Plant Circular RNA Database

Detail information of 4_circ_igg.3

			
						 General Information
					
						CircRNA Name
						4_circ_igg.3
					
						ID in PlantcircBase
						ath_circ_030786
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 8027209-8036479  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							4_circ_ag.2 4_circ_ag.3 4_circ_ag.4 AT4G13870_circ_g.1 AT4G13870_circ_g.2 AT4G13885_circ_g.1 4_circ_ag.2 4_circ_ag.3 4_circ_ag.4 4_circ_ag.5 AT4G13930_circ_g.1 AT4G13930_circ_g.2 AT4G13930_circ_g.3 AT4G13930_circ_g.4 						
					
						Support reads
						3
					
						Tissues
						aerial
					
						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-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	4_circ_igg.3
ID in PlantcircBase	ath_circ_030786
Alias	NA
Organism	Arabidpsis thaliana
Position	chr4: 8027209-8036479 JBrowse»
Reference genome	TAIR10.38
Type	igg-circRNA
Identification method	CIRI
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	4_circ_ag.2 4_circ_ag.3 4_circ_ag.4 AT4G13870_circ_g.1 AT4G13870_circ_g.2 AT4G13885_circ_g.1 4_circ_ag.2 4_circ_ag.3 4_circ_ag.4 4_circ_ag.5 AT4G13930_circ_g.1 AT4G13930_circ_g.2 AT4G13930_circ_g.3 AT4G13930_circ_g.4
Support reads	3
Tissues	aerial
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-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  
						
							GAAGGACCAGATTCAATGGGGAACCTTAACCGACTAACCGATATGCTTCTCAAGTTGAACTCGC
TCACCGATATCGACCTTGGTTCTAACCAGTTGAAAGggattaatttgaagatcagttcaactct
cagctttccctcagccacgggcaccttgattttagcatcctgcaatattgttgagttccccaag
tttctaga

									
								

					

						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: 196
Transcript exons: ,8029152-8029215,8036349-8036479
TGCTGCTTTGATAGAGGATGAACCTCCCAGTTCCCAAGCCTGATTCTGTTTGGCTTCAAGAGCT
ACTTGATCTTTCCTATAATGATTTCACCCGTGAAGGACCAGATTCAATGGGGAACCTTAACCGA
CTAACCGATATGCTTCTCAAGTTGAACTCGCTCACCGATATCGACCTTGGTTCTAACCAGTTGA
AAG
Transcript length: 250
Transcript exons: ,8029137-8029215,8036310-8036479
GCTGCGTATTGTAACTGCTGCTTTGATAGAGGATGAACCTCCCAGTTCCCAAGCCTGATTCTGT
TTGGCTTCAAGAGCTGGTTCCTTCTTCACTCGGAAATCTTTCTTATCTCGCTCAACTTGATCTT
TCCTATAATGATTTCACCCGTGAAGGACCAGATTCAATGGGGAACCTTAACCGACTAACCGATA
TGCTTCTCAAGTTGAACTCGCTCACCGATATCGACCTTGGTTCTAACCAGTTGAAAG
Transcript length: 305
Transcript exons: ,8028895-8028951,8029101-8029151,8029153-8029215,8036347
-8036479
AGCTTCCTCCTTTACGTTATGAGCCACTGACAGCATCAGGAAGGTCCTTAAGAACCTACCTGGT
GAAGATGCCATGAAGCATAAGCATCCGTTGCTGCGTATTGTAACGCTGCTTTGATAGAGGATGA
ACCTCCCAGTTCCCAAGCCTGATTCTGTTTGGCTTCAAGAGCTCAACTTGATCTTTCCTATAAT
GATTTCACCCGTGAAGGACCAGATTCAATGGGGAACCTTAACCGACTAACCGATATGCTTCTCA
AGTTGAACTCGCTCACCGATATCGACCTTGGTTCTAACCAGTTGAAAG
Transcript length: 360
Transcript exons: ,8029105-8029215,8032364-8032388,8032460-8032552,8036350
-8036479
GGTGAAGATGCCATGAAGCATAAGCATCCGTTGCTGCGTATTGTAACTGCTGCTTTGATAGAGG
ATGAACCTCCCAGTTCCCAAGCCTGATTCTGTTTGGCTTCAAGAGCTCTCTCGATGTCATCGCC
GGTGTACCTACCGATTCTTACACCTCCGGGAGCAAGAAAACTAGTGTCTCCGAATACCGCATTC
CTGTTCAAAGTAATGTAGCACAATTCACAAACCTTCTCTTGATCTTTCCTATAATGATTTCACC
CGTGAAGGACCAGATTCAATGGGGAACCTTAACCGACTAACCGATATGCTTCTCAAGTTGAACT
CGCTCACCGATATCGACCTTGGTTCTAACCAGTTGAAAG
						
					

						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	GAAGGACCAGATTCAATGGGGAACCTTAACCGACTAACCGATATGCTTCTCAAGTTGAACTCGC TCACCGATATCGACCTTGGTTCTAACCAGTTGAAAGggattaatttgaagatcagttcaactct cagctttccctcagccacgggcaccttgattttagcatcctgcaatattgttgagttccccaag tttctaga
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: 196 Transcript exons: ,8029152-8029215,8036349-8036479 TGCTGCTTTGATAGAGGATGAACCTCCCAGTTCCCAAGCCTGATTCTGTTTGGCTTCAAGAGCT ACTTGATCTTTCCTATAATGATTTCACCCGTGAAGGACCAGATTCAATGGGGAACCTTAACCGA CTAACCGATATGCTTCTCAAGTTGAACTCGCTCACCGATATCGACCTTGGTTCTAACCAGTTGA AAG Transcript length: 250 Transcript exons: ,8029137-8029215,8036310-8036479 GCTGCGTATTGTAACTGCTGCTTTGATAGAGGATGAACCTCCCAGTTCCCAAGCCTGATTCTGT TTGGCTTCAAGAGCTGGTTCCTTCTTCACTCGGAAATCTTTCTTATCTCGCTCAACTTGATCTT TCCTATAATGATTTCACCCGTGAAGGACCAGATTCAATGGGGAACCTTAACCGACTAACCGATA TGCTTCTCAAGTTGAACTCGCTCACCGATATCGACCTTGGTTCTAACCAGTTGAAAG Transcript length: 305 Transcript exons: ,8028895-8028951,8029101-8029151,8029153-8029215,8036347 -8036479 AGCTTCCTCCTTTACGTTATGAGCCACTGACAGCATCAGGAAGGTCCTTAAGAACCTACCTGGT GAAGATGCCATGAAGCATAAGCATCCGTTGCTGCGTATTGTAACGCTGCTTTGATAGAGGATGA ACCTCCCAGTTCCCAAGCCTGATTCTGTTTGGCTTCAAGAGCTCAACTTGATCTTTCCTATAAT GATTTCACCCGTGAAGGACCAGATTCAATGGGGAACCTTAACCGACTAACCGATATGCTTCTCA AGTTGAACTCGCTCACCGATATCGACCTTGGTTCTAACCAGTTGAAAG Transcript length: 360 Transcript exons: ,8029105-8029215,8032364-8032388,8032460-8032552,8036350 -8036479 GGTGAAGATGCCATGAAGCATAAGCATCCGTTGCTGCGTATTGTAACTGCTGCTTTGATAGAGG ATGAACCTCCCAGTTCCCAAGCCTGATTCTGTTTGGCTTCAAGAGCTCTCTCGATGTCATCGCC GGTGTACCTACCGATTCTTACACCTCCGGGAGCAAGAAAACTAGTGTCTCCGAATACCGCATTC CTGTTCAAAGTAATGTAGCACAATTCACAAACCTTCTCTTGATCTTTCCTATAATGATTTCACC CGTGAAGGACCAGATTCAATGGGGAACCTTAACCGACTAACCGATATGCTTCTCAAGTTGAACT CGCTCACCGATATCGACCTTGGTTCTAACCAGTTGAAAG
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
						0.44823582

Conservation Information
Conserved circRNAs	NA
PMCS	0.44823582

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR5021 						
					
						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	ath-miR5021
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of 4_circ_igg.3

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