Plant Circular RNA Database

Detail information of 3_circ_igg.3

			
						 General Information
					
						CircRNA Name
						3_circ_igg.3
					
						ID in PlantcircBase
						ath_circ_026483
					
						Alias
						At_ciR402
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 17732972-17742518  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						CIRI, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							AT3G48040_circ_g.1 AT3G48040_circ_g.2 3_circ_igg.4 AT3G48050_circ_g.1 3_circ_ag.2 3_circ_ag.3 						
					
						Support reads
						6/30
					
						Tissues
						leaf/root, aerial, inflorescences, whole_plant
					
						Exon boundary  
						
							Yes-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-AG							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	3_circ_igg.3
ID in PlantcircBase	ath_circ_026483
Alias	At_ciR402
Organism	Arabidpsis thaliana
Position	chr3: 17732972-17742518 JBrowse»
Reference genome	TAIR10.38
Type	igg-circRNA
Identification method	CIRI, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	AT3G48040_circ_g.1 AT3G48040_circ_g.2 3_circ_igg.4 AT3G48050_circ_g.1 3_circ_ag.2 3_circ_ag.3
Support reads	6/30
Tissues	leaf/root, aerial, inflorescences, whole_plant
Exon boundary	Yes-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-AG 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  
						
							CGTTGGAAATTCATTCATGTTTCATGTGTGATAGGGAGAGGAACTCCGCAAGCATATCGGAGCG
ACTTATTACATTGAATGTAGCTCAAAAACTCAACAGaatgtgaaagccgtatttgatgctgcta
ttaaagtagtaattaaaccagcagtgaaacaaaaggagaagaagaagaagcagaagcctcgcag
cggatgtc

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 1068
Transcript exons: 17732972-17733075,17733217-17733396,17738467-17738603,17
738689-17739063,17739274-17739497,17742471-17742518
AATGTGAAAGCCGTATTTGATGCTGCTATTAAAGTAGTAATTAAACCAGCAGTGAAACAAAAGG
AGAAGAAGAAGAAGCAGAAGCCTCGCAGCGGATGTCTCTCAAACATTCTGTGTGGGAAGAATTG
ATGAGTCAATTCCATCTGATGATTGTTCACTTCTTTTTTTTTCTTTTCTTTTCTAATTGGCCAG
TTTGTGATTCTGATAAGTCGGAATTACATAGACTCTGGCAGAGATGAGCCTCAATTAGTAGCTT
CTTCGATTCTGTTTGTATATGTGACCCTGTTCTGGATGCCATCTTTCGGTTGTGATGTTGTTGG
ACTATTCATGGACTTGGGAGACCGACCACCCTGCTGTAATGTTGTATGCATTTCTGAACGAGTC
TTACACAATAACTTGTCTACTTCTAGTTGTCGATCCTCATCAATATAGTCTTGATCAGTCAGCC
ACCATAAGCGCTCGTTTGTAACGTCGTAAACTCGCCGACACACAAACGAGCTGATACCAGATGG
CAGTTCAACACCTCTTGGAAGGAAGGCAACTTTACACGGATGCAGTAAAGATGCAGCAGGTATA
TTATCCTCGTGAAAGGAGTAAAAGAGTTCGTTCGGCTCAGCCTCTAGAAGGATGCCTTTGCCAA
GTTTTAATTCAGTGGGTCGATAAAGCCAATTAACACCCAACTTCAACTTATCTTCTTCCTCAGC
AATGATCAAGCGAATTATCCCAATGAACGGTGGACAATCCTGTGGTGGCTTAAACAGAGCACAG
TCACCAACACTAATTTTGCGCCCGTCCTCCTTAGAAAACGAGGTAGATGAAGATAAGGACAAAC
AAGAAGAACCACCACCTTCCACAGTCGCAATTACACGAGAGGAAGATATCAACATGTGCCGACG
ACGACTTTTGTGTCTCCGCTCACAAACCCTCCCATGCATAGCCTTCTATCATCTTCTCCTTCGA
ACAACATCAATATCCTCAGCAAAATCCAACAAATCCTCAAAATTCCTTTTTCCCCCTGACCATA
TCGGAGCGACTTATTACATTGAATGTAGCTCAAAAACTCAACAG
Transcript length: 985
Transcript exons: 17732972-17733075,17733217-17733396,17738467-17738603,17
738689-17738852,17738873-17738998,17739274-17739472,1774
2444-17742518
AATGTGAAAGCCGTATTTGATGCTGCTATTAAAGTAGTAATTAAACCAGCAGTGAAACAAAAGG
AGAAGAAGAAGAAGCAGAAGCCTCGCAGCGGATGTCTCTCAAACATTCTGTGTGGGAAGAATTG
ATGAGTCAATTCCATCTGATGATTGTTCACTTCTTTTTTTTTCTTTTCTTTTCTAATTGGCCAG
TTTGTGATTCTGATAAGTCGGAATTACATAGACTCTGGCAGAGATGAGCCTCAATTAGTAGCTT
CTTCGATTCTGTTTGTATATGTGACCCTGTTCTGGATGCCATCTTTCGGTTGTGATGTTGTTGG
ACTATTCATGGACTTGGGAGACCGACCACCCTGCTGTAATGTTGTATGCATTTCTGAACGAGTC
TTACACAATAACTTGTCTACTTCTAGTTGTCGATCCTCATCAATATAGTCTTGATCAGTCAGCC
ACCATAAGCGCTCGTTTGTAACGTCGTAAACTCGCCGACACACAAACGAGCTGATACCAGATGG
CAGTTCAACACCTCTTGGAAGGAAGGCAACTTTACACGGATGCAGTAAAGATGCAGCAGGTATA
TTATCCTCGGTTCGGCTCAGCCTCTAGAAGGATGCCTTTGCCAAGTTTTAATTCAGTGGGTCGA
TAAAGCCAATTAACACCCAACTTCAACTTATCTTCTTCCTCAGCAATGATCAAGCGAATTATCC
CAATGAACCTTAGAAAACGAGGTAGATGAAGATAAGGACAAACAAGAAGAACCACCACCTTCCA
CAGTCGCAATTACACGAGAGGAAGATATCAACATGTGCCGACGACGACTTTTGTGTCTCCGCTC
ACAAACCCTCCCATGCATAGCCTTCTATCATCTTCTCCTTCGAACAACATCAATATCCTCAGCA
AAATCCAACAAATCGTGTGATAGGGAGAGGAACTCCGCAAGCATATCGGAGCGACTTATTACAT
TGAATGTAGCTCAAAAACTCAACAG
Transcript length: 993
Transcript exons: 17732972-17733075,17733217-17733399,17738467-17738603,17
738689-17739004,17739274-17739483,17742476-17742518
AATGTGAAAGCCGTATTTGATGCTGCTATTAAAGTAGTAATTAAACCAGCAGTGAAACAAAAGG
AGAAGAAGAAGAAGCAGAAGCCTCGCAGCGGATGTCTCTCAAACATTCTGTGTGGGAAGAATTG
ATGAGTCAATTCCATCTGATGATTGTTCACTTCTTTTTTTTTCTTTTCTTTTCTAATTGGCCAG
TTTGTGATTCTGATAAGTCGGAATTACATAGACTCTGGCAGAGATGAGCCTCAATTAGTAGCTT
CTTCGATTCTGTTTGTATATGTGACCCTGATGTTCTGGATGCCATCTTTCGGTTGTGATGTTGT
TGGACTATTCATGGACTTGGGAGACCGACCACCCTGCTGTAATGTTGTATGCATTTCTGAACGA
GTCTTACACAATAACTTGTCTACTTCTAGTTGTCGATCCTCATCAATATAGTCTTGATCAGTCA
GCCACCATAAGCGCTCGTTTGTAACGTCGTAAACTCGCCGACACACAAACGAGCTGATACCAGA
TGGCAGTTCAACACCTCTTGGAAGGAAGGCAACTTTACACGGATGCAGTAAAGATGCAGCAGGT
ATATTATCCTCGTGAAAGGAGTAAAAGAGTTCGTTCGGCTCAGCCTCTAGAAGGATGCCTTTGC
CAAGTTTTAATTCAGTGGGTCGATAAAGCCAATTAACACCCAACTTCAACTTATCTTCTTCCTC
AGCAATGATCAAGCGAATTATCCCAATGAACGGTGGCCTTAGAAAACGAGGTAGATGAAGATAA
GGACAAACAAGAAGAACCACCACCTTCCACAGTCGCAATTACACGAGAGGAAGATATCAACATG
TGCCGACGACGACTTTTGTGTCTCCGCTCACAAACCCTCCCATGCATAGCCTTCTATCATCTTC
TCCTTCGAACAACATCAATATCCTCAGCAAAATCCAACAAATCCTCAAAATTCCCGGAGCGACT
TATTACATTGAATGTAGCTCAAAAACTCAACAG
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	CGTTGGAAATTCATTCATGTTTCATGTGTGATAGGGAGAGGAACTCCGCAAGCATATCGGAGCG ACTTATTACATTGAATGTAGCTCAAAAACTCAACAGaatgtgaaagccgtatttgatgctgcta ttaaagtagtaattaaaccagcagtgaaacaaaaggagaagaagaagaagcagaagcctcgcag cggatgtc
Assembled circRNA sequence	Yes 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	Transcript length: 1068 Transcript exons: 17732972-17733075,17733217-17733396,17738467-17738603,17 738689-17739063,17739274-17739497,17742471-17742518 AATGTGAAAGCCGTATTTGATGCTGCTATTAAAGTAGTAATTAAACCAGCAGTGAAACAAAAGG AGAAGAAGAAGAAGCAGAAGCCTCGCAGCGGATGTCTCTCAAACATTCTGTGTGGGAAGAATTG ATGAGTCAATTCCATCTGATGATTGTTCACTTCTTTTTTTTTCTTTTCTTTTCTAATTGGCCAG TTTGTGATTCTGATAAGTCGGAATTACATAGACTCTGGCAGAGATGAGCCTCAATTAGTAGCTT CTTCGATTCTGTTTGTATATGTGACCCTGTTCTGGATGCCATCTTTCGGTTGTGATGTTGTTGG ACTATTCATGGACTTGGGAGACCGACCACCCTGCTGTAATGTTGTATGCATTTCTGAACGAGTC TTACACAATAACTTGTCTACTTCTAGTTGTCGATCCTCATCAATATAGTCTTGATCAGTCAGCC ACCATAAGCGCTCGTTTGTAACGTCGTAAACTCGCCGACACACAAACGAGCTGATACCAGATGG CAGTTCAACACCTCTTGGAAGGAAGGCAACTTTACACGGATGCAGTAAAGATGCAGCAGGTATA TTATCCTCGTGAAAGGAGTAAAAGAGTTCGTTCGGCTCAGCCTCTAGAAGGATGCCTTTGCCAA GTTTTAATTCAGTGGGTCGATAAAGCCAATTAACACCCAACTTCAACTTATCTTCTTCCTCAGC AATGATCAAGCGAATTATCCCAATGAACGGTGGACAATCCTGTGGTGGCTTAAACAGAGCACAG TCACCAACACTAATTTTGCGCCCGTCCTCCTTAGAAAACGAGGTAGATGAAGATAAGGACAAAC AAGAAGAACCACCACCTTCCACAGTCGCAATTACACGAGAGGAAGATATCAACATGTGCCGACG ACGACTTTTGTGTCTCCGCTCACAAACCCTCCCATGCATAGCCTTCTATCATCTTCTCCTTCGA ACAACATCAATATCCTCAGCAAAATCCAACAAATCCTCAAAATTCCTTTTTCCCCCTGACCATA TCGGAGCGACTTATTACATTGAATGTAGCTCAAAAACTCAACAG Transcript length: 985 Transcript exons: 17732972-17733075,17733217-17733396,17738467-17738603,17 738689-17738852,17738873-17738998,17739274-17739472,1774 2444-17742518 AATGTGAAAGCCGTATTTGATGCTGCTATTAAAGTAGTAATTAAACCAGCAGTGAAACAAAAGG AGAAGAAGAAGAAGCAGAAGCCTCGCAGCGGATGTCTCTCAAACATTCTGTGTGGGAAGAATTG ATGAGTCAATTCCATCTGATGATTGTTCACTTCTTTTTTTTTCTTTTCTTTTCTAATTGGCCAG TTTGTGATTCTGATAAGTCGGAATTACATAGACTCTGGCAGAGATGAGCCTCAATTAGTAGCTT CTTCGATTCTGTTTGTATATGTGACCCTGTTCTGGATGCCATCTTTCGGTTGTGATGTTGTTGG ACTATTCATGGACTTGGGAGACCGACCACCCTGCTGTAATGTTGTATGCATTTCTGAACGAGTC TTACACAATAACTTGTCTACTTCTAGTTGTCGATCCTCATCAATATAGTCTTGATCAGTCAGCC ACCATAAGCGCTCGTTTGTAACGTCGTAAACTCGCCGACACACAAACGAGCTGATACCAGATGG CAGTTCAACACCTCTTGGAAGGAAGGCAACTTTACACGGATGCAGTAAAGATGCAGCAGGTATA TTATCCTCGGTTCGGCTCAGCCTCTAGAAGGATGCCTTTGCCAAGTTTTAATTCAGTGGGTCGA TAAAGCCAATTAACACCCAACTTCAACTTATCTTCTTCCTCAGCAATGATCAAGCGAATTATCC CAATGAACCTTAGAAAACGAGGTAGATGAAGATAAGGACAAACAAGAAGAACCACCACCTTCCA CAGTCGCAATTACACGAGAGGAAGATATCAACATGTGCCGACGACGACTTTTGTGTCTCCGCTC ACAAACCCTCCCATGCATAGCCTTCTATCATCTTCTCCTTCGAACAACATCAATATCCTCAGCA AAATCCAACAAATCGTGTGATAGGGAGAGGAACTCCGCAAGCATATCGGAGCGACTTATTACAT TGAATGTAGCTCAAAAACTCAACAG Transcript length: 993 Transcript exons: 17732972-17733075,17733217-17733399,17738467-17738603,17 738689-17739004,17739274-17739483,17742476-17742518 AATGTGAAAGCCGTATTTGATGCTGCTATTAAAGTAGTAATTAAACCAGCAGTGAAACAAAAGG AGAAGAAGAAGAAGCAGAAGCCTCGCAGCGGATGTCTCTCAAACATTCTGTGTGGGAAGAATTG ATGAGTCAATTCCATCTGATGATTGTTCACTTCTTTTTTTTTCTTTTCTTTTCTAATTGGCCAG TTTGTGATTCTGATAAGTCGGAATTACATAGACTCTGGCAGAGATGAGCCTCAATTAGTAGCTT CTTCGATTCTGTTTGTATATGTGACCCTGATGTTCTGGATGCCATCTTTCGGTTGTGATGTTGT TGGACTATTCATGGACTTGGGAGACCGACCACCCTGCTGTAATGTTGTATGCATTTCTGAACGA GTCTTACACAATAACTTGTCTACTTCTAGTTGTCGATCCTCATCAATATAGTCTTGATCAGTCA GCCACCATAAGCGCTCGTTTGTAACGTCGTAAACTCGCCGACACACAAACGAGCTGATACCAGA TGGCAGTTCAACACCTCTTGGAAGGAAGGCAACTTTACACGGATGCAGTAAAGATGCAGCAGGT ATATTATCCTCGTGAAAGGAGTAAAAGAGTTCGTTCGGCTCAGCCTCTAGAAGGATGCCTTTGC CAAGTTTTAATTCAGTGGGTCGATAAAGCCAATTAACACCCAACTTCAACTTATCTTCTTCCTC AGCAATGATCAAGCGAATTATCCCAATGAACGGTGGCCTTAGAAAACGAGGTAGATGAAGATAA GGACAAACAAGAAGAACCACCACCTTCCACAGTCGCAATTACACGAGAGGAAGATATCAACATG TGCCGACGACGACTTTTGTGTCTCCGCTCACAAACCCTCCCATGCATAGCCTTCTATCATCTTC TCCTTCGAACAACATCAATATCCTCAGCAAAATCCAACAAATCCTCAAAATTCCCGGAGCGACT TATTACATTGAATGTAGCTCAAAAACTCAACAG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.475967642

Conservation Information
Conserved circRNAs	NA
PMCS	0.475967642

			
						 Functional Information
					
						Coding potential
						N
					
						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	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of 3_circ_igg.3

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