Plant Circular RNA Database

Detail information of AT1G28320_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G28320_circ_g.1
					
						ID in PlantcircBase
						ath_circ_004664
					
						Alias
						1:9921642-9923080
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 9921642-9923080  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G28320						
					
						Parent gene annotation
						
							Glyoxysomal processing protease, glyoxysomal
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G28320_circ_g.2 						
					
						Support reads
						1/2/1
					
						Tissues
						root;leaf;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
						AT1G28320.1:5

General Information
CircRNA Name	AT1G28320_circ_g.1
ID in PlantcircBase	ath_circ_004664
Alias	1:9921642-9923080
Organism	Arabidpsis thaliana
Position	chr1: 9921642-9923080 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G28320
Parent gene annotation	Glyoxysomal processing protease, glyoxysomal
Parent gene strand	-
Alternative splicing	AT1G28320_circ_g.2
Support reads	1/2/1
Tissues	root;leaf;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	AT1G28320.1:5

			
						 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  
						
							AGGGGACTCCTAGAATAGCCATTCGAGTGGCAGACTTGGCCATGAAGTTAGCGTTGTGTGGCTC
ATCAAGTTGCATCAAGGGCTTGCTGTAATGTTCAATcacatcttggtccgaagagtccatgtcc
aacaacatgcgctgttgtacccaaaggaggagaagaaaaattggcagtaataggttggagcttt
ccagggac

									
								

					

						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: 1063
Transcript exons: 9921642-9922308,9922394-9922488,9922580-9922665,9922782-
9922885,9922970-9923080
CACATCTTGGTCCGAAGAGTCCATGTCCAACAACATGCGCTGTTGTACCCAAAGGAGGAGAAGA
AAAATTGGCAGTAATAGGTTGGAGCTTTCCAGGGACATATTCTAGCTGCAGTAAGGCAATATCT
AATTGTTCCTTGCAAATATAGACCACGTTTGCAGGACACCAAGTCCAAGAATCTAGGTGACACA
AACGCACACGTATGTCTCTATGCCCAGTCTGAAGGAAATTGTGTTTGTATTCCCTGATGTTCTC
TCCAACAGACGAATAATGATTTCGTGGAGCTTTCCGTGGCAATGTTTGACTCTTCTGTTCCCAA
AATTTACTTCCCGTGGAAGAAAATTCCTCGGCTCCTAAGACATAGGGTTTAAATCCTTCACCAT
ATACACCACCTTTTCCATACCTCCACGGCTCAAGCAGGTGAGCATTTGTTAGTATGAGACCATG
TTCGTTAAGAATAATACCAGAAGCCCAAACACCATCATTGACCGTAATAAGACAAACTGATTCC
ATCGCCTTCTCAATAGCCACTTGTGCAGGAATACTAGCATCTGATTTAACACTTAGGACTTCGC
TCCCCCACTGACTTGCTTTTCCTTCTACAGATGGTTCCTCAAGCAGCAAGTGGCTGCAAGCAGT
TGTGATTGCTCCCCATGGAACCACCAGCTGAATTTCAACGCCGCTATTCTTTTGCCTTAGTGGT
CTAATCAAAATGCCAATTAAGTGCCCATTCTTAGCAAACACCGGAGCCCCTTCCATTCCAGGGA
GACATCGAACATCAGCTATCATCAGTGACTTCTTTAGGGATCCAGAAGGATAGCTATTCGCAAT
GGAACCAGTTGATACGCTGTTAAAAAAGTTAACAGGTGAAAGGATTCCAAAGGGAGAGCCTAGT
GCTACAAGTGTATCACCCTTGCTACTTGATGAAGCAAAATTCATGCTTGGTTGACCCAGTAAAC
TTAAGGGGACTCCTAGAATAGCCATTCGAGTGGCAGACTTGGCCATGAAGTTAGCGTTGTGTGG
CTCATCAAGTTGCATCAAGGGCTTGCTGTAATGTTCAAT
						
					

						Genomic sequence
						
							CACATCTTGGTCCGAAGAGTCCATGTCCAACAACATGCGCTGTTGTACCCAAAGGAGGAGAAGA
AAAATTGGCAGTAATAGGTTGGAGCTTTCCAGGGACATATTCTAGCTGCAGTAAGGCAATATCT
AATTGTTCCTTGCAAATATAGACCACGTTTGCAGGACACCAAGTCCAAGAATCTAGGTGACACA
AACGCACACGTATGTCTCTATGCCCAGTCTGAAGGAAATTGTGTTTGTATTCCCTGATGTTCTC
TCCAACAGACGAATAATGATTTCGTGGAGCTTTCCGTGGCAATGTTTGACTCTTCTGTTCCCAA
AATTTACTTCCCGTGGAAGAAAATTCCTCGGCTCCTAAGACATAGGGTTTAAATCCTTCACCAT
ATACACCACCTTTTCCATACCTCCACGGCTCAAGCAGGTGAGCATTTGTTAGTATGAGACCATG
TTCGTTAAGAATAATACCAGAAGCCCAAACACCATCATTGACCGTAATAAGACAAACTGATTCC
ATCGCCTTCTCAATAGCCACTTGTGCAGGAATACTAGCATCTGATTTAACACTTAGGACTTCGC
TCCCCCACTGACTTGCTTTTCCTTCTACAGATGGTTCCTCAAGCAGCAAGTGGCTGCAAGCAGT
TGTGATTGCTCCCCATGGAACCACCAGCTGCTACCGAAGGCTACAGTTTTGCATGAAACATTAC
AATAAAACTTCAATGGACATAAAGGAAATGAGGCTGCCGTTGACAAACCTGAATTTCAACGCCG
CTATTCTTTTGCCTTAGTGGTCTAATCAAAATGCCAATTAAGTGCCCATTCTTAGCAAACACCG
GAGCCCCTTCCATTCCTGAAAGAAATTGAACCGGAACGGAACATGTTTTAGCTCTTAAGATGAA
ACAAATAGAGCATATATAAGAACTATTGATAATCGTACATACCAGGGAGACATCGAACATCAGC
TATCATCAGTGACTTCTTTAGGGATCCAGAAGGATAGCTATTCGCAATGGAACCAGTTGATACG
CTGTTTCAAACCAGTTTAGATTCCCGGAGTTAAATGCTGACACTATCAAGAGAAAGGAAATCAT
GATGACCTCTAGTCGATTAAAATACAGTAACGCTAGTGTAGCCATAATTCACCTGTTAAAAAAG
TTAACAGGTGAAAGGATTCCAAAGGGAGAGCCTAGTGCTACAAGTGTATCACCCTTGCTACTTG
ATGAAGCAAAATTCATGCTTGGTTGACCCTGATTTACAAAATATTTGCGTCACAAAGATGAACC
ATAAATCAGAAAGAAGGAAACGGGGAGGAAAATCAGGGAAATATTTACCAGTAAACTTAAGGGG
ACTCCTAGAATAGCCATTCGAGTGGCAGACTTGGCCATGAAGTTAGCGTTGTGTGGCTCATCAA
GTTGCATCAAGGGCTTGCTGTAATGTTCAAT
						
					

			
		

Sequences
Splice junction sequence	AGGGGACTCCTAGAATAGCCATTCGAGTGGCAGACTTGGCCATGAAGTTAGCGTTGTGTGGCTC ATCAAGTTGCATCAAGGGCTTGCTGTAATGTTCAATcacatcttggtccgaagagtccatgtcc aacaacatgcgctgttgtacccaaaggaggagaagaaaaattggcagtaataggttggagcttt ccagggac
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: 1063 Transcript exons: 9921642-9922308,9922394-9922488,9922580-9922665,9922782- 9922885,9922970-9923080 CACATCTTGGTCCGAAGAGTCCATGTCCAACAACATGCGCTGTTGTACCCAAAGGAGGAGAAGA AAAATTGGCAGTAATAGGTTGGAGCTTTCCAGGGACATATTCTAGCTGCAGTAAGGCAATATCT AATTGTTCCTTGCAAATATAGACCACGTTTGCAGGACACCAAGTCCAAGAATCTAGGTGACACA AACGCACACGTATGTCTCTATGCCCAGTCTGAAGGAAATTGTGTTTGTATTCCCTGATGTTCTC TCCAACAGACGAATAATGATTTCGTGGAGCTTTCCGTGGCAATGTTTGACTCTTCTGTTCCCAA AATTTACTTCCCGTGGAAGAAAATTCCTCGGCTCCTAAGACATAGGGTTTAAATCCTTCACCAT ATACACCACCTTTTCCATACCTCCACGGCTCAAGCAGGTGAGCATTTGTTAGTATGAGACCATG TTCGTTAAGAATAATACCAGAAGCCCAAACACCATCATTGACCGTAATAAGACAAACTGATTCC ATCGCCTTCTCAATAGCCACTTGTGCAGGAATACTAGCATCTGATTTAACACTTAGGACTTCGC TCCCCCACTGACTTGCTTTTCCTTCTACAGATGGTTCCTCAAGCAGCAAGTGGCTGCAAGCAGT TGTGATTGCTCCCCATGGAACCACCAGCTGAATTTCAACGCCGCTATTCTTTTGCCTTAGTGGT CTAATCAAAATGCCAATTAAGTGCCCATTCTTAGCAAACACCGGAGCCCCTTCCATTCCAGGGA GACATCGAACATCAGCTATCATCAGTGACTTCTTTAGGGATCCAGAAGGATAGCTATTCGCAAT GGAACCAGTTGATACGCTGTTAAAAAAGTTAACAGGTGAAAGGATTCCAAAGGGAGAGCCTAGT GCTACAAGTGTATCACCCTTGCTACTTGATGAAGCAAAATTCATGCTTGGTTGACCCAGTAAAC TTAAGGGGACTCCTAGAATAGCCATTCGAGTGGCAGACTTGGCCATGAAGTTAGCGTTGTGTGG CTCATCAAGTTGCATCAAGGGCTTGCTGTAATGTTCAAT
Genomic sequence	CACATCTTGGTCCGAAGAGTCCATGTCCAACAACATGCGCTGTTGTACCCAAAGGAGGAGAAGA AAAATTGGCAGTAATAGGTTGGAGCTTTCCAGGGACATATTCTAGCTGCAGTAAGGCAATATCT AATTGTTCCTTGCAAATATAGACCACGTTTGCAGGACACCAAGTCCAAGAATCTAGGTGACACA AACGCACACGTATGTCTCTATGCCCAGTCTGAAGGAAATTGTGTTTGTATTCCCTGATGTTCTC TCCAACAGACGAATAATGATTTCGTGGAGCTTTCCGTGGCAATGTTTGACTCTTCTGTTCCCAA AATTTACTTCCCGTGGAAGAAAATTCCTCGGCTCCTAAGACATAGGGTTTAAATCCTTCACCAT ATACACCACCTTTTCCATACCTCCACGGCTCAAGCAGGTGAGCATTTGTTAGTATGAGACCATG TTCGTTAAGAATAATACCAGAAGCCCAAACACCATCATTGACCGTAATAAGACAAACTGATTCC ATCGCCTTCTCAATAGCCACTTGTGCAGGAATACTAGCATCTGATTTAACACTTAGGACTTCGC TCCCCCACTGACTTGCTTTTCCTTCTACAGATGGTTCCTCAAGCAGCAAGTGGCTGCAAGCAGT TGTGATTGCTCCCCATGGAACCACCAGCTGCTACCGAAGGCTACAGTTTTGCATGAAACATTAC AATAAAACTTCAATGGACATAAAGGAAATGAGGCTGCCGTTGACAAACCTGAATTTCAACGCCG CTATTCTTTTGCCTTAGTGGTCTAATCAAAATGCCAATTAAGTGCCCATTCTTAGCAAACACCG GAGCCCCTTCCATTCCTGAAAGAAATTGAACCGGAACGGAACATGTTTTAGCTCTTAAGATGAA ACAAATAGAGCATATATAAGAACTATTGATAATCGTACATACCAGGGAGACATCGAACATCAGC TATCATCAGTGACTTCTTTAGGGATCCAGAAGGATAGCTATTCGCAATGGAACCAGTTGATACG CTGTTTCAAACCAGTTTAGATTCCCGGAGTTAAATGCTGACACTATCAAGAGAAAGGAAATCAT GATGACCTCTAGTCGATTAAAATACAGTAACGCTAGTGTAGCCATAATTCACCTGTTAAAAAAG TTAACAGGTGAAAGGATTCCAAAGGGAGAGCCTAGTGCTACAAGTGTATCACCCTTGCTACTTG ATGAAGCAAAATTCATGCTTGGTTGACCCTGATTTACAAAATATTTGCGTCACAAAGATGAACC ATAAATCAGAAAGAAGGAAACGGGGAGGAAAATCAGGGAAATATTTACCAGTAAACTTAAGGGG ACTCCTAGAATAGCCATTCGAGTGGCAGACTTGGCCATGAAGTTAGCGTTGTGTGGCTCATCAA GTTGCATCAAGGGCTTGCTGTAATGTTCAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.188009016

Conservation Information
Conserved circRNAs	NA
PMCS	0.188009016

			
						 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 AT1G28320_circ_g.1

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