Plant Circular RNA Database

Detail information of AT1G77490_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT1G77490_circ_g.6
					
						ID in PlantcircBase
						ath_circ_010638
					
						Alias
						1:29118212-29120014
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 29118212-29120014  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G77490						
					
						Parent gene annotation
						
							L-ascorbate peroxidase T, chloroplastic
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G77490_circ_g.3 AT1G77490_circ_g.4 AT1G77490_circ_g.5 AT1G77490_circ_g.7 						
					
						Support reads
						1/4
					
						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
						AT1G77490.1:10
AT1G77490.2:10

General Information
CircRNA Name	AT1G77490_circ_g.6
ID in PlantcircBase	ath_circ_010638
Alias	1:29118212-29120014
Organism	Arabidpsis thaliana
Position	chr1: 29118212-29120014 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G77490
Parent gene annotation	L-ascorbate peroxidase T, chloroplastic
Parent gene strand	+
Alternative splicing	AT1G77490_circ_g.3 AT1G77490_circ_g.4 AT1G77490_circ_g.5 AT1G77490_circ_g.7
Support reads	1/4
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	AT1G77490.1:10 AT1G77490.2:10

			
						 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  
						
							GCAATTGGAGGAAGCCCAGATAAGCCATTACCCACAAATTACTTCCTCAACATCATAATTGCCA
TTGGCGTTTTGGTCCTCTTGTCCACTCTCTTTGGTGgttagattggggtggcacgatgctggta
cttataacaagaatattgaggagtggccactgagaggtggagctaatggaagtcttaggtttga
ggctgagc

									
								

					

						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: 931
Transcript exons: 29118212-29118332,29118414-29118514,29118607-29118694,29
118798-29118865,29118950-29119036,29119127-29119201,2911
9310-29119387,29119483-29119587,29119715-29119774,291198
67-29120014
GTTAGATTGGGGTGGCACGATGCTGGTACTTATAACAAGAATATTGAGGAGTGGCCACTGAGAG
GTGGAGCTAATGGAAGTCTTAGGTTTGAGGCTGAGCTTAAGCATGCTGCAAATGCTGGTCTGCT
TAATGCTTTAAAGCTCATTCAGCCTCTCAAAGACAAGTATCCTAACATCTCTTATGCGGACTTA
TTCCAGTTAGCTAGTGCCACAGCAATAGAGGAGGCTGGTGGTCCTGATATCCCGATGAAATATG
GGAGAGTTGATGTTGTAGCACCTGAACAGTGTCCAGAAGAAGGAAGACTCCCTGATGCTGGACC
TCCTTCACCAGCTGATCATTTGAGAGATGTTTTCTACAGAATGGGACTTGATGACAAGGAAATA
GTTGCCTTGTCTGGTGCACATACCTTAGGGAGAGCCAGACCAGACCGTAGTGGTTGGGGAAAAC
CTGAGACAAAGTACACGAAAACTGGACCTGGAGAAGCAGGAGGACAGTCATGGACAGTGAAATG
GCTCAAGTTCGACAACTCTTATTTCAAGGATATCAAAGAAAAGAGGGACGACGATCTTCTGGTG
TTACCCACTGATGCGGCGCTATTTGAAGATCCTTCATTCAAGAACTATGCAGAGAAGTATGCTG
AAGATGTGGCTGCATTTTTCAAGGACTACGCTGAAGCCCATGCCAAGCTTAGCAATCTCGGTGC
AAAATTTGATCCTCCCGAGGGCATAGTCATTGAAAACGTTCCAGAGAAGTTCGTAGCTGCAAAG
TATTCTACGGGAAAGAAGGAGCTTTCGGATTCGATGAAAAAGAAGATAAGAGCAGAGTATGAAG
CAATTGGAGGAAGCCCAGATAAGCCATTACCCACAAATTACTTCCTCAACATCATAATTGCCAT
TGGCGTTTTGGTCCTCTTGTCCACTCTCTTTGGTG
						
					

						Genomic sequence
						
							GTTAGATTGGGGTGGCACGATGCTGGTACTTATAACAAGAATATTGAGGAGTGGCCACTGAGAG
GTGGAGCTAATGGAAGTCTTAGGTTTGAGGCTGAGCTTAAGCATGCTGCAAATGCTGGTACTGG
TTTCATCATTTCACATGCATTGTGGCTTAAGACTTTTATTTGGTGTCTTGATATTCTACTTTTG
ACATTTACAGGTCTGCTTAATGCTTTAAAGCTCATTCAGCCTCTCAAAGACAAGTATCCTAACA
TCTCTTATGCGGACTTATTCCAGTTAGCTAGTGCCACAGCAATAGAGGTCTTTCTTCACTTTTC
TTGGGCTTGGCCTATTAGGAAACTATTTTGGTCTTAAGGCTTTACTGATAACTCTAGAAATAAA
TAAAACTTCAGGAGGCTGGTGGTCCTGATATCCCGATGAAATATGGGAGAGTTGATGTTGTAGC
ACCTGAACAGTGTCCAGAAGAAGGAAGACTCCCTGGTTAACTAATCTTTCCATTGTCTGTTTCA
TGTCTTCTATGAGTTTGTTTCAGATTTTGTTTATGGACTAATTGAAATAACGAGGTGAAATATG
CTATGTTTAGATGCTGGACCTCCTTCACCAGCTGATCATTTGAGAGATGTTTTCTACAGAATGG
GACTTGATGACAAGGTTATTTTGATTTTGTTCTCTTTTGTGTTATTCATGTCAAACGTGAATAT
TTTTGTTATTCTGAATATTCTTTTTGACAAACAGGAAATAGTTGCCTTGTCTGGTGCACATACC
TTAGGGAGAGCCAGACCAGACCGTAGTGGTTGGGGAAAACCTGAGACAAAGTACACGGTATTAA
TAAACGACAAACTGAAGCTACCTTATATATAGTTCTAGGGATGATAGTGTAGAGAGATGTTATG
GAAACGTTCAAAATGGCAGAAAACTGGACCTGGAGAAGCAGGAGGACAGTCATGGACAGTGAAA
TGGCTCAAGTTCGACAACTCTTATTTCAAGGTCTATCTCTCTATCTTTCTTAGTAACTTGGTTT
GGGACTGAAAAAGAGTTTTCTATGAAGTTTTCTAAAAATAGTTTTATCAACCATTGACTTCTAT
GACTTTGCAGGATATCAAAGAAAAGAGGGACGACGATCTTCTGGTGTTACCCACTGATGCGGCG
CTATTTGAAGATCCTTCATTCAAGGTTTAAACAACAGTGATTGCTAATAAGATGCCTCAGAATT
AGTAGTTCACTGTTACTTAAGAGGAAATGTTTTTAAAAACAATAGTTTCTTACAGAACTATGCA
GAGAAGTATGCTGAAGATGTGGCTGCATTTTTCAAGGACTACGCTGAAGCCCATGCCAAGCTTA
GCAATCTCGGTGCAAAATTTGATCCTCCCGAGGTACAAGGAAAGGGGAGAAAATCTAATATCTA
TGCACTTGTGTATACCATTATAAACCATACGTTTAAAATCCAGTTCAGTGACTTAAAATCTAAA
ACTGCTAATGTGTCACTATGAAACTAATCAGGGCATAGTCATTGAAAACGTTCCAGAGAAGTTC
GTAGCTGCAAAGTATTCTACGGGAAAGGTTTGTCCTTACAAAACAAAAATGCGCTTGTGTAGCT
TATTCTAATATAGGATTCGGTTCTTGTTTTTAATCTCTCCGGCAATATTTTGCAGAAGGAGCTT
TCGGATTCGATGAAAAAGAAGATAAGAGCAGAGTATGAAGCAATTGGAGGAAGCCCAGATAAGC
CATTACCCACAAATTACTTCCTCAACATCATAATTGCCATTGGCGTTTTGGTCCTCTTGTCCAC
TCTCTTTGGTG
						
					

			
		

Sequences
Splice junction sequence	GCAATTGGAGGAAGCCCAGATAAGCCATTACCCACAAATTACTTCCTCAACATCATAATTGCCA TTGGCGTTTTGGTCCTCTTGTCCACTCTCTTTGGTGgttagattggggtggcacgatgctggta cttataacaagaatattgaggagtggccactgagaggtggagctaatggaagtcttaggtttga ggctgagc
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: 931 Transcript exons: 29118212-29118332,29118414-29118514,29118607-29118694,29 118798-29118865,29118950-29119036,29119127-29119201,2911 9310-29119387,29119483-29119587,29119715-29119774,291198 67-29120014 GTTAGATTGGGGTGGCACGATGCTGGTACTTATAACAAGAATATTGAGGAGTGGCCACTGAGAG GTGGAGCTAATGGAAGTCTTAGGTTTGAGGCTGAGCTTAAGCATGCTGCAAATGCTGGTCTGCT TAATGCTTTAAAGCTCATTCAGCCTCTCAAAGACAAGTATCCTAACATCTCTTATGCGGACTTA TTCCAGTTAGCTAGTGCCACAGCAATAGAGGAGGCTGGTGGTCCTGATATCCCGATGAAATATG GGAGAGTTGATGTTGTAGCACCTGAACAGTGTCCAGAAGAAGGAAGACTCCCTGATGCTGGACC TCCTTCACCAGCTGATCATTTGAGAGATGTTTTCTACAGAATGGGACTTGATGACAAGGAAATA GTTGCCTTGTCTGGTGCACATACCTTAGGGAGAGCCAGACCAGACCGTAGTGGTTGGGGAAAAC CTGAGACAAAGTACACGAAAACTGGACCTGGAGAAGCAGGAGGACAGTCATGGACAGTGAAATG GCTCAAGTTCGACAACTCTTATTTCAAGGATATCAAAGAAAAGAGGGACGACGATCTTCTGGTG TTACCCACTGATGCGGCGCTATTTGAAGATCCTTCATTCAAGAACTATGCAGAGAAGTATGCTG AAGATGTGGCTGCATTTTTCAAGGACTACGCTGAAGCCCATGCCAAGCTTAGCAATCTCGGTGC AAAATTTGATCCTCCCGAGGGCATAGTCATTGAAAACGTTCCAGAGAAGTTCGTAGCTGCAAAG TATTCTACGGGAAAGAAGGAGCTTTCGGATTCGATGAAAAAGAAGATAAGAGCAGAGTATGAAG CAATTGGAGGAAGCCCAGATAAGCCATTACCCACAAATTACTTCCTCAACATCATAATTGCCAT TGGCGTTTTGGTCCTCTTGTCCACTCTCTTTGGTG
Genomic sequence	GTTAGATTGGGGTGGCACGATGCTGGTACTTATAACAAGAATATTGAGGAGTGGCCACTGAGAG GTGGAGCTAATGGAAGTCTTAGGTTTGAGGCTGAGCTTAAGCATGCTGCAAATGCTGGTACTGG TTTCATCATTTCACATGCATTGTGGCTTAAGACTTTTATTTGGTGTCTTGATATTCTACTTTTG ACATTTACAGGTCTGCTTAATGCTTTAAAGCTCATTCAGCCTCTCAAAGACAAGTATCCTAACA TCTCTTATGCGGACTTATTCCAGTTAGCTAGTGCCACAGCAATAGAGGTCTTTCTTCACTTTTC TTGGGCTTGGCCTATTAGGAAACTATTTTGGTCTTAAGGCTTTACTGATAACTCTAGAAATAAA TAAAACTTCAGGAGGCTGGTGGTCCTGATATCCCGATGAAATATGGGAGAGTTGATGTTGTAGC ACCTGAACAGTGTCCAGAAGAAGGAAGACTCCCTGGTTAACTAATCTTTCCATTGTCTGTTTCA TGTCTTCTATGAGTTTGTTTCAGATTTTGTTTATGGACTAATTGAAATAACGAGGTGAAATATG CTATGTTTAGATGCTGGACCTCCTTCACCAGCTGATCATTTGAGAGATGTTTTCTACAGAATGG GACTTGATGACAAGGTTATTTTGATTTTGTTCTCTTTTGTGTTATTCATGTCAAACGTGAATAT TTTTGTTATTCTGAATATTCTTTTTGACAAACAGGAAATAGTTGCCTTGTCTGGTGCACATACC TTAGGGAGAGCCAGACCAGACCGTAGTGGTTGGGGAAAACCTGAGACAAAGTACACGGTATTAA TAAACGACAAACTGAAGCTACCTTATATATAGTTCTAGGGATGATAGTGTAGAGAGATGTTATG GAAACGTTCAAAATGGCAGAAAACTGGACCTGGAGAAGCAGGAGGACAGTCATGGACAGTGAAA TGGCTCAAGTTCGACAACTCTTATTTCAAGGTCTATCTCTCTATCTTTCTTAGTAACTTGGTTT GGGACTGAAAAAGAGTTTTCTATGAAGTTTTCTAAAAATAGTTTTATCAACCATTGACTTCTAT GACTTTGCAGGATATCAAAGAAAAGAGGGACGACGATCTTCTGGTGTTACCCACTGATGCGGCG CTATTTGAAGATCCTTCATTCAAGGTTTAAACAACAGTGATTGCTAATAAGATGCCTCAGAATT AGTAGTTCACTGTTACTTAAGAGGAAATGTTTTTAAAAACAATAGTTTCTTACAGAACTATGCA GAGAAGTATGCTGAAGATGTGGCTGCATTTTTCAAGGACTACGCTGAAGCCCATGCCAAGCTTA GCAATCTCGGTGCAAAATTTGATCCTCCCGAGGTACAAGGAAAGGGGAGAAAATCTAATATCTA TGCACTTGTGTATACCATTATAAACCATACGTTTAAAATCCAGTTCAGTGACTTAAAATCTAAA ACTGCTAATGTGTCACTATGAAACTAATCAGGGCATAGTCATTGAAAACGTTCCAGAGAAGTTC GTAGCTGCAAAGTATTCTACGGGAAAGGTTTGTCCTTACAAAACAAAAATGCGCTTGTGTAGCT TATTCTAATATAGGATTCGGTTCTTGTTTTTAATCTCTCCGGCAATATTTTGCAGAAGGAGCTT TCGGATTCGATGAAAAAGAAGATAAGAGCAGAGTATGAAGCAATTGGAGGAAGCCCAGATAAGC CATTACCCACAAATTACTTCCTCAACATCATAATTGCCATTGGCGTTTTGGTCCTCTTGTCCAC TCTCTTTGGTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.230672726

Conservation Information
Conserved circRNAs	NA
PMCS	0.230672726

			
						 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 AT1G77490_circ_g.6

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