Plant Circular RNA Database

Detail information of PGSC0003DMG400017307_circ_igg.1

			
						 General Information
					
						CircRNA Name
						PGSC0003DMG400017307_circ_igg.1
					
						ID in PlantcircBase
						stu_circ_000955
					
						Alias
						chr07:51299487|51302768
					
						Organism
						
							Solanum tuberosum						
					
						Position
						
							chr7: 51299488-51302768  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
						
							PGSC0003DMG400017306_circ_ig.1 PGSC0003DMG400017307_circ_igg.2 PGSC0003DMG400017307_circ_igg.3 PGSC0003DMG400017307_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  
						
							GT-GC							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	PGSC0003DMG400017307_circ_igg.1
ID in PlantcircBase	stu_circ_000955
Alias	chr07:51299487\|51302768
Organism	Solanum tuberosum
Position	chr7: 51299488-51302768 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	PGSC0003DMG400017306_circ_ig.1 PGSC0003DMG400017307_circ_igg.2 PGSC0003DMG400017307_circ_igg.3 PGSC0003DMG400017307_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	GT-GC 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  
						
							TTTCTCAGCATTTCAAATATTCCTCCTCTTTTACACTCTCTGCCTACTCAATTATACTCCTAAC
CAAACTTTAATTCCCCATCAAACAAACAAAATGAAGaaaaggttgttattagactatctttgaa
tggaaacgatcagaaatgtcgaaccaaggccttcaagattgctgtttctcaatcaggtaatttc
aatcaatc

									
								

					

						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
						
							AAAAGGTTGTTATTAGACTATCTTTGAATGGAAACGATCAGAAATGTCGAACCAAGGCCTTCAA
GATTGCTGTTTCTCAATCAGGTAATTTCAATCAATCGTGTCGAATAAAGTCTCATATTGATAAT
AATTATAAATAAAAAAATCGTGCGAATTTGACTCATATTGTTATTTTTTTTTTTTTACTTAGGT
GTGGAATCAGCAGCTATAACAGGGGACGGAAAGAATCAACTAGAAGTTGTGGGAGAAGTGGACG
CAGTGGCTCTAATGATGTTATTGAGGAAGAATTTGGGTCAGGCTGACTTGGTGAGCGTTGGCCC
GGCTGGTGGCGATAAAAAGCCCGCAGCTGCAGCTCCAGCTCCGGCTGCAGCTACAGCTGCTGCT
GCGGTGGTACAGTCGCAGCCCGGCTCGTATTATTATGCCTATCCGTCTTATCAATACCCTGTTT
ACCAAGTTACAGATTCTTATGGTCAATCCAATTGCTCCATTATGTGAAACAGAGGGATCCAAGA
TATAATAAAAATGTATTTACGGTCAAATATTTATTAATATGTTGATAGATATTAGCGAGTTTGA
GCAAAAGCTATTGGGTTCATGTGAACCTGAGCGATACAAAAAAATGATACTGGAAGGTCAAAAC
AGAGTATCATTTTAAGTTTTTTTTTGTTCGTTCAGAGAGCTTAATGGACTATCTAGTAGATGAA
GAGTTTTGGTTTCCATCTTTGTAAATCCGTTTCAAGTAATAAAATATTTGAATTTTGTAGTGAA
TGATTCAAGTGATTAACTATGTGACGTATACAAAAAAATTAATTAACTGGAAAATATTTTCCTT
AATGTCAAATGGATAGGAGACAAAAAGATAAGAGTAATATGTTTATGCTCATATATTTCCCTAA
TTTTTGAGTAGTTTATAAATTTAGAAATTAGAAAAAACAATCTAGAATTTAATTTGTTATTATG
TTTGTTAAAACTCTTTCAAAATTGGTAGATGATATGCACACTATTTATAATCCACAAGCGAAAT
TAACATAGAATTAATGTAAGTGGAATTTCTTGCTCTAAAAACTAAAACTAATCTCTAGTTTTAT
CAAAAGAAAATTGATAAAGTAGCAACATAATTAACACAATTATAGTTTGATATGGCATTATGTA
CCTGATATGAAGTCGTCTTTATTAGAAAACATTTTATTTCCTAATTTGAGATCTTCCAGTACGA
ATAAAGATTTAGTAGAGTTTCAATACGAATATCAAACACCGAATAGAAAACTAAAGAAAGACAA
AGTGTGATTTTAAACAAAAGAGGGTACGCTGGTTGGGGACCAGAACTAGAAGTGTTGTGTCTTA
ACTAACATAACAAGTTTCGTAATACACTCCAAAACCTTCTTATAATGGTCATTATAATGTTATT
AACTTATTTTTTATGATATAGAACTTAAAAAAAATAAAATTTAACCCACTTTTATAATATAGAA
CTTTTTAAAAAAAATTAGTCACGGACATTATCACTTATTTATTGTTAAATTGTTCGTAGATAAA
TACTTTTTAATAAAATATTGTTAATTTATTGCTAAATAGAATTAGCGGTAAATTTTATTATTCA
GCTATCAAATTTAACCGTCTCTAATTCATTTTTTTTTTTAAGTAGTGAGTAGCCTCCCTTGTTG
CTTAGTGCCTTTGTCTTTCCAATATCATTAATAGAGCTCGATTGTGACAAGATATTTTTGTCAA
TACTTAGCAGAATAATGTAGCAAAAAGTCTATCTATAGATGTACGTCCAAGAAACTTAAATGAT
TATTAGAAGAAAATATGAAAAATAGAATGAAACGATTGCTATCCTCATTTAATTAGATAGAACA
TTGATATATCTTAGAAATGAAAGCAATATGGATTTAACCACACAAAAAGTAATATATGTCAACA
CAAATAATAGTATCCACATAGGTGGTGGACAACTATCTTCTTATAATTTTTAACAATTCTCATT
CGTAAATTAATTTTTGAAGTTTAATTAAGTTCAATATTAGAGTTAGACTCATCTCAATTTTGTT
TGATACTGGACCCCCAGCTCATATTATTTGTACACTTGATAATCCAATCTATGAGTATAGGGTT
GTTAATATGTAGTTCATAACGATTCATTTTTATTTCTTACTTAATCACGTCTCATTATTTATAA
AGAAATTAGTTATAACAAGAGATAACCGATATTCGACAATTCATTTGTACCCGTTTTTCATGAG
CTATACAATGGTATAAACATGTAGTCCTTACTGCGCCGAAACAAGAAAATTGATGCGCCTTAGT
ACTTGCCAAGCAAGAAAGGGGAAGAAGATGACTTGGTTCGTTTTCTAAATATCCAAATTGTAGG
TTGACTTATTGACTTTTTGGGACCCCAATTATTGGAACCAAATTTAGAGGATATATTACTTCGT
CAATTTAGTTTGTTTTTATTTTATTATTTTAATGGAATTTAAGAAAATAAAATTTAGAACTAAA
AAGTGTCACAAAAGGGATTTTTGAACCGATTTTTAAAGAAAAAGTAAGATAAATAAATTAAAAC
GAAAAAATTACTTGAATTTTGTAATCTATTTGTTTTAATTTATTGTTTTATTTTGACTAGATAT
AGAATTTCAAAAAAATAAAAATAATAATTAATTATTTAATTTTAAACTAAAAATATGTATTAAA
ATATCTTTTGAATCTTCTCATTTAAAACAATGTAAAATGTTCAACTTATAAATATACAAAGAAG
TATTTAAAAAAAAAAACTTAAAAGAAAAAAAATATTAGAATTAATATAAATGGAGTAATAGTTT
TTATCCTAACATATACTCATTCTGTTATAATTTATGTGACACTATTTAATTTGATACAAAATTT
AAGAATGAAAAGAAAAGTCATTTAAAATTATGGTCTAAAGTCTAAACCACTCCTTTAACTATTT
ATGTGTTTATAAATCCATAAGGTAAGTGTGTCACGATAAATTGAGATGGGAGAGTTTATTCAAA
CAACCATTTTATGGCTTCATACAATCAAACCTAGGTCAACCTCATAACGTACGGAGTTTGGCGG
ATGACTGAATCATTCTTCTTCCACACGCGCCTTATTTCAAACAACTATCTTAATATTTTTCTTG
CAAGTCTATAAATACCCAATAATACACAAGTATTTCTCACTGCAATTTCTCAGCATTTCAAATA
TTCCTCCTCTTTTACACTCTCTGCCTACTCAATTATACTCCTAACCAAACTTTAATTCCCCATC
AAACAAACAAAATGAAG
						
					

			
		

Sequences
Splice junction sequence	TTTCTCAGCATTTCAAATATTCCTCCTCTTTTACACTCTCTGCCTACTCAATTATACTCCTAAC CAAACTTTAATTCCCCATCAAACAAACAAAATGAAGaaaaggttgttattagactatctttgaa tggaaacgatcagaaatgtcgaaccaaggccttcaagattgctgtttctcaatcaggtaatttc aatcaatc
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	AAAAGGTTGTTATTAGACTATCTTTGAATGGAAACGATCAGAAATGTCGAACCAAGGCCTTCAA GATTGCTGTTTCTCAATCAGGTAATTTCAATCAATCGTGTCGAATAAAGTCTCATATTGATAAT AATTATAAATAAAAAAATCGTGCGAATTTGACTCATATTGTTATTTTTTTTTTTTTACTTAGGT GTGGAATCAGCAGCTATAACAGGGGACGGAAAGAATCAACTAGAAGTTGTGGGAGAAGTGGACG CAGTGGCTCTAATGATGTTATTGAGGAAGAATTTGGGTCAGGCTGACTTGGTGAGCGTTGGCCC GGCTGGTGGCGATAAAAAGCCCGCAGCTGCAGCTCCAGCTCCGGCTGCAGCTACAGCTGCTGCT GCGGTGGTACAGTCGCAGCCCGGCTCGTATTATTATGCCTATCCGTCTTATCAATACCCTGTTT ACCAAGTTACAGATTCTTATGGTCAATCCAATTGCTCCATTATGTGAAACAGAGGGATCCAAGA TATAATAAAAATGTATTTACGGTCAAATATTTATTAATATGTTGATAGATATTAGCGAGTTTGA GCAAAAGCTATTGGGTTCATGTGAACCTGAGCGATACAAAAAAATGATACTGGAAGGTCAAAAC AGAGTATCATTTTAAGTTTTTTTTTGTTCGTTCAGAGAGCTTAATGGACTATCTAGTAGATGAA GAGTTTTGGTTTCCATCTTTGTAAATCCGTTTCAAGTAATAAAATATTTGAATTTTGTAGTGAA TGATTCAAGTGATTAACTATGTGACGTATACAAAAAAATTAATTAACTGGAAAATATTTTCCTT AATGTCAAATGGATAGGAGACAAAAAGATAAGAGTAATATGTTTATGCTCATATATTTCCCTAA TTTTTGAGTAGTTTATAAATTTAGAAATTAGAAAAAACAATCTAGAATTTAATTTGTTATTATG TTTGTTAAAACTCTTTCAAAATTGGTAGATGATATGCACACTATTTATAATCCACAAGCGAAAT TAACATAGAATTAATGTAAGTGGAATTTCTTGCTCTAAAAACTAAAACTAATCTCTAGTTTTAT CAAAAGAAAATTGATAAAGTAGCAACATAATTAACACAATTATAGTTTGATATGGCATTATGTA CCTGATATGAAGTCGTCTTTATTAGAAAACATTTTATTTCCTAATTTGAGATCTTCCAGTACGA ATAAAGATTTAGTAGAGTTTCAATACGAATATCAAACACCGAATAGAAAACTAAAGAAAGACAA AGTGTGATTTTAAACAAAAGAGGGTACGCTGGTTGGGGACCAGAACTAGAAGTGTTGTGTCTTA ACTAACATAACAAGTTTCGTAATACACTCCAAAACCTTCTTATAATGGTCATTATAATGTTATT AACTTATTTTTTATGATATAGAACTTAAAAAAAATAAAATTTAACCCACTTTTATAATATAGAA CTTTTTAAAAAAAATTAGTCACGGACATTATCACTTATTTATTGTTAAATTGTTCGTAGATAAA TACTTTTTAATAAAATATTGTTAATTTATTGCTAAATAGAATTAGCGGTAAATTTTATTATTCA GCTATCAAATTTAACCGTCTCTAATTCATTTTTTTTTTTAAGTAGTGAGTAGCCTCCCTTGTTG CTTAGTGCCTTTGTCTTTCCAATATCATTAATAGAGCTCGATTGTGACAAGATATTTTTGTCAA TACTTAGCAGAATAATGTAGCAAAAAGTCTATCTATAGATGTACGTCCAAGAAACTTAAATGAT TATTAGAAGAAAATATGAAAAATAGAATGAAACGATTGCTATCCTCATTTAATTAGATAGAACA TTGATATATCTTAGAAATGAAAGCAATATGGATTTAACCACACAAAAAGTAATATATGTCAACA CAAATAATAGTATCCACATAGGTGGTGGACAACTATCTTCTTATAATTTTTAACAATTCTCATT CGTAAATTAATTTTTGAAGTTTAATTAAGTTCAATATTAGAGTTAGACTCATCTCAATTTTGTT TGATACTGGACCCCCAGCTCATATTATTTGTACACTTGATAATCCAATCTATGAGTATAGGGTT GTTAATATGTAGTTCATAACGATTCATTTTTATTTCTTACTTAATCACGTCTCATTATTTATAA AGAAATTAGTTATAACAAGAGATAACCGATATTCGACAATTCATTTGTACCCGTTTTTCATGAG CTATACAATGGTATAAACATGTAGTCCTTACTGCGCCGAAACAAGAAAATTGATGCGCCTTAGT ACTTGCCAAGCAAGAAAGGGGAAGAAGATGACTTGGTTCGTTTTCTAAATATCCAAATTGTAGG TTGACTTATTGACTTTTTGGGACCCCAATTATTGGAACCAAATTTAGAGGATATATTACTTCGT CAATTTAGTTTGTTTTTATTTTATTATTTTAATGGAATTTAAGAAAATAAAATTTAGAACTAAA AAGTGTCACAAAAGGGATTTTTGAACCGATTTTTAAAGAAAAAGTAAGATAAATAAATTAAAAC GAAAAAATTACTTGAATTTTGTAATCTATTTGTTTTAATTTATTGTTTTATTTTGACTAGATAT AGAATTTCAAAAAAATAAAAATAATAATTAATTATTTAATTTTAAACTAAAAATATGTATTAAA ATATCTTTTGAATCTTCTCATTTAAAACAATGTAAAATGTTCAACTTATAAATATACAAAGAAG TATTTAAAAAAAAAAACTTAAAAGAAAAAAAATATTAGAATTAATATAAATGGAGTAATAGTTT TTATCCTAACATATACTCATTCTGTTATAATTTATGTGACACTATTTAATTTGATACAAAATTT AAGAATGAAAAGAAAAGTCATTTAAAATTATGGTCTAAAGTCTAAACCACTCCTTTAACTATTT ATGTGTTTATAAATCCATAAGGTAAGTGTGTCACGATAAATTGAGATGGGAGAGTTTATTCAAA CAACCATTTTATGGCTTCATACAATCAAACCTAGGTCAACCTCATAACGTACGGAGTTTGGCGG ATGACTGAATCATTCTTCTTCCACACGCGCCTTATTTCAAACAACTATCTTAATATTTTTCTTG CAAGTCTATAAATACCCAATAATACACAAGTATTTCTCACTGCAATTTCTCAGCATTTCAAATA TTCCTCCTCTTTTACACTCTCTGCCTACTCAATTATACTCCTAACCAAACTTTAATTCCCCATC AAACAAACAAAATGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.110021282

Conservation Information
Conserved circRNAs	NA
PMCS	0.110021282

			
						 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 PGSC0003DMG400017307_circ_igg.1

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