Plant Circular RNA Database

Detail information of AT5G05980_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT5G05980_circ_g.3
					
						ID in PlantcircBase
						ath_circ_036636
					
						Alias
						5:1800994-1804204
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 1800994-1804204  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G05980						
					
						Parent gene annotation
						
							Folylpolyglutamate synthase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G05980_circ_g.1 AT5G05980_circ_g.2 AT5G05980_circ_g.4 AT5G05980_circ_g.5 AT5G05980_circ_g.6 AT5G05980_circ_g.7 AT5G05980_circ_g.8 AT5G05980_circ_g.9 						
					
						Support reads
						2/1
					
						Tissues
						root;flower
					
						Exon boundary  
						
							Yes-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  
						
							CT-AC							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
						AT5G05980.2:11
AT5G05980.1:11

General Information
CircRNA Name	AT5G05980_circ_g.3
ID in PlantcircBase	ath_circ_036636
Alias	5:1800994-1804204
Organism	Arabidpsis thaliana
Position	chr5: 1800994-1804204 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G05980
Parent gene annotation	Folylpolyglutamate synthase
Parent gene strand	-
Alternative splicing	AT5G05980_circ_g.1 AT5G05980_circ_g.2 AT5G05980_circ_g.4 AT5G05980_circ_g.5 AT5G05980_circ_g.6 AT5G05980_circ_g.7 AT5G05980_circ_g.8 AT5G05980_circ_g.9
Support reads	2/1
Tissues	root;flower
Exon boundary	Yes-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	CT-AC 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	AT5G05980.2:11 AT5G05980.1:11

			
						 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  
						
							GATTACTGTTATCATCAAGTGAGGAAGAGCTAGAGAAGAATAAGAAAATCAATAACAAACCTTG
AGCTGCCATGTCGATCTGCTTTCTTAACGAATGAATcatctgagtccgactcggaacttctagt
ttaccaatttgctgaagccagatagaggcaagcgaaactgctagaccagcattgacatattggt
gttcccca

									
								

					

						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
						
							CATCTGAGTCCGACTCGGAACTTCTAGTTTACCAATTTGCTGAAGCCAGATAGAGGCAAGCGAA
ACTGCTAGACCAGCATTGACATATTGGTGTTCCCCATCAAGCCCAAGTTTCTGACCACTTAACA
GCCTTGCGGTTAGTGGCTGCACCACTTCGAGATTCACCTGTCAATATGATGTTAAAGCTTCTCA
AAAACACTTACCTACTTTCAAGATCTGTCAATAGAATGTTGAATCATCTCCGCAAAAGCACCCA
CTCTTACTTTCACAGATCAAAAAAGCTAGAATGGGACTATAACTAATGCACATATTTGTGGACA
CATTGATTTCTCATTATTTACCGTAAAAGAATGGTAGATCTAAAGCACTACAATCAACCACGCA
GGACATAAACAGAAACTATATATATGTACATACATTGTCTACCAAATTTAATGACCATAGTGCT
CATTAATTAAAATTGAGCGTACTTCTGTTTCGGAAGCTTTCTCTTCAAGGACACGCATGGCTTC
ATCAGGTTGGGGCACTGTGAAAGCTGGAACTCCAAGCTGAAATATGAACAATGAAGATGAGGCA
ACTATGGAGAATATTGCTAAGTTACAATTTAACAGAGTTATAGCCACCTTGAAAATTCCAGCCT
TCTCACCAGCAATTTTTCCAAGTGTATCACCTGTGATGCATTCCACAGATAAGAAAGAAATTAT
AAAAACGAAATGTAACTCAAAATATGTCTGCTCATTTAATGCAAGCATAGACTTCATGCTTTAA
AGTTCTGATATGAAAAAAAAAGAGTAGAGGCATGGACAATATTCGTATGGCATGCTGAGAAGAT
TCCAGTTACAAACCTAGAATTTCCATGTGGTCATATCCGAGTGAAGAAATACCACATACCACAG
GTTTCTGAACCTGTAACAAGTCAGTAGTAAATCACCATGAGAACTTAATTAGGCACAAGAAGCT
CTACTTACACCCGTCCTGAAAGTTATTCATATTTTAGTAATTGGAGTCTTTTGAGGATATTACT
ATACTTCAGTATACGATTAGTTAAGGATTTGGGTTCCGATCTTATCTAAGGTTTTCATATAACT
TTCCTCTTTCGTAATTCAGGATGTTAGGTAAAGGGATATGTTCAGACAAAAGCATTTCAGCTGA
AAAAAGGTCAAACATACCGCATTGGTGGCATCAAACTTTCCACCTAATCCAACCTCCAATATAG
CAGCATCTACCTGCATAAAGAAGCAAAAAGCAGAACCCCTTATATCAATAAAGAGAACATGATG
TTAGTTTATCTATCATGTCACTGAGTAAGAAAAATAGTCAGCCAAGGTAAAGACTGGTATCAAA
CCTCTTCTGCAGCAAATATTTTAAAAGCTAGCAATGCAAGGAAGCGGAAATATGTAGGCATTGG
TATCTCCTCGTTAGTTCTCTCCTGCAAATCAAATAGTCGGCAACCTTGTATTTTGAGTAAAAAA
CTAAAGCATGTATCTTAATTTGCAACTATGCACACCATTGTAAATTCTTATGAGTTCATATCAT
GAAATACTCAGACCGCAAAACAAAAGGTGACTTCAACAAGATACAGGGAAGACACTATACATGA
GCTCTACCGCATCACCACCCCCTCGATGAAAATAGTTCCAATAATACAATTTCTCTAAGTACCA
AAACTTCAGTACTGAACACCATGGTTTTAAGCTAAAATGGAAAAACAAAATAAGTGTTCATGAA
AAAGGGTGTTTTACATGTTTATCACATTCTATATGGCTTTCATCACTAAGATTCCAAGTTTACA
GAACGTTACTAACAACTAGTCTACTAGTCAATCGAGATAACCAAACTACAGATATTGAGTTCAA
AACAAATGAATCAAATAGCTGAACCTTCTTTTCTCACGAACATACCTTGAGCCTGTTATAGCAC
CACCAGAAATATCCCAAAAATTTCTCTTCACTTATGTCCACACTGCAGCAATAAATAGAACATA
TCAGATTAAGCGAATATAAGCATTTCTCAGTAAAGAAGAGTGAAAAACAGGATTATGCTAGCGA
AGTATTGTTGGTTCCTGATTATATGAGGGCCGGTAACTATATATTTATTTTCTCAAAATTTTCA
GCAAACTTAGAAAAACTTACCCATCCAAACGAAATCTTTCCCGGACATCAATGAGGTGAGGTGA
AGTGAAGAGTCCAGTTCGAAAGCCATAGTTTCGAATAATAGACTCTGTAAAGGTACATGTGGAT
CCCTTCATGCCACATAAGAAACAAAAAGGAATACTGTTAGGTGCTGGATCAGATAGTAATCAGC
CATGCTAACAATGAACCACTTTCATCAAACAAGTTCACTGAAGGTTTGAATCAAAAAGTAAGCA
AGTACTAGTTTCATAACAATTTCCTTTGTGCTATCCCAAATCTACTATCACATAAGTGATATGA
GTCAAGATTAAAGTAGCAACTTTTGCAAAACTGACACTCCATCAGATGAAACCATACGCATCTC
CAAGCATGCAAGGATCTCAAAACCAATGTTCTTCTCGCACTCACTCAAATTGGAAAAAAGCTCA
AGATGACTCAGTCCAGAAACGTATCTCTAATCCCCACAGAGCAAAAACCTTAGGCTTCTTCTGA
CAAAGCAGTCATAAGGACGTAACGGTCACAACTAGTGTAGAAGCTGACACGAATTCAGAAGATA
TCTAACTAACTAACTAAAGTAACAAAACCAACTCCTAATATTGACAATAGATGATTTAGTATCA
TTTATTGAGCTTTACCAGAAAAAGTAAAGTTGTTGTTGTTACCTTGCCTTTGGTACCAGCGACA
TGAATAACATTCATCTTTAAAATGTCTTCTTCCAGGTCAAGTAGCTGCCAAATTAATTACAAGA
AGCGTATTCAATCAGAAAATAAAACAAAAGGTGCAATAAATATTCAAAACTCTACGAGAATCCA
ATCGAAAAGAGAAACCTTGAGATAATCAAAGACTAACTCAAAGCGATCCCCTTTATTGCTCTTA
TCAGCACGACTTCGTTTCGTGATCAAAGACGACAAAGCAGCCAACGCTTCCTCATATGAATCAC
CTCCTGTCACCAACAAAAACAAACAAGTGAACTCGATTCGATTACTGTTATCATCAAGTGAGGA
AGAGCTAGAGAAGAATAAGAAAATCAATAACAAACCTTGAGCTGCCATGTCGATCTGCTTTCTT
AACGAATGAAT
						
					

			
		

Sequences
Splice junction sequence	GATTACTGTTATCATCAAGTGAGGAAGAGCTAGAGAAGAATAAGAAAATCAATAACAAACCTTG AGCTGCCATGTCGATCTGCTTTCTTAACGAATGAATcatctgagtccgactcggaacttctagt ttaccaatttgctgaagccagatagaggcaagcgaaactgctagaccagcattgacatattggt gttcccca
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	CATCTGAGTCCGACTCGGAACTTCTAGTTTACCAATTTGCTGAAGCCAGATAGAGGCAAGCGAA ACTGCTAGACCAGCATTGACATATTGGTGTTCCCCATCAAGCCCAAGTTTCTGACCACTTAACA GCCTTGCGGTTAGTGGCTGCACCACTTCGAGATTCACCTGTCAATATGATGTTAAAGCTTCTCA AAAACACTTACCTACTTTCAAGATCTGTCAATAGAATGTTGAATCATCTCCGCAAAAGCACCCA CTCTTACTTTCACAGATCAAAAAAGCTAGAATGGGACTATAACTAATGCACATATTTGTGGACA CATTGATTTCTCATTATTTACCGTAAAAGAATGGTAGATCTAAAGCACTACAATCAACCACGCA GGACATAAACAGAAACTATATATATGTACATACATTGTCTACCAAATTTAATGACCATAGTGCT CATTAATTAAAATTGAGCGTACTTCTGTTTCGGAAGCTTTCTCTTCAAGGACACGCATGGCTTC ATCAGGTTGGGGCACTGTGAAAGCTGGAACTCCAAGCTGAAATATGAACAATGAAGATGAGGCA ACTATGGAGAATATTGCTAAGTTACAATTTAACAGAGTTATAGCCACCTTGAAAATTCCAGCCT TCTCACCAGCAATTTTTCCAAGTGTATCACCTGTGATGCATTCCACAGATAAGAAAGAAATTAT AAAAACGAAATGTAACTCAAAATATGTCTGCTCATTTAATGCAAGCATAGACTTCATGCTTTAA AGTTCTGATATGAAAAAAAAAGAGTAGAGGCATGGACAATATTCGTATGGCATGCTGAGAAGAT TCCAGTTACAAACCTAGAATTTCCATGTGGTCATATCCGAGTGAAGAAATACCACATACCACAG GTTTCTGAACCTGTAACAAGTCAGTAGTAAATCACCATGAGAACTTAATTAGGCACAAGAAGCT CTACTTACACCCGTCCTGAAAGTTATTCATATTTTAGTAATTGGAGTCTTTTGAGGATATTACT ATACTTCAGTATACGATTAGTTAAGGATTTGGGTTCCGATCTTATCTAAGGTTTTCATATAACT TTCCTCTTTCGTAATTCAGGATGTTAGGTAAAGGGATATGTTCAGACAAAAGCATTTCAGCTGA AAAAAGGTCAAACATACCGCATTGGTGGCATCAAACTTTCCACCTAATCCAACCTCCAATATAG CAGCATCTACCTGCATAAAGAAGCAAAAAGCAGAACCCCTTATATCAATAAAGAGAACATGATG TTAGTTTATCTATCATGTCACTGAGTAAGAAAAATAGTCAGCCAAGGTAAAGACTGGTATCAAA CCTCTTCTGCAGCAAATATTTTAAAAGCTAGCAATGCAAGGAAGCGGAAATATGTAGGCATTGG TATCTCCTCGTTAGTTCTCTCCTGCAAATCAAATAGTCGGCAACCTTGTATTTTGAGTAAAAAA CTAAAGCATGTATCTTAATTTGCAACTATGCACACCATTGTAAATTCTTATGAGTTCATATCAT GAAATACTCAGACCGCAAAACAAAAGGTGACTTCAACAAGATACAGGGAAGACACTATACATGA GCTCTACCGCATCACCACCCCCTCGATGAAAATAGTTCCAATAATACAATTTCTCTAAGTACCA AAACTTCAGTACTGAACACCATGGTTTTAAGCTAAAATGGAAAAACAAAATAAGTGTTCATGAA AAAGGGTGTTTTACATGTTTATCACATTCTATATGGCTTTCATCACTAAGATTCCAAGTTTACA GAACGTTACTAACAACTAGTCTACTAGTCAATCGAGATAACCAAACTACAGATATTGAGTTCAA AACAAATGAATCAAATAGCTGAACCTTCTTTTCTCACGAACATACCTTGAGCCTGTTATAGCAC CACCAGAAATATCCCAAAAATTTCTCTTCACTTATGTCCACACTGCAGCAATAAATAGAACATA TCAGATTAAGCGAATATAAGCATTTCTCAGTAAAGAAGAGTGAAAAACAGGATTATGCTAGCGA AGTATTGTTGGTTCCTGATTATATGAGGGCCGGTAACTATATATTTATTTTCTCAAAATTTTCA GCAAACTTAGAAAAACTTACCCATCCAAACGAAATCTTTCCCGGACATCAATGAGGTGAGGTGA AGTGAAGAGTCCAGTTCGAAAGCCATAGTTTCGAATAATAGACTCTGTAAAGGTACATGTGGAT CCCTTCATGCCACATAAGAAACAAAAAGGAATACTGTTAGGTGCTGGATCAGATAGTAATCAGC CATGCTAACAATGAACCACTTTCATCAAACAAGTTCACTGAAGGTTTGAATCAAAAAGTAAGCA AGTACTAGTTTCATAACAATTTCCTTTGTGCTATCCCAAATCTACTATCACATAAGTGATATGA GTCAAGATTAAAGTAGCAACTTTTGCAAAACTGACACTCCATCAGATGAAACCATACGCATCTC CAAGCATGCAAGGATCTCAAAACCAATGTTCTTCTCGCACTCACTCAAATTGGAAAAAAGCTCA AGATGACTCAGTCCAGAAACGTATCTCTAATCCCCACAGAGCAAAAACCTTAGGCTTCTTCTGA CAAAGCAGTCATAAGGACGTAACGGTCACAACTAGTGTAGAAGCTGACACGAATTCAGAAGATA TCTAACTAACTAACTAAAGTAACAAAACCAACTCCTAATATTGACAATAGATGATTTAGTATCA TTTATTGAGCTTTACCAGAAAAAGTAAAGTTGTTGTTGTTACCTTGCCTTTGGTACCAGCGACA TGAATAACATTCATCTTTAAAATGTCTTCTTCCAGGTCAAGTAGCTGCCAAATTAATTACAAGA AGCGTATTCAATCAGAAAATAAAACAAAAGGTGCAATAAATATTCAAAACTCTACGAGAATCCA ATCGAAAAGAGAAACCTTGAGATAATCAAAGACTAACTCAAAGCGATCCCCTTTATTGCTCTTA TCAGCACGACTTCGTTTCGTGATCAAAGACGACAAAGCAGCCAACGCTTCCTCATATGAATCAC CTCCTGTCACCAACAAAAACAAACAAGTGAACTCGATTCGATTACTGTTATCATCAAGTGAGGA AGAGCTAGAGAAGAATAAGAAAATCAATAACAAACCTTGAGCTGCCATGTCGATCTGCTTTCTT AACGAATGAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.103055948

Conservation Information
Conserved circRNAs	NA
PMCS	0.103055948

			
						 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
						Philips et al., 2020

circRNA

Detail information of AT5G05980_circ_g.3

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