Plant Circular RNA Database

Detail information of AT1G55350_circ_g.7

			
						 General Information
					
						CircRNA Name
						AT1G55350_circ_g.7
					
						ID in PlantcircBase
						ath_circ_007495
					
						Alias
						1:20661551-20662994
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 20661551-20662994  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G55350						
					
						Parent gene annotation
						
							Calpain-type cysteine protease family
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1/1
					
						Tissues
						root;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  
						
							CT-AC							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
						AT1G55350.6:3
AT1G55350.3:3
AT1G55350.5:3
AT1G55350.1:3
AT1G55350.2:3
AT1G55350.4:3

General Information
CircRNA Name	AT1G55350_circ_g.7
ID in PlantcircBase	ath_circ_007495
Alias	1:20661551-20662994
Organism	Arabidpsis thaliana
Position	chr1: 20661551-20662994 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G55350
Parent gene annotation	Calpain-type cysteine protease family
Parent gene strand	-
Alternative splicing	NA
Support reads	1/1
Tissues	root;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	CT-AC 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	AT1G55350.6:3 AT1G55350.3:3 AT1G55350.5:3 AT1G55350.1:3 AT1G55350.2:3 AT1G55350.4:3

			
						 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  
						
							TCCAAGCCAACGTGATTCCCTAGCTGTGAGACCATATAGGACTGAGTAGGCAAGGAGAACTACG
AGTGAGCCCAGGTACAGAAGGCCAAGATGTGAAGCCctgttgatgactagaatttataatcgtg
atggtctttgggcgaaaaatggccacaatgattgtttcaaggataaagacaagactaaagaggc
cccatgct

									
								

					

						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: 1255
Transcript exons: 20661551-20662559,20662655-20662769,20662864-20662994
CTGTTGATGACTAGAATTTATAATCGTGATGGTCTTTGGGCGAAAAATGGCCACAATGATTGTT
TCAAGGATAAAGACAAGACTAAAGAGGCCCCATGCTCTCTCTGGTGTCCCCGCTACATGGTGCA
GAAGAAGTCTAGACAACTTAAGCCACTTCTCTAGTCCACGGAGTCTCAATTCTTCGGATAAAGA
AATCTGATTTGGCAAAGTATTGTCAACACTGTTTGAGTCAATGATTGTAATATCAGTATTGTCG
CGGTGATCTCTATCTGCATCCAAACTACTCCTCTGAAGTAGTGCCAATATAGTAGGATCCAAGT
TTTTTTCCTTCAACATTACAGCAAAGTTAGGGTCCAACCCCTTGTCTTGCAGCAAATTAGTCAG
TTCAAGATCACCTTCTTTTGCTTTCTTCTTAAGTATCGAGGCTATCCTAGGATTGTTTAACTGG
TCCTGGAAAGCAAGAGCCAAATTCATATCCAAAAGCTGCTGGTTTGCAGAATTCGATGTGCTAG
ACTCGTAACCTTGGCTATCTAGACCACTGCTCGAACAAACAACAAGAGTGTTATTTTGATCAGA
AACTTTGTCCATAAAATAAGACGTTCCTGCTTCGGGCTCTTGGACCACAGAACGACATGAACTA
CTACGTAAACCTAAGCTTGGTCTTCCACTTTCTTCGCTTTTGTCGCTATTGATTCCCTCCTGAG
AGCTGCCTGTTCGAGTTAGATTGTCAGCCGTGCAAGATTCTGCCGTACGATTTGCTTCATTAGT
ACAACCAGTATGGCCAGCATCGATACTACTACTTCTTTTTATACTTGAGCCACAACCATCTGAA
GAACTTGAAGAACTATTCTGCTCTTTTCTCCGAAAACCTTCTCTCAAGCGGATCACTGTGCTCT
GTAAGGCATCTCTTCTTGCAGCTGATGGGTCTGTTATAGATAGATGCCGAGAAACAGCAGCACC
TGATAGAACTGATGCTACGAAAATGTAACTAATACAATGCCCTAGGTACCAGTAGTGTATGCCA
AAACATATTAGGAAAAGACGGGATATGCCAGCAACAAAAAGTGCCAGAACACGATTCTGAAGAA
GCTTAAACCCATACAAGCATGCCCCAATATTCCAGTCAAGAACAATAACTGCAGCTGATGTGAT
TCCTCCAAGCCAACGTGATTCCCTAGCTGTGAGACCATATAGGACTGAGTAGGCAAGGAGAACT
ACGAGTGAGCCCAGGTACAGAAGGCCAAGATGTGAAGCC
						
					

						Genomic sequence
						
							CTGTTGATGACTAGAATTTATAATCGTGATGGTCTTTGGGCGAAAAATGGCCACAATGATTGTT
TCAAGGATAAAGACAAGACTAAAGAGGCCCCATGCTCTCTCTGGTGTCCCCGCTACATGGTGCA
GAAGAAGTCTAGACAACTTAAGCCACTTCTCTAGTCCACGGAGTCTCAATTCTTCGGATAAAGA
AATCTGATTTGGCAAAGTATTGTCAACACTGTTTGAGTCAATGATTGTAATATCAGTATTGTCG
CGGTGATCTCTATCTGCATCCAAACTACTCCTCTGAAGTAGTGCCAATATAGTAGGATCCAAGT
TTTTTTCCTTCAACATTACAGCAAAGTTAGGGTCCAACCCCTTGTCTTGCAGCAAATTAGTCAG
TTCAAGATCACCTTCTTTTGCTTTCTTCTTAAGTATCGAGGCTATCCTAGGATTGTTTAACTGG
TCCTGGAAAGCAAGAGCCAAATTCATATCCAAAAGCTGCTGGTTTGCAGAATTCGATGTGCTAG
ACTCGTAACCTTGGCTATCTAGACCACTGCTCGAACAAACAACAAGAGTGTTATTTTGATCAGA
AACTTTGTCCATAAAATAAGACGTTCCTGCTTCGGGCTCTTGGACCACAGAACGACATGAACTA
CTACGTAAACCTAAGCTTGGTCTTCCACTTTCTTCGCTTTTGTCGCTATTGATTCCCTCCTGAG
AGCTGCCTGTTCGAGTTAGATTGTCAGCCGTGCAAGATTCTGCCGTACGATTTGCTTCATTAGT
ACAACCAGTATGGCCAGCATCGATACTACTACTTCTTTTTATACTTGAGCCACAACCATCTGAA
GAACTTGAAGAACTATTCTGCTCTTTTCTCCGAAAACCTTCTCTCAAGCGGATCACTGTGCTCT
GTAAGGCATCTCTTCTTGCAGCTGATGGGTCTGTTATAGATAGATGCCGAGAAACAGCAGCACC
TGATAGAACTGATGCTACGAAAATGTAACTAATACAATGCCCTAGGTACCTGCAACAACAGAAC
GGATAATATCTTACATGCCATGAAGGGGACAAACTTTAGATCTATAGATAAGTAACAAGCTTTT
TAGCTCAGAAACAAACCAGTAGTGTATGCCAAAACATATTAGGAAAAGACGGGATATGCCAGCA
ACAAAAAGTGCCAGAACACGATTCTGAAGAAGCTTAAACCCATACAAGCATGCCCCAATATTCC
AGTCTACATGAAAATATTAAGCATGAAGATGAGTTGAGGAATAATCAAGTAGCCTGCTTCAACT
TTAAATATAAGTAAATAATTTTTATCTTTTTACCAAGAACAATAACTGCAGCTGATGTGATTCC
TCCAAGCCAACGTGATTCCCTAGCTGTGAGACCATATAGGACTGAGTAGGCAAGGAGAACTACG
AGTGAGCCCAGGTACAGAAGGCCAAGATGTGAAGCC
						
					

			
		

Sequences
Splice junction sequence	TCCAAGCCAACGTGATTCCCTAGCTGTGAGACCATATAGGACTGAGTAGGCAAGGAGAACTACG AGTGAGCCCAGGTACAGAAGGCCAAGATGTGAAGCCctgttgatgactagaatttataatcgtg atggtctttgggcgaaaaatggccacaatgattgtttcaaggataaagacaagactaaagaggc cccatgct
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: 1255 Transcript exons: 20661551-20662559,20662655-20662769,20662864-20662994 CTGTTGATGACTAGAATTTATAATCGTGATGGTCTTTGGGCGAAAAATGGCCACAATGATTGTT TCAAGGATAAAGACAAGACTAAAGAGGCCCCATGCTCTCTCTGGTGTCCCCGCTACATGGTGCA GAAGAAGTCTAGACAACTTAAGCCACTTCTCTAGTCCACGGAGTCTCAATTCTTCGGATAAAGA AATCTGATTTGGCAAAGTATTGTCAACACTGTTTGAGTCAATGATTGTAATATCAGTATTGTCG CGGTGATCTCTATCTGCATCCAAACTACTCCTCTGAAGTAGTGCCAATATAGTAGGATCCAAGT TTTTTTCCTTCAACATTACAGCAAAGTTAGGGTCCAACCCCTTGTCTTGCAGCAAATTAGTCAG TTCAAGATCACCTTCTTTTGCTTTCTTCTTAAGTATCGAGGCTATCCTAGGATTGTTTAACTGG TCCTGGAAAGCAAGAGCCAAATTCATATCCAAAAGCTGCTGGTTTGCAGAATTCGATGTGCTAG ACTCGTAACCTTGGCTATCTAGACCACTGCTCGAACAAACAACAAGAGTGTTATTTTGATCAGA AACTTTGTCCATAAAATAAGACGTTCCTGCTTCGGGCTCTTGGACCACAGAACGACATGAACTA CTACGTAAACCTAAGCTTGGTCTTCCACTTTCTTCGCTTTTGTCGCTATTGATTCCCTCCTGAG AGCTGCCTGTTCGAGTTAGATTGTCAGCCGTGCAAGATTCTGCCGTACGATTTGCTTCATTAGT ACAACCAGTATGGCCAGCATCGATACTACTACTTCTTTTTATACTTGAGCCACAACCATCTGAA GAACTTGAAGAACTATTCTGCTCTTTTCTCCGAAAACCTTCTCTCAAGCGGATCACTGTGCTCT GTAAGGCATCTCTTCTTGCAGCTGATGGGTCTGTTATAGATAGATGCCGAGAAACAGCAGCACC TGATAGAACTGATGCTACGAAAATGTAACTAATACAATGCCCTAGGTACCAGTAGTGTATGCCA AAACATATTAGGAAAAGACGGGATATGCCAGCAACAAAAAGTGCCAGAACACGATTCTGAAGAA GCTTAAACCCATACAAGCATGCCCCAATATTCCAGTCAAGAACAATAACTGCAGCTGATGTGAT TCCTCCAAGCCAACGTGATTCCCTAGCTGTGAGACCATATAGGACTGAGTAGGCAAGGAGAACT ACGAGTGAGCCCAGGTACAGAAGGCCAAGATGTGAAGCC
Genomic sequence	CTGTTGATGACTAGAATTTATAATCGTGATGGTCTTTGGGCGAAAAATGGCCACAATGATTGTT TCAAGGATAAAGACAAGACTAAAGAGGCCCCATGCTCTCTCTGGTGTCCCCGCTACATGGTGCA GAAGAAGTCTAGACAACTTAAGCCACTTCTCTAGTCCACGGAGTCTCAATTCTTCGGATAAAGA AATCTGATTTGGCAAAGTATTGTCAACACTGTTTGAGTCAATGATTGTAATATCAGTATTGTCG CGGTGATCTCTATCTGCATCCAAACTACTCCTCTGAAGTAGTGCCAATATAGTAGGATCCAAGT TTTTTTCCTTCAACATTACAGCAAAGTTAGGGTCCAACCCCTTGTCTTGCAGCAAATTAGTCAG TTCAAGATCACCTTCTTTTGCTTTCTTCTTAAGTATCGAGGCTATCCTAGGATTGTTTAACTGG TCCTGGAAAGCAAGAGCCAAATTCATATCCAAAAGCTGCTGGTTTGCAGAATTCGATGTGCTAG ACTCGTAACCTTGGCTATCTAGACCACTGCTCGAACAAACAACAAGAGTGTTATTTTGATCAGA AACTTTGTCCATAAAATAAGACGTTCCTGCTTCGGGCTCTTGGACCACAGAACGACATGAACTA CTACGTAAACCTAAGCTTGGTCTTCCACTTTCTTCGCTTTTGTCGCTATTGATTCCCTCCTGAG AGCTGCCTGTTCGAGTTAGATTGTCAGCCGTGCAAGATTCTGCCGTACGATTTGCTTCATTAGT ACAACCAGTATGGCCAGCATCGATACTACTACTTCTTTTTATACTTGAGCCACAACCATCTGAA GAACTTGAAGAACTATTCTGCTCTTTTCTCCGAAAACCTTCTCTCAAGCGGATCACTGTGCTCT GTAAGGCATCTCTTCTTGCAGCTGATGGGTCTGTTATAGATAGATGCCGAGAAACAGCAGCACC TGATAGAACTGATGCTACGAAAATGTAACTAATACAATGCCCTAGGTACCTGCAACAACAGAAC GGATAATATCTTACATGCCATGAAGGGGACAAACTTTAGATCTATAGATAAGTAACAAGCTTTT TAGCTCAGAAACAAACCAGTAGTGTATGCCAAAACATATTAGGAAAAGACGGGATATGCCAGCA ACAAAAAGTGCCAGAACACGATTCTGAAGAAGCTTAAACCCATACAAGCATGCCCCAATATTCC AGTCTACATGAAAATATTAAGCATGAAGATGAGTTGAGGAATAATCAAGTAGCCTGCTTCAACT TTAAATATAAGTAAATAATTTTTATCTTTTTACCAAGAACAATAACTGCAGCTGATGTGATTCC TCCAAGCCAACGTGATTCCCTAGCTGTGAGACCATATAGGACTGAGTAGGCAAGGAGAACTACG AGTGAGCCCAGGTACAGAAGGCCAAGATGTGAAGCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.289336231

Conservation Information
Conserved circRNAs	NA
PMCS	0.289336231

			
						 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 AT1G55350_circ_g.7

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