Plant Circular RNA Database

Detail information of AT4G33380_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT4G33380_circ_g.1
					
						ID in PlantcircBase
						ath_circ_034396
					
						Alias
						4:16072320-16074002
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 16072320-16074002  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G33380						
					
						Parent gene annotation
						
							AT4g33380/F17M5_140
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT4G33380_circ_g.2 AT4G33380_circ_g.3 						
					
						Support reads
						1/1
					
						Tissues
						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  
						
							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
						AT4G33380.1:4
AT4G33380.2:4

General Information
CircRNA Name	AT4G33380_circ_g.1
ID in PlantcircBase	ath_circ_034396
Alias	4:16072320-16074002
Organism	Arabidpsis thaliana
Position	chr4: 16072320-16074002 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G33380
Parent gene annotation	AT4g33380/F17M5_140
Parent gene strand	+
Alternative splicing	AT4G33380_circ_g.2 AT4G33380_circ_g.3
Support reads	1/1
Tissues	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	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	AT4G33380.1:4 AT4G33380.2:4

			
						 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  
						
							TTGGAGTGGGATGTGCTGTCTGAAGAAATCGGTTTCTGGTTACCTGCTGAGGTTACCAATGTAG
AACATGATGATAAACCTGAAGGAGAGGAAGAGCCTGttgttaagtacacagctgatgagattag
gaaaatggaggaatctattcggattcgaagatcgaaggaacctactctgattcttcaattggtt
agtggctt

									
								

					

						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: 444
Transcript exons: 16072320-16072408,16072487-16072619,16073650-16073748,16
073880-16074002
TTGTTAAGTACACAGCTGATGAGATTAGGAAAATGGAGGAATCTATTCGGATTCGAAGATCGAA
GGAACCTACTCTGATTCTTCAATTGAAGCTCAAGCATGAGGTTTCCACTGCAGAATCTAGTACT
GAACTATCTCCTAATGTTAAACACAAACTAGTTGATGAGATCCTCCAGCGTTTGAAAAGCTTTG
AGGACAAATCTAATGTTACTCAGCTTAGAGAAGTTGTAGAAACGTGGCGCAATGAGAAGCTGGA
GGAAGCTAAAGAGCTAATTCAAGGGCAAAATGGAGTAAATTCCACCCTTATAGTGGAGGAAGCA
GGGATGCTTGTAAGAGCTTTGGAGTTGGAGTGGGATGTGCTGTCTGAAGAAATCGGTTTCTGGT
TACCTGCTGAGGTTACCAATGTAGAACATGATGATAAACCTGAAGGAGAGGAAGAGCCTG
Transcript length: 450
Transcript exons: 16072320-16072408,16072481-16072619,16073650-16073748,16
073880-16074002
TTGTTAAGTACACAGCTGATGAGATTAGGAAAATGGAGGAATCTATTCGGATTCGAAGATCGAA
GGAACCTACTCTGATTCTTCAATTGGTGAAGAAGCTCAAGCATGAGGTTTCCACTGCAGAATCT
AGTACTGAACTATCTCCTAATGTTAAACACAAACTAGTTGATGAGATCCTCCAGCGTTTGAAAA
GCTTTGAGGACAAATCTAATGTTACTCAGCTTAGAGAAGTTGTAGAAACGTGGCGCAATGAGAA
GCTGGAGGAAGCTAAAGAGCTAATTCAAGGGCAAAATGGAGTAAATTCCACCCTTATAGTGGAG
GAAGCAGGGATGCTTGTAAGAGCTTTGGAGTTGGAGTGGGATGTGCTGTCTGAAGAAATCGGTT
TCTGGTTACCTGCTGAGGTTACCAATGTAGAACATGATGATAAACCTGAAGGAGAGGAAGAGCC
TG
						
					

						Genomic sequence
						
							TTGTTAAGTACACAGCTGATGAGATTAGGAAAATGGAGGAATCTATTCGGATTCGAAGATCGAA
GGAACCTACTCTGATTCTTCAATTGGTTAGTGGCTTTTTAAAATGGAACTCGAAGATGCACATT
GGCTCTTCTCACAATGTTTGATTTCCTTGTTAGGTGAAGAAGCTCAAGCATGAGGTTTCCACTG
CAGAATCTAGTACTGAACTATCTCCTAATGTTAAACACAAACTAGTTGATGAGATCCTCCAGCG
TTTGAAAAGCTTTGAGGACAAATCTAATGTTACTCAGCTTAGAGGTTTGTGCTACTCTACTATG
CCCATTAGCTTCATGACATTTATTTTTCAAACTGCCACAAACTTGCATTTCATGACTTTTCCTG
ATCTAGCTGCTTAGGATTTGTCTTATTACCTCTTTGGAATGTCATGGTGATTTGTCTTATTACC
TAACCTGTGTAAGATTTTGTTGGTATCAATAGCTCAGTTTAGTAAATATTTCATTATCATTCAT
GTAGAAGTGGATTTTTGCTCAATAATGCATATGGTTATCAGGATAGTAAAATAGGCTCACAAAT
TTCAGACCTTTCTGCATGCACTATCACATACTAGACAGAACAATTGATTTTAGCGGGATTTTCA
ATGGAGATTTTTTCATGCCTAGTTTTTCTATTCTTCTTGTATAAGTTCATCAGGTCTATGGAAC
ATAAGCTCTAACACCCACTTAAGTTCTGTTATAATCTATGCATTGATGATCATATGCTATGTAC
ATGAAACATTTGAGCCACAGAAACTCTAGCGGTGGTGCCATTGTATACATAATCTTTTCGATGT
TCTTTAGATTCTCAGTAGCTTACCTAACATGTTCGTATGTCTCAACATGCTTCTCTAATTCCTT
TCTACTGCATCAGAAAAAGTATGCTCAAGAATTCCAAAAAGTCATGATATTTACCTTTTTGACT
TGTTAAAAGTAGATTTTTCATTCTATTCACTTCACTTGAACAACTCTTAACATTTATTATGTGC
TGACTAGGCTAATGCGCAATGTGCGTTAATTCTTAGTTATTTACAAGAGTTATTGGAAAAAGGT
GGAAGGTAGGAATGGGTTAATTTATTTGGTTAGAGAGAGGTGACAAAATTCTAATAATCCAGAC
TTTGAAGACACTGGATTTCTTTTTGATGCTTCAAACTGAGTTCTATTGTTTTCCCTTGTAGTAT
TCGTAATGCACGTAGACTTGTTAATGTTTTCGCCTACAATAGTTTTCCTTTTGACACATTCATG
TTATCTCTGTAGTGACCTTTAATACCTTCTTATCTTCATTTGGCAAACAGAAGTTGTAGAAACG
TGGCGCAATGAGAAGCTGGAGGAAGCTAAAGAGCTAATTCAAGGGCAAAATGGAGTAAATTCCA
CCCTTATAGTGGAGGAAGCAGGTATTACTCCTTTAGAAAGATTACTGAGTTTCTCACCTTGAGC
AAAGATTCATTTATGGAGTCCTCCCGATACTCTATCCTTGTTTTGTATAATTAGAGAGAAAACT
AATTTTTGTTCTGTAATTATCTAGGGATGCTTGTAAGAGCTTTGGAGTTGGAGTGGGATGTGCT
GTCTGAAGAAATCGGTTTCTGGTTACCTGCTGAGGTTACCAATGTAGAACATGATGATAAACCT
GAAGGAGAGGAAGAGCCTG
						
					

			
		

Sequences
Splice junction sequence	TTGGAGTGGGATGTGCTGTCTGAAGAAATCGGTTTCTGGTTACCTGCTGAGGTTACCAATGTAG AACATGATGATAAACCTGAAGGAGAGGAAGAGCCTGttgttaagtacacagctgatgagattag gaaaatggaggaatctattcggattcgaagatcgaaggaacctactctgattcttcaattggtt agtggctt
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: 444 Transcript exons: 16072320-16072408,16072487-16072619,16073650-16073748,16 073880-16074002 TTGTTAAGTACACAGCTGATGAGATTAGGAAAATGGAGGAATCTATTCGGATTCGAAGATCGAA GGAACCTACTCTGATTCTTCAATTGAAGCTCAAGCATGAGGTTTCCACTGCAGAATCTAGTACT GAACTATCTCCTAATGTTAAACACAAACTAGTTGATGAGATCCTCCAGCGTTTGAAAAGCTTTG AGGACAAATCTAATGTTACTCAGCTTAGAGAAGTTGTAGAAACGTGGCGCAATGAGAAGCTGGA GGAAGCTAAAGAGCTAATTCAAGGGCAAAATGGAGTAAATTCCACCCTTATAGTGGAGGAAGCA GGGATGCTTGTAAGAGCTTTGGAGTTGGAGTGGGATGTGCTGTCTGAAGAAATCGGTTTCTGGT TACCTGCTGAGGTTACCAATGTAGAACATGATGATAAACCTGAAGGAGAGGAAGAGCCTG Transcript length: 450 Transcript exons: 16072320-16072408,16072481-16072619,16073650-16073748,16 073880-16074002 TTGTTAAGTACACAGCTGATGAGATTAGGAAAATGGAGGAATCTATTCGGATTCGAAGATCGAA GGAACCTACTCTGATTCTTCAATTGGTGAAGAAGCTCAAGCATGAGGTTTCCACTGCAGAATCT AGTACTGAACTATCTCCTAATGTTAAACACAAACTAGTTGATGAGATCCTCCAGCGTTTGAAAA GCTTTGAGGACAAATCTAATGTTACTCAGCTTAGAGAAGTTGTAGAAACGTGGCGCAATGAGAA GCTGGAGGAAGCTAAAGAGCTAATTCAAGGGCAAAATGGAGTAAATTCCACCCTTATAGTGGAG GAAGCAGGGATGCTTGTAAGAGCTTTGGAGTTGGAGTGGGATGTGCTGTCTGAAGAAATCGGTT TCTGGTTACCTGCTGAGGTTACCAATGTAGAACATGATGATAAACCTGAAGGAGAGGAAGAGCC TG
Genomic sequence	TTGTTAAGTACACAGCTGATGAGATTAGGAAAATGGAGGAATCTATTCGGATTCGAAGATCGAA GGAACCTACTCTGATTCTTCAATTGGTTAGTGGCTTTTTAAAATGGAACTCGAAGATGCACATT GGCTCTTCTCACAATGTTTGATTTCCTTGTTAGGTGAAGAAGCTCAAGCATGAGGTTTCCACTG CAGAATCTAGTACTGAACTATCTCCTAATGTTAAACACAAACTAGTTGATGAGATCCTCCAGCG TTTGAAAAGCTTTGAGGACAAATCTAATGTTACTCAGCTTAGAGGTTTGTGCTACTCTACTATG CCCATTAGCTTCATGACATTTATTTTTCAAACTGCCACAAACTTGCATTTCATGACTTTTCCTG ATCTAGCTGCTTAGGATTTGTCTTATTACCTCTTTGGAATGTCATGGTGATTTGTCTTATTACC TAACCTGTGTAAGATTTTGTTGGTATCAATAGCTCAGTTTAGTAAATATTTCATTATCATTCAT GTAGAAGTGGATTTTTGCTCAATAATGCATATGGTTATCAGGATAGTAAAATAGGCTCACAAAT TTCAGACCTTTCTGCATGCACTATCACATACTAGACAGAACAATTGATTTTAGCGGGATTTTCA ATGGAGATTTTTTCATGCCTAGTTTTTCTATTCTTCTTGTATAAGTTCATCAGGTCTATGGAAC ATAAGCTCTAACACCCACTTAAGTTCTGTTATAATCTATGCATTGATGATCATATGCTATGTAC ATGAAACATTTGAGCCACAGAAACTCTAGCGGTGGTGCCATTGTATACATAATCTTTTCGATGT TCTTTAGATTCTCAGTAGCTTACCTAACATGTTCGTATGTCTCAACATGCTTCTCTAATTCCTT TCTACTGCATCAGAAAAAGTATGCTCAAGAATTCCAAAAAGTCATGATATTTACCTTTTTGACT TGTTAAAAGTAGATTTTTCATTCTATTCACTTCACTTGAACAACTCTTAACATTTATTATGTGC TGACTAGGCTAATGCGCAATGTGCGTTAATTCTTAGTTATTTACAAGAGTTATTGGAAAAAGGT GGAAGGTAGGAATGGGTTAATTTATTTGGTTAGAGAGAGGTGACAAAATTCTAATAATCCAGAC TTTGAAGACACTGGATTTCTTTTTGATGCTTCAAACTGAGTTCTATTGTTTTCCCTTGTAGTAT TCGTAATGCACGTAGACTTGTTAATGTTTTCGCCTACAATAGTTTTCCTTTTGACACATTCATG TTATCTCTGTAGTGACCTTTAATACCTTCTTATCTTCATTTGGCAAACAGAAGTTGTAGAAACG TGGCGCAATGAGAAGCTGGAGGAAGCTAAAGAGCTAATTCAAGGGCAAAATGGAGTAAATTCCA CCCTTATAGTGGAGGAAGCAGGTATTACTCCTTTAGAAAGATTACTGAGTTTCTCACCTTGAGC AAAGATTCATTTATGGAGTCCTCCCGATACTCTATCCTTGTTTTGTATAATTAGAGAGAAAACT AATTTTTGTTCTGTAATTATCTAGGGATGCTTGTAAGAGCTTTGGAGTTGGAGTGGGATGTGCT GTCTGAAGAAATCGGTTTCTGGTTACCTGCTGAGGTTACCAATGTAGAACATGATGATAAACCT GAAGGAGAGGAAGAGCCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.233056526

Conservation Information
Conserved circRNAs	NA
PMCS	0.233056526

			
						 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 AT4G33380_circ_g.1

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