Plant Circular RNA Database

Detail information of AT2G18230_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT2G18230_circ_g.1
					
						ID in PlantcircBase
						ath_circ_013693
					
						Alias
						2:7932263-7933572
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 7932263-7933572  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G18230						
					
						Parent gene annotation
						
							PPa2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G18230_circ_g.2 AT2G18230_circ_g.3 AT2G18230_circ_g.4 						
					
						Support reads
						1/1
					
						Tissues
						seedling;root
					
						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
						AT2G18230.1:7

General Information
CircRNA Name	AT2G18230_circ_g.1
ID in PlantcircBase	ath_circ_013693
Alias	2:7932263-7933572
Organism	Arabidpsis thaliana
Position	chr2: 7932263-7933572 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G18230
Parent gene annotation	PPa2
Parent gene strand	-
Alternative splicing	AT2G18230_circ_g.2 AT2G18230_circ_g.3 AT2G18230_circ_g.4
Support reads	1/1
Tissues	seedling;root
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	AT2G18230.1:7

			
						 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  
						
							CAAAGTTTCTCTCATTCAGCGTAACATTAGGGTTCCTGAGAGGGAAAGCATAGCCCTTGGCGCT
TCCTTCATCCTTGATTTCAGCCATATCGGATGTTCAatggagtccttgatagcgtctatggcag
cttgagcgggaaggaaagcttcaacgtcgactttcttgttctcgttcttcttgtctaaaaacat
tgtttgtt

									
								

					

						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: 626
Transcript exons: 7932263-7932344,7932436-7932556,7932646-7932711,7932806-
7932913,7933136-7933201,7933300-7933328,7933419-7933572
ATGGAGTCCTTGATAGCGTCTATGGCAGCTTGAGCGGGAAGGAAAGCTTCAACGTCGACTTTCT
TGTTCTCGTTCTTCTTGTAGTCCTCAAAGAAGCGACGGATTTCAGCTAGACGGTGAGGGGGAAG
CTCTTTGATGTCTCTGTAGTGACGGAACTCGGGATCATCAGCACATACTGCAATGATCTTGTCG
TCTTTCTCACCCTGATCAATCATGGGCATTAGACCAATAGCACGGGCACGGAGGAATGATCCGG
TTAGCACAGGCTCCTGCATCAGTACCAGGACATCCATTGGATCACTGTCTTCACAGATAGTTCG
AGGGATGAAACCGTAGTTGTGGGGGTACACAATGGATGAGTAGAGAACGCGATCAACCTTAATA
AGGCCACTGTTCTTGTCTAGCTCGTACTTAACCTTTCCACCTTTGCTAATTTCAACAACACAGT
TGAAAACAGTAGGAGCTTCTGGACCAATCTCCAAGTCATGCCAAGGATGAGCAGCAGCTGATCT
GTGAGTGAAGGCTGCAAAGTTTCTCTCATTCAGCGTAACATTAGGGTTCCTGAGAGGGAAAGCA
TAGCCCTTGGCGCTTCCTTCATCCTTGATTTCAGCCATATCGGATGTTCA
						
					

						Genomic sequence
						
							ATGGAGTCCTTGATAGCGTCTATGGCAGCTTGAGCGGGAAGGAAAGCTTCAACGTCGACTTTCT
TGTTCTCGTTCTTCTTGTCTAAAAACATTGTTTGTTAAGTGAAAACTGAAAACAAATCATAAGC
GAAAACAAAATTATACGTTAAATGCAACATGTCTCTGTAGGATACAGTCCTCAAAGAAGCGACG
GATTTCAGCTAGACGGTGAGGGGGAAGCTCTTTGATGTCTCTGTAGTGACGGAACTCGGGATCA
TCAGCACATACTGCAATGATCTTGTCGTCTTTCTCACCCTGCAAGTTTCAGAACAAGGTGATTC
CTGGTTTCTTACTAAGGTAATACATTACATAGAGGTAGAATTGGGTTTAAGAGTTTTTGTTACC
TGATCAATCATGGGCATTAGACCAATAGCACGGGCACGGAGGAATGATCCGGTTAGCACAGGCT
CCTGCACAGTATTTTATCTCAAGTCTGTTATTTCACTGCCTGTTTACATCAAGTTTGTATGAAC
ATGAAAGCTAAGATGAGGCGAGAGAAAGCACCTGCATCAGTACCAGGACATCCATTGGATCACT
GTCTTCACAGATAGTTCGAGGGATGAAACCGTAGTTGTGGGGGTACACAATGGATGAGTAGAGA
ACGCGATCAACCTAGAGAGGAAAACTTTCAGTGATCAGAGTTTTTCTTCATTTCGACTCTTACG
GTGAAGGATATTTAGTTGGAATGCATAAAATGTGACTTATGATATATCTAGCAACAAAGAATTC
CTCATATAACCGCATAATCAGACTATATATTGAGGGATCAGAAGACAGGTTATACTCAATCAAA
GCATATATGATGCAAGCAGAGACTGCCAAAGAACACTGTACCTTAATAAGGCCACTGTTCTTGT
CTAGCTCGTACTTAACCTTTCCACCTTTGCTAATTTCAACAACCTGACAAAGAATTCAAGCACA
TTTAACAATCACAAGACCAGCACTAACTTTCTTAATATGATCTAATCTTCCGCAATGTAGAAGA
AGATAAAACTTACACAGTTGAAAACAGTAGGAGCTTCTGGACCTGAAAGATTCAACAAACAAAA
CACTTACATCAAACAATCAACACTTGACTCACATGACTATTCAAAGTAACAAAGACAAGGATTC
TTACCAATCTCCAAGTCATGCCAAGGATGAGCAGCAGCTGATCTGTGAGTGAAGGCTGCAAAGT
TTCTCTCATTCAGCGTAACATTAGGGTTCCTGAGAGGGAAAGCATAGCCCTTGGCGCTTCCTTC
ATCCTTGATTTCAGCCATATCGGATGTTCA
						
					

			
		

Sequences
Splice junction sequence	CAAAGTTTCTCTCATTCAGCGTAACATTAGGGTTCCTGAGAGGGAAAGCATAGCCCTTGGCGCT TCCTTCATCCTTGATTTCAGCCATATCGGATGTTCAatggagtccttgatagcgtctatggcag cttgagcgggaaggaaagcttcaacgtcgactttcttgttctcgttcttcttgtctaaaaacat tgtttgtt
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: 626 Transcript exons: 7932263-7932344,7932436-7932556,7932646-7932711,7932806- 7932913,7933136-7933201,7933300-7933328,7933419-7933572 ATGGAGTCCTTGATAGCGTCTATGGCAGCTTGAGCGGGAAGGAAAGCTTCAACGTCGACTTTCT TGTTCTCGTTCTTCTTGTAGTCCTCAAAGAAGCGACGGATTTCAGCTAGACGGTGAGGGGGAAG CTCTTTGATGTCTCTGTAGTGACGGAACTCGGGATCATCAGCACATACTGCAATGATCTTGTCG TCTTTCTCACCCTGATCAATCATGGGCATTAGACCAATAGCACGGGCACGGAGGAATGATCCGG TTAGCACAGGCTCCTGCATCAGTACCAGGACATCCATTGGATCACTGTCTTCACAGATAGTTCG AGGGATGAAACCGTAGTTGTGGGGGTACACAATGGATGAGTAGAGAACGCGATCAACCTTAATA AGGCCACTGTTCTTGTCTAGCTCGTACTTAACCTTTCCACCTTTGCTAATTTCAACAACACAGT TGAAAACAGTAGGAGCTTCTGGACCAATCTCCAAGTCATGCCAAGGATGAGCAGCAGCTGATCT GTGAGTGAAGGCTGCAAAGTTTCTCTCATTCAGCGTAACATTAGGGTTCCTGAGAGGGAAAGCA TAGCCCTTGGCGCTTCCTTCATCCTTGATTTCAGCCATATCGGATGTTCA
Genomic sequence	ATGGAGTCCTTGATAGCGTCTATGGCAGCTTGAGCGGGAAGGAAAGCTTCAACGTCGACTTTCT TGTTCTCGTTCTTCTTGTCTAAAAACATTGTTTGTTAAGTGAAAACTGAAAACAAATCATAAGC GAAAACAAAATTATACGTTAAATGCAACATGTCTCTGTAGGATACAGTCCTCAAAGAAGCGACG GATTTCAGCTAGACGGTGAGGGGGAAGCTCTTTGATGTCTCTGTAGTGACGGAACTCGGGATCA TCAGCACATACTGCAATGATCTTGTCGTCTTTCTCACCCTGCAAGTTTCAGAACAAGGTGATTC CTGGTTTCTTACTAAGGTAATACATTACATAGAGGTAGAATTGGGTTTAAGAGTTTTTGTTACC TGATCAATCATGGGCATTAGACCAATAGCACGGGCACGGAGGAATGATCCGGTTAGCACAGGCT CCTGCACAGTATTTTATCTCAAGTCTGTTATTTCACTGCCTGTTTACATCAAGTTTGTATGAAC ATGAAAGCTAAGATGAGGCGAGAGAAAGCACCTGCATCAGTACCAGGACATCCATTGGATCACT GTCTTCACAGATAGTTCGAGGGATGAAACCGTAGTTGTGGGGGTACACAATGGATGAGTAGAGA ACGCGATCAACCTAGAGAGGAAAACTTTCAGTGATCAGAGTTTTTCTTCATTTCGACTCTTACG GTGAAGGATATTTAGTTGGAATGCATAAAATGTGACTTATGATATATCTAGCAACAAAGAATTC CTCATATAACCGCATAATCAGACTATATATTGAGGGATCAGAAGACAGGTTATACTCAATCAAA GCATATATGATGCAAGCAGAGACTGCCAAAGAACACTGTACCTTAATAAGGCCACTGTTCTTGT CTAGCTCGTACTTAACCTTTCCACCTTTGCTAATTTCAACAACCTGACAAAGAATTCAAGCACA TTTAACAATCACAAGACCAGCACTAACTTTCTTAATATGATCTAATCTTCCGCAATGTAGAAGA AGATAAAACTTACACAGTTGAAAACAGTAGGAGCTTCTGGACCTGAAAGATTCAACAAACAAAA CACTTACATCAAACAATCAACACTTGACTCACATGACTATTCAAAGTAACAAAGACAAGGATTC TTACCAATCTCCAAGTCATGCCAAGGATGAGCAGCAGCTGATCTGTGAGTGAAGGCTGCAAAGT TTCTCTCATTCAGCGTAACATTAGGGTTCCTGAGAGGGAAAGCATAGCCCTTGGCGCTTCCTTC ATCCTTGATTTCAGCCATATCGGATGTTCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.330069799

Conservation Information
Conserved circRNAs	NA
PMCS	0.330069799

			
						 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 AT2G18230_circ_g.1

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