAACCTCCTCTCTTGCACGTACTTGCCACTCTGGATGTAGGCAT AGTAATATCGTTGTCCATACGAGCAACACTGAAGTGGTATCTTGTCCAGCAAAATAGAATAACT TGCACTCTTCAATCACTTCTATTGTTGTCAATCCGAAATCTTTGCTTCCGTGTTGTTCAATTTC TTTCGTATTGGATTCAAGTAATATGCCTAATAAATCTTCATTATTAGTCTCCCCTGCTTGCATC GCCATCAATCTTTTGTCAATGATACACCTAATTGTCGTTTGAATTTCCTTTTCGATTTCCAGCA TTCTTTTCTTCTTCTTACTAGGCAAGAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.128385883

Conservation Information
Conserved circRNAs	NA
PMCS	0.128385883

			
						 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 PGSC0003DMG400038806_circ_ig.1

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