Plant Circular RNA Database

Detail information of AT1G75940_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT1G75940_circ_g.3
					
						ID in PlantcircBase
						ath_circ_010375
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 28512920-28513137  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI-full, KNIFE, PcircRNA_finder, circseq_cup
					
						Parent gene
						
							AT1G75940						
					
						Parent gene annotation
						
							Beta-glucosidase 20
							
						Parent gene strand
						+
					
						Alternative splicing
						
							1_circ_ag.2 1_circ_ag.3 AT1G75920_circ_g.1 1_circ_ag.2 AT1G75940_circ_g.1 AT1G75940_circ_g.2 AT1G75940_circ_g.4 AT1G75940_circ_g.5 AT1G75950_circ_g.1 AT1G76010_circ_g.1 AT1G76010_circ_g.2 AT1G76010_circ_g.3 AT1G76010_circ_g.4 AT1G76010_circ_g.5 AT1G76010_circ_g.6 AT1G76010_circ_g.7 AT1G76010_circ_g.8 AT1G76010_circ_g.9 AT1G76010_circ_g.10 AT1G76010_circ_g.11 AT1G76020_circ_g.1 AT1G76030_circ_g.1 AT1G76030_circ_g.2 AT1G76030_circ_g.3 AT1G76030_circ_g.4 AT1G76030_circ_g.5 AT1G76030_circ_g.6 AT1G76030_circ_g.7 AT1G76040_circ_g.1 AT1G76040_circ_g.2 AT1G76050_circ_g.1 AT1G76050_circ_g.2 AT1G76050_circ_g.3 AT1G76050_circ_g.4 AT1G76060_circ_g.1 AT1G76090_circ_g.1 AT1G76090_circ_g.2 AT1G76100_circ_g.1 AT1G76100_circ_g.2 AT1G76110_circ_g.1 AT1G76130_circ_g.1 AT1G76130_circ_g.2 AT1G76140_circ_g.1 AT1G76140_circ_g.2 AT1G76150_circ_g.1 AT1G76150_circ_g.2 AT1G76150_circ_g.3 AT1G76160_circ_g.1 AT1G76160_circ_g.2 AT1G76160_circ_g.3 AT1G76160_circ_g.4 AT1G76180_circ_g.1 AT1G76180_circ_g.2 AT1G76180_circ_g.3 AT1G76180_circ_g.4 AT1G76180_circ_g.5 AT1G76180_circ_g.6 AT1G76180_circ_g.7 AT1G76180_circ_g.8 AT1G76180_circ_g.9 AT1G76180_circ_g.10 AT1G76180_circ_g.11 AT1G76180_circ_g.12 AT1G76180_circ_g.13 AT1G76180_circ_g.14 AT1G76180_circ_g.15 AT1G76180_circ_g.16 AT1G76180_circ_g.17 AT1G76180_circ_g.18 AT1G76180_circ_g.19 AT1G76180_circ_g.20 AT1G76180_circ_g.21 AT1G76180_circ_g.22 AT1G76180_circ_g.23 AT1G76180_circ_g.24 AT1G76180_circ_g.25 AT1G76180_circ_g.26 AT1G76180_circ_g.27 AT1G76180_circ_g.28 AT1G76180_circ_g.29 AT1G76180_circ_g.30 AT1G76260_circ_g.1 AT1G76270_circ_g.1 AT1G76280_circ_g.1 AT1G76280_circ_g.2 AT1G76280_circ_g.3 AT1G76280_circ_g.4 AT1G76280_circ_g.5 AT1G76310_circ_g.1 AT1G76310_circ_g.2 AT1G76320_circ_g.1 AT1G76350_circ_g.1 AT1G76350_circ_g.2 AT1G76380_circ_g.1 AT1G76380_circ_g.2 AT1G76380_circ_g.3 AT1G76380_circ_g.4 AT1G76400_circ_g.1 AT1G76400_circ_g.2 AT1G76405_circ_g.1 AT1G76450_circ_g.1 AT1G76450_circ_g.2 AT1G76450_circ_g.3 AT1G76450_circ_g.4 AT1G76450_circ_g.5 AT1G76460_circ_g.1 AT1G76460_circ_g.2 AT1G76470_circ_g.1 AT1G76490_circ_g.1 AT1G76490_circ_g.2 AT1G76490_circ_g.3 AT1G76490_circ_g.4 AT1G76510_circ_g.1 AT1G76510_circ_g.2 AT1G76510_circ_g.3 AT1G76510_circ_g.4 AT1G76510_circ_g.5 AT1G76510_circ_g.6 AT1G76510_circ_g.7 AT1G76510_circ_g.8 AT1G76510_circ_g.9 AT1G76510_circ_g.10 1_circ_ag.11 AT1G76520_circ_g.1 AT1G76520_circ_g.2 1_circ_ag.3 AT1G76530_circ_g.1 AT1G76540_circ_g.1 AT1G76540_circ_g.2 AT1G76540_circ_g.3 AT1G76550_circ_g.1 AT1G76550_circ_g.2 AT1G76580_circ_g.1 AT1G76580_circ_g.2 AT1G76580_circ_g.3 AT1G76580_circ_g.4 AT1G76590_circ_g.1 AT1G76620_circ_g.1 AT1G76620_circ_g.2 AT1G76630_circ_g.1 AT1G76630_circ_g.2 AT1G76630_circ_g.3 AT1G76660_circ_g.1 AT1G76660_circ_g.2 AT1G76670_circ_g.1 AT1G76670_circ_g.2 AT1G76670_circ_g.3 1_circ_ag.4 AT1G76680_circ_g.1 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 AT1G76680_circ_g.5 AT1G76700_circ_g.1 1_circ_ag.2 AT1G76700_circ_g.3 AT1G76700_circ_g.4 AT1G76700_circ_g.5 1_circ_ag.6 1_circ_ag.7 1_circ_ag.8 AT1G76790_circ_g.1 AT1G76790_circ_g.2 AT1G76790_circ_g.3 AT1G76810_circ_g.1 AT1G76810_circ_g.2 						
					
						Support reads
						117
					
						Tissues
						inflorescences
					
						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  
						
							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
						AT1G75940.1:1

General Information
CircRNA Name	AT1G75940_circ_g.3
ID in PlantcircBase	ath_circ_010375
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 28512920-28513137 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI-full, KNIFE, PcircRNA_finder, circseq_cup
Parent gene	AT1G75940
Parent gene annotation	Beta-glucosidase 20
Parent gene strand	+
Alternative splicing	1_circ_ag.2 1_circ_ag.3 AT1G75920_circ_g.1 1_circ_ag.2 AT1G75940_circ_g.1 AT1G75940_circ_g.2 AT1G75940_circ_g.4 AT1G75940_circ_g.5 AT1G75950_circ_g.1 AT1G76010_circ_g.1 AT1G76010_circ_g.2 AT1G76010_circ_g.3 AT1G76010_circ_g.4 AT1G76010_circ_g.5 AT1G76010_circ_g.6 AT1G76010_circ_g.7 AT1G76010_circ_g.8 AT1G76010_circ_g.9 AT1G76010_circ_g.10 AT1G76010_circ_g.11 AT1G76020_circ_g.1 AT1G76030_circ_g.1 AT1G76030_circ_g.2 AT1G76030_circ_g.3 AT1G76030_circ_g.4 AT1G76030_circ_g.5 AT1G76030_circ_g.6 AT1G76030_circ_g.7 AT1G76040_circ_g.1 AT1G76040_circ_g.2 AT1G76050_circ_g.1 AT1G76050_circ_g.2 AT1G76050_circ_g.3 AT1G76050_circ_g.4 AT1G76060_circ_g.1 AT1G76090_circ_g.1 AT1G76090_circ_g.2 AT1G76100_circ_g.1 AT1G76100_circ_g.2 AT1G76110_circ_g.1 AT1G76130_circ_g.1 AT1G76130_circ_g.2 AT1G76140_circ_g.1 AT1G76140_circ_g.2 AT1G76150_circ_g.1 AT1G76150_circ_g.2 AT1G76150_circ_g.3 AT1G76160_circ_g.1 AT1G76160_circ_g.2 AT1G76160_circ_g.3 AT1G76160_circ_g.4 AT1G76180_circ_g.1 AT1G76180_circ_g.2 AT1G76180_circ_g.3 AT1G76180_circ_g.4 AT1G76180_circ_g.5 AT1G76180_circ_g.6 AT1G76180_circ_g.7 AT1G76180_circ_g.8 AT1G76180_circ_g.9 AT1G76180_circ_g.10 AT1G76180_circ_g.11 AT1G76180_circ_g.12 AT1G76180_circ_g.13 AT1G76180_circ_g.14 AT1G76180_circ_g.15 AT1G76180_circ_g.16 AT1G76180_circ_g.17 AT1G76180_circ_g.18 AT1G76180_circ_g.19 AT1G76180_circ_g.20 AT1G76180_circ_g.21 AT1G76180_circ_g.22 AT1G76180_circ_g.23 AT1G76180_circ_g.24 AT1G76180_circ_g.25 AT1G76180_circ_g.26 AT1G76180_circ_g.27 AT1G76180_circ_g.28 AT1G76180_circ_g.29 AT1G76180_circ_g.30 AT1G76260_circ_g.1 AT1G76270_circ_g.1 AT1G76280_circ_g.1 AT1G76280_circ_g.2 AT1G76280_circ_g.3 AT1G76280_circ_g.4 AT1G76280_circ_g.5 AT1G76310_circ_g.1 AT1G76310_circ_g.2 AT1G76320_circ_g.1 AT1G76350_circ_g.1 AT1G76350_circ_g.2 AT1G76380_circ_g.1 AT1G76380_circ_g.2 AT1G76380_circ_g.3 AT1G76380_circ_g.4 AT1G76400_circ_g.1 AT1G76400_circ_g.2 AT1G76405_circ_g.1 AT1G76450_circ_g.1 AT1G76450_circ_g.2 AT1G76450_circ_g.3 AT1G76450_circ_g.4 AT1G76450_circ_g.5 AT1G76460_circ_g.1 AT1G76460_circ_g.2 AT1G76470_circ_g.1 AT1G76490_circ_g.1 AT1G76490_circ_g.2 AT1G76490_circ_g.3 AT1G76490_circ_g.4 AT1G76510_circ_g.1 AT1G76510_circ_g.2 AT1G76510_circ_g.3 AT1G76510_circ_g.4 AT1G76510_circ_g.5 AT1G76510_circ_g.6 AT1G76510_circ_g.7 AT1G76510_circ_g.8 AT1G76510_circ_g.9 AT1G76510_circ_g.10 1_circ_ag.11 AT1G76520_circ_g.1 AT1G76520_circ_g.2 1_circ_ag.3 AT1G76530_circ_g.1 AT1G76540_circ_g.1 AT1G76540_circ_g.2 AT1G76540_circ_g.3 AT1G76550_circ_g.1 AT1G76550_circ_g.2 AT1G76580_circ_g.1 AT1G76580_circ_g.2 AT1G76580_circ_g.3 AT1G76580_circ_g.4 AT1G76590_circ_g.1 AT1G76620_circ_g.1 AT1G76620_circ_g.2 AT1G76630_circ_g.1 AT1G76630_circ_g.2 AT1G76630_circ_g.3 AT1G76660_circ_g.1 AT1G76660_circ_g.2 AT1G76670_circ_g.1 AT1G76670_circ_g.2 AT1G76670_circ_g.3 1_circ_ag.4 AT1G76680_circ_g.1 1_circ_ag.2 1_circ_ag.3 1_circ_ag.4 AT1G76680_circ_g.5 AT1G76700_circ_g.1 1_circ_ag.2 AT1G76700_circ_g.3 AT1G76700_circ_g.4 AT1G76700_circ_g.5 1_circ_ag.6 1_circ_ag.7 1_circ_ag.8 AT1G76790_circ_g.1 AT1G76790_circ_g.2 AT1G76790_circ_g.3 AT1G76810_circ_g.1 AT1G76810_circ_g.2
Support reads	117
Tissues	inflorescences
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	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	AT1G75940.1:1

			
						 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  
						
							GTAGGAATCAACTATTACACATCAGTGTTTGCATTGCACGACGAAGAGCCAGATCCTTCGCAAC
CAAGTTGGCAGAGTGATTCTCTCGTGGACTGGGAACgcatttgcatccgaccacatatggagat
tatccacaatcaatgaaggatcacatcggacatcgactgccgaaattcacagaggcacagaaag
agaagttg

									
								

					

						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: 175
Transcript exons: 28512920-28513007,28513051-28513137
GCATTTGCATCCGACCACATATGGAGATTATCCACAATCAATGAAGGATCACATCGGACATCGA
CTGCCGAAATTCACAGAGGCACAGATTACACATCAGTGTTTGCATTGCACGACGAAGAGCCAGA
TCCTTCGCAACCAAGTTGGCAGAGTGATTCTCTCGTGGACTGGGAAC
Transcript length: 177
Transcript exons: 28512920-28513034,28513076-28513137
GCATTTGCATCCGACCACATATGGAGATTATCCACAATCAATGAAGGATCACATCGGACATCGA
CTGCCGAAATTCACAGAGGCACAGAAAGAGAAGTTGAAAAATTCAGCTGATCGACGAAGAGCCA
GATCCTTCGCAACCAAGTTGGCAGAGTGATTCTCTCGTGGACTGGGAAC
Transcript length: 201
Transcript exons: 28512920-28513045,28513063-28513137
GCATTTGCATCCGACCACATATGGAGATTATCCACAATCAATGAAGGATCACATCGGACATCGA
CTGCCGAAATTCACAGAGGCACAGAAAGAGAAGTTGAAAAATTCAGCTGATTTTGTAGGAATTG
TTTGCATTGCACGACGAAGAGCCAGATCCTTCGCAACCAAGTTGGCAGAGTGATTCTCTCGTGG
ACTGGGAAC
Transcript length: 210
Transcript exons: 28512920-28513003,28513012-28513137
GCATTTGCATCCGACCACATATGGAGATTATCCACAATCAATGAAGGATCACATCGGACATCGA
CTGCCGAAATTCACAGAGGCAGAAGTTGAAAAATTCAGCTGATTTTGTAGGAATCAACTATTAC
ACATCAGTGTTTGCATTGCACGACGAAGAGCCAGATCCTTCGCAACCAAGTTGGCAGAGTGATT
CTCTCGTGGACTGGGAAC
Transcript length: 218
Transcript exons: 28512920-28513137
GCATTTGCATCCGACCACATATGGAGATTATCCACAATCAATGAAGGATCACATCGGACATCGA
CTGCCGAAATTCACAGAGGCACAGAAAGAGAAGTTGAAAAATTCAGCTGATTTTGTAGGAATCA
ACTATTACACATCAGTGTTTGCATTGCACGACGAAGAGCCAGATCCTTCGCAACCAAGTTGGCA
GAGTGATTCTCTCGTGGACTGGGAAC
						
					

						Genomic sequence
						
							GCATTTGCATCCGACCACATATGGAGATTATCCACAATCAATGAAGGATCACATCGGACATCGA
CTGCCGAAATTCACAGAGGCACAGAAAGAGAAGTTGAAAAATTCAGCTGATTTTGTAGGAATCA
ACTATTACACATCAGTGTTTGCATTGCACGACGAAGAGCCAGATCCTTCGCAACCAAGTTGGCA
GAGTGATTCTCTCGTGGACTGGGAAC
						
					

			
		

Sequences
Splice junction sequence	GTAGGAATCAACTATTACACATCAGTGTTTGCATTGCACGACGAAGAGCCAGATCCTTCGCAAC CAAGTTGGCAGAGTGATTCTCTCGTGGACTGGGAACgcatttgcatccgaccacatatggagat tatccacaatcaatgaaggatcacatcggacatcgactgccgaaattcacagaggcacagaaag agaagttg
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: 175 Transcript exons: 28512920-28513007,28513051-28513137 GCATTTGCATCCGACCACATATGGAGATTATCCACAATCAATGAAGGATCACATCGGACATCGA CTGCCGAAATTCACAGAGGCACAGATTACACATCAGTGTTTGCATTGCACGACGAAGAGCCAGA TCCTTCGCAACCAAGTTGGCAGAGTGATTCTCTCGTGGACTGGGAAC Transcript length: 177 Transcript exons: 28512920-28513034,28513076-28513137 GCATTTGCATCCGACCACATATGGAGATTATCCACAATCAATGAAGGATCACATCGGACATCGA CTGCCGAAATTCACAGAGGCACAGAAAGAGAAGTTGAAAAATTCAGCTGATCGACGAAGAGCCA GATCCTTCGCAACCAAGTTGGCAGAGTGATTCTCTCGTGGACTGGGAAC Transcript length: 201 Transcript exons: 28512920-28513045,28513063-28513137 GCATTTGCATCCGACCACATATGGAGATTATCCACAATCAATGAAGGATCACATCGGACATCGA CTGCCGAAATTCACAGAGGCACAGAAAGAGAAGTTGAAAAATTCAGCTGATTTTGTAGGAATTG TTTGCATTGCACGACGAAGAGCCAGATCCTTCGCAACCAAGTTGGCAGAGTGATTCTCTCGTGG ACTGGGAAC Transcript length: 210 Transcript exons: 28512920-28513003,28513012-28513137 GCATTTGCATCCGACCACATATGGAGATTATCCACAATCAATGAAGGATCACATCGGACATCGA CTGCCGAAATTCACAGAGGCAGAAGTTGAAAAATTCAGCTGATTTTGTAGGAATCAACTATTAC ACATCAGTGTTTGCATTGCACGACGAAGAGCCAGATCCTTCGCAACCAAGTTGGCAGAGTGATT CTCTCGTGGACTGGGAAC Transcript length: 218 Transcript exons: 28512920-28513137 GCATTTGCATCCGACCACATATGGAGATTATCCACAATCAATGAAGGATCACATCGGACATCGA CTGCCGAAATTCACAGAGGCACAGAAAGAGAAGTTGAAAAATTCAGCTGATTTTGTAGGAATCA ACTATTACACATCAGTGTTTGCATTGCACGACGAAGAGCCAGATCCTTCGCAACCAAGTTGGCA GAGTGATTCTCTCGTGGACTGGGAAC
Genomic sequence	GCATTTGCATCCGACCACATATGGAGATTATCCACAATCAATGAAGGATCACATCGGACATCGA CTGCCGAAATTCACAGAGGCACAGAAAGAGAAGTTGAAAAATTCAGCTGATTTTGTAGGAATCA ACTATTACACATCAGTGTTTGCATTGCACGACGAAGAGCCAGATCCTTCGCAACCAAGTTGGCA GAGTGATTCTCTCGTGGACTGGGAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.374218604

Conservation Information
Conserved circRNAs	NA
PMCS	0.374218604

			
						 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
						Chu et al., 2017

circRNA

Detail information of AT1G75940_circ_g.3

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