Plant Circular RNA Database

Detail information of AT1G79380_circ_g.8

			
						 General Information
					
						CircRNA Name
						AT1G79380_circ_g.8
					
						ID in PlantcircBase
						ath_circ_011003
					
						Alias
						1:29861644-29862714
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 29861644-29862714  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G79380						
					
						Parent gene annotation
						
							E3 ubiquitin-protein ligase RGLG4
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G79380_circ_g.2 AT1G79380_circ_g.3 AT1G79380_circ_g.4 AT1G79380_circ_g.5 AT1G79380_circ_g.6 AT1G79380_circ_g.7 AT1G79380_circ_g.9 AT1G79380_circ_g.10 AT1G79380_circ_g.11 AT1G79380_circ_g.12 AT1G79380_circ_g.13 AT1G79380_circ_g.14 AT1G79380_circ_g.15 						
					
						Support reads
						1/2
					
						Tissues
						root;leaf
					
						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
						AT1G79380.1:6

General Information
CircRNA Name	AT1G79380_circ_g.8
ID in PlantcircBase	ath_circ_011003
Alias	1:29861644-29862714
Organism	Arabidpsis thaliana
Position	chr1: 29861644-29862714 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G79380
Parent gene annotation	E3 ubiquitin-protein ligase RGLG4
Parent gene strand	+
Alternative splicing	AT1G79380_circ_g.2 AT1G79380_circ_g.3 AT1G79380_circ_g.4 AT1G79380_circ_g.5 AT1G79380_circ_g.6 AT1G79380_circ_g.7 AT1G79380_circ_g.9 AT1G79380_circ_g.10 AT1G79380_circ_g.11 AT1G79380_circ_g.12 AT1G79380_circ_g.13 AT1G79380_circ_g.14 AT1G79380_circ_g.15
Support reads	1/2
Tissues	root;leaf
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	AT1G79380.1:6

			
						 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  
						
							GAAGACAATAGTTCCGAGGCCACCACCAATTCCGTACACACCTCCAACTAATGCTGAACTACCA
TCAACTGCATCACCTGCATCACCTGAACAAACCCAGcaacaactcatgacgaggaagtgttcgg
tttccatagcgacaattctccatgtcatggcttcgaagaggtcttagcatgttacaagagaatt
gcacccaa

									
								

					

						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: 644
Transcript exons: 29861644-29861757,29861830-29861927,29862000-29862079,29
862171-29862276,29862356-29862483,29862597-29862714
CAACAACTCATGACGAGGAAGTGTTCGGTTTCCATAGCGACAATTCTCCATGTCATGGCTTCGA
AGAGGTCTTAGCATGTTACAAGAGAATTGCACCCAACTTGCGTCTATCAGGGCCAACGTCGTAT
GGACCGCTCATCGATGCTGCTGTCGACATTGTGGAGAAGAACAACGGACAATTCCATGTTCTGG
TGATTGTTGCAGATGGACAGGTAACGAGAGGTACGGATATGGCCGAGGGAGAACTCAGTCAACA
AGAGAAAACAACCATCGACGCGATTGTAAATGCAAGCTCGTATGCTTTGTCGATTGTTTTAGTC
GGTGTTGGAGACGGACCATGGGAAGACATGAGGAAGTTCGATGATAAGATCCCTAAGCGTGAAT
TCGACAACTTTCAGTTTGTGAATTTCACAGAGATTATGACGAGAAACTCACCAGAGTCTGCCAA
AGAAACTGCTTTTGCTCTAGCTGCTCTAATGGAGATTCCCTTTCAGTATCAAGCAGCCATCGAA
CTCCGCTTACTCGGGAAGCAGACGGGCTTAGCGAAGACAATAGTTCCGAGGCCACCACCAATTC
CGTACACACCTCCAACTAATGCTGAACTACCATCAACTGCATCACCTGCATCACCTGAACAAAC
CCAG
						
					

						Genomic sequence
						
							CAACAACTCATGACGAGGAAGTGTTCGGTTTCCATAGCGACAATTCTCCATGTCATGGCTTCGA
AGAGGTCTTAGCATGTTACAAGAGAATTGCACCCAACTTGCGTCTATCAGGTCTTTCTTTGAAA
ATCTAAATACTACCTTCCATAGCTTTATCACCAAATCACAACCTTCCGTGTTCAAAAGGGCCAA
CGTCGTATGGACCGCTCATCGATGCTGCTGTCGACATTGTGGAGAAGAACAACGGACAATTCCA
TGTTCTGGTGATTGTTGCAGATGGACAGGTAAAGTTACAAGCAGTTAAGAGAAACAAAGTATGA
TACCAAAACTTAAAAGGCTACCTTTTGAATGTTAAGGTAACGAGAGGTACGGATATGGCCGAGG
GAGAACTCAGTCAACAAGAGAAAACAACCATCGACGCGATTGTAAATGCAAGGTAAAAAAATGC
AGATTCAGTTTTTCATTTTTCGCAACTCGATTTGCGGTATCTAAACAAGCCTTTTTCGAAATTC
CTTTATTATCTACAGCTCGTATGCTTTGTCGATTGTTTTAGTCGGTGTTGGAGACGGACCATGG
GAAGACATGAGGAAGTTCGATGATAAGATCCCTAAGCGTGAATTCGACAACTTTCAGGTATCTT
CCCAGTTTCTGTGCTATTTTCCATCTATATTCTCTGCTTTGAGCATCTTCTTGATCTCTGGTCT
ATGCATAGTTTGTGAATTTCACAGAGATTATGACGAGAAACTCACCAGAGTCTGCCAAAGAAAC
TGCTTTTGCTCTAGCTGCTCTAATGGAGATTCCCTTTCAGTATCAAGCAGCCATCGAACTCCGC
TTACTCGGGTACTTCCATAAGTTCTCAGCATAACAGAACTACCGTCTTTCTGCTCTATTTTTTT
TTTTTTTGTCTAATTGCTTCTGCTGGTCCCTGTCCACTTCTGCACCCGTCTATAAAGGAAGCAG
ACGGGCTTAGCGAAGACAATAGTTCCGAGGCCACCACCAATTCCGTACACACCTCCAACTAATG
CTGAACTACCATCAACTGCATCACCTGCATCACCTGAACAAACCCAG
						
					

			
		

Sequences
Splice junction sequence	GAAGACAATAGTTCCGAGGCCACCACCAATTCCGTACACACCTCCAACTAATGCTGAACTACCA TCAACTGCATCACCTGCATCACCTGAACAAACCCAGcaacaactcatgacgaggaagtgttcgg tttccatagcgacaattctccatgtcatggcttcgaagaggtcttagcatgttacaagagaatt gcacccaa
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: 644 Transcript exons: 29861644-29861757,29861830-29861927,29862000-29862079,29 862171-29862276,29862356-29862483,29862597-29862714 CAACAACTCATGACGAGGAAGTGTTCGGTTTCCATAGCGACAATTCTCCATGTCATGGCTTCGA AGAGGTCTTAGCATGTTACAAGAGAATTGCACCCAACTTGCGTCTATCAGGGCCAACGTCGTAT GGACCGCTCATCGATGCTGCTGTCGACATTGTGGAGAAGAACAACGGACAATTCCATGTTCTGG TGATTGTTGCAGATGGACAGGTAACGAGAGGTACGGATATGGCCGAGGGAGAACTCAGTCAACA AGAGAAAACAACCATCGACGCGATTGTAAATGCAAGCTCGTATGCTTTGTCGATTGTTTTAGTC GGTGTTGGAGACGGACCATGGGAAGACATGAGGAAGTTCGATGATAAGATCCCTAAGCGTGAAT TCGACAACTTTCAGTTTGTGAATTTCACAGAGATTATGACGAGAAACTCACCAGAGTCTGCCAA AGAAACTGCTTTTGCTCTAGCTGCTCTAATGGAGATTCCCTTTCAGTATCAAGCAGCCATCGAA CTCCGCTTACTCGGGAAGCAGACGGGCTTAGCGAAGACAATAGTTCCGAGGCCACCACCAATTC CGTACACACCTCCAACTAATGCTGAACTACCATCAACTGCATCACCTGCATCACCTGAACAAAC CCAG
Genomic sequence	CAACAACTCATGACGAGGAAGTGTTCGGTTTCCATAGCGACAATTCTCCATGTCATGGCTTCGA AGAGGTCTTAGCATGTTACAAGAGAATTGCACCCAACTTGCGTCTATCAGGTCTTTCTTTGAAA ATCTAAATACTACCTTCCATAGCTTTATCACCAAATCACAACCTTCCGTGTTCAAAAGGGCCAA CGTCGTATGGACCGCTCATCGATGCTGCTGTCGACATTGTGGAGAAGAACAACGGACAATTCCA TGTTCTGGTGATTGTTGCAGATGGACAGGTAAAGTTACAAGCAGTTAAGAGAAACAAAGTATGA TACCAAAACTTAAAAGGCTACCTTTTGAATGTTAAGGTAACGAGAGGTACGGATATGGCCGAGG GAGAACTCAGTCAACAAGAGAAAACAACCATCGACGCGATTGTAAATGCAAGGTAAAAAAATGC AGATTCAGTTTTTCATTTTTCGCAACTCGATTTGCGGTATCTAAACAAGCCTTTTTCGAAATTC CTTTATTATCTACAGCTCGTATGCTTTGTCGATTGTTTTAGTCGGTGTTGGAGACGGACCATGG GAAGACATGAGGAAGTTCGATGATAAGATCCCTAAGCGTGAATTCGACAACTTTCAGGTATCTT CCCAGTTTCTGTGCTATTTTCCATCTATATTCTCTGCTTTGAGCATCTTCTTGATCTCTGGTCT ATGCATAGTTTGTGAATTTCACAGAGATTATGACGAGAAACTCACCAGAGTCTGCCAAAGAAAC TGCTTTTGCTCTAGCTGCTCTAATGGAGATTCCCTTTCAGTATCAAGCAGCCATCGAACTCCGC TTACTCGGGTACTTCCATAAGTTCTCAGCATAACAGAACTACCGTCTTTCTGCTCTATTTTTTT TTTTTTTGTCTAATTGCTTCTGCTGGTCCCTGTCCACTTCTGCACCCGTCTATAAAGGAAGCAG ACGGGCTTAGCGAAGACAATAGTTCCGAGGCCACCACCAATTCCGTACACACCTCCAACTAATG CTGAACTACCATCAACTGCATCACCTGCATCACCTGAACAAACCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.273538265

Conservation Information
Conserved circRNAs	NA
PMCS	0.273538265

			
						 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 AT1G79380_circ_g.8

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