Plant Circular RNA Database

Detail information of AT2G42950_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT2G42950_circ_g.2
					
						ID in PlantcircBase
						ath_circ_018046
					
						Alias
						2:17864298-17865933
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 17864298-17865933  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT2G42950						
					
						Parent gene annotation
						
							At2g42950
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G42950_circ_g.1 AT2G42950_circ_g.3 AT2G42950_circ_g.4 						
					
						Support reads
						3
					
						Tissues
						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  
						
							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
						AT2G42950.2:6
AT2G42950.1:6

General Information
CircRNA Name	AT2G42950_circ_g.2
ID in PlantcircBase	ath_circ_018046
Alias	2:17864298-17865933
Organism	Arabidpsis thaliana
Position	chr2: 17864298-17865933 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT2G42950
Parent gene annotation	At2g42950
Parent gene strand	+
Alternative splicing	AT2G42950_circ_g.1 AT2G42950_circ_g.3 AT2G42950_circ_g.4
Support reads	3
Tissues	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	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	AT2G42950.2:6 AT2G42950.1:6

			
						 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  
						
							AAAGAGCACCCGCGATATGATCAATGAACAAGAGGCCGTGCGAGGTCGGTTATTCACTATCCAA
GATGTCATGCAAAACACGGTTCGAGCATGGTTACAGaaagaaacaggaatgtgaaacagatcaa
tttggtactggtgaagacgaagaacattctaggagttattggcgaggaattggatgggatagga
tctctgag

									
								

					

						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: 979
Transcript exons: 17864298-17864661,17864751-17864939,17865037-17865128,17
865419-17865478,17865570-17865639,17865730-17865933
AAAGAAACAGGAATGTGAAACAGATCAATTTGGTACTGGTGAAGACGAAGAACATTCTAGGAGT
TATTGGCGAGGAATTGGATGGGATAGGATCTCTGAGCTTGTTCAGACTGTTCAAGTTGATAATA
ATTGGGATTTGCGAAAGATTGACTTAGATGAGGATGAAGCCACTGTTGCTGAGCTTGCTGCTCC
TTACTGGGAACGACCACTTGCTGGTCCAACTTGGTGGTGTCATCTTGATGCTACCCATCATGGT
ATTGCCTCGTGGTTACGTAATGCGCATTGGTTACATCCCGCGGTCAGTCTTGCTCTGCGGGACG
AAAGCAAACTGATTAGTGAACGAATGAAACATATTTTCTATGAGGTGCCTGTCAGAGTTGCTGG
TGGGTTGCTGTTTGAGCTGTTGGGACAATCAGCGGGTGATCCTTTCATCCAAGAAGATGACATA
CCTATTGTCTTAAGGTCTTGGCAAGCACAGAATTTTCTGGTGACTGCATTGCACGTTAAAGGCT
TTGCCTTGAACATTAGTGTCTTAGGTATTACTGAAGTCCAGGAAATGCTTATTGCTGGTGGAGC
CTGCATTCCGAGAACCGTTCATGAACTAATAGCACATCTTGCATGCCGCCTTGCACGCTGGGAT
GATAGGCTATTCCGGAAGTATATATTTGGTGCAGCTGATGAAGTTGAGTTGATGTTTATGAATA
AGAGACTGTACGAGGACCCAAATCTGTTCACTACAATCTTGAATCAAGAGATCAGAAGGCTGTC
GACCCAGGTTATACGGGTGAAATGGTCGCTTCATGCTAGAGAAGAGATTGTGTTCGAGCTTCTT
CAGCAACTAAAAGGCAATAGAACAAAAGACTTGCTAGAAGGAATAAAAAAGAGCACCCGCGATA
TGATCAATGAACAAGAGGCCGTGCGAGGTCGGTTATTCACTATCCAAGATGTCATGCAAAACAC
GGTTCGAGCATGGTTACAG
						
					

						Genomic sequence
						
							AAAGAAACAGGAATGTGAAACAGATCAATTTGGTACTGGTGAAGACGAAGAACATTCTAGGAGT
TATTGGCGAGGAATTGGATGGGATAGGATCTCTGAGCTTGTTCAGACTGTTCAAGTTGATAATA
ATTGGGATTTGCGAAAGATTGACTTAGATGAGGATGAAGCCACTGTTGCTGAGCTTGCTGCTCC
TTACTGGGAACGACCACTTGCTGGTCCAACTTGGTGGTGTCATCTTGATGCTACCCATCATGGT
ATTGCCTCGTGGTTACGTAATGCGCATTGGTTACATCCCGCGGTCAGTCTTGCTCTGCGGGACG
AAAGCAAACTGATTAGTGAACGAATGAAACATATTTTCTATGAGGTAACAAAAATCTGAGTTAT
GTTGCTTCTTTGTAATGTGAGCTGTGCTATGATTCTATAGCTGAAATTTGTTAATATGTTGGTG
GATAGGTGCCTGTCAGAGTTGCTGGTGGGTTGCTGTTTGAGCTGTTGGGACAATCAGCGGGTGA
TCCTTTCATCCAAGAAGATGACATACCTATTGTCTTAAGGTCTTGGCAAGCACAGAATTTTCTG
GTGACTGCATTGCACGTTAAAGGCTTTGCCTTGAACATTAGTGTCTTAGGTATTACTGAAGTCC
AGGTTTGTTCTTCTTATTTGAATCATTGTTTTCCTTTACTCGTTGATCAATTAGTCAAAACTGG
TTTTCAGTCTTCTGGGGTTCCTTCTGTCTTACCAGGAAATGCTTATTGCTGGTGGAGCCTGCAT
TCCGAGAACCGTTCATGAACTAATAGCACATCTTGCATGCCGCCTTGCACGCTGGGATGATAGG
TATTTCCCTTCCCTTGAATCTAGATTAAGTTGTGAAAAAAGTTGTATATATTGGGGAAGTTTAG
TATTCATTATGAAAGTCTTTAGCAGTGGATACACATTTACATGGTCTATACGGTGTAGCCAATG
AAATTGTTAAACCTTTGTATTGCTTTGATAGAACCTATTTGTCTTATCTTATTCTTAGAGTTTG
AAAGATGGGAGTCAAATGTTGAGAGAACCTTTTGATTCTTTTTCATTCTCTGGATTTGACCTTG
TGATGATTGATGATATCAATATCCTTAATGTAGGCTATTCCGGAAGTATATATTTGGTGCAGCT
GATGAAGTTGAGTTGATGTTTATGAATAAGTACTTTAACTGAGCCTTCTCTTACTTTAGTATTT
TCTTTCCTTGACATATGTCTGATGGAGCAGAATAACTTATTTTTGTTGATATCCAGGAGACTGT
ACGAGGACCCAAATCTGTTCACTACAATCTTGAATCAAGAGATCAGAAGGCTGTCGACCCAGGT
AAGGCTTTCTTGATTGACTACAAGATGAGATCAGCTAATCTGGATTAATGTTATTCATACAAGT
GACTTGTTGTTCATTATTTATTAGGTTATACGGGTGAAATGGTCGCTTCATGCTAGAGAAGAGA
TTGTGTTCGAGCTTCTTCAGCAACTAAAAGGCAATAGAACAAAAGACTTGCTAGAAGGAATAAA
AAAGAGCACCCGCGATATGATCAATGAACAAGAGGCCGTGCGAGGTCGGTTATTCACTATCCAA
GATGTCATGCAAAACACGGTTCGAGCATGGTTACAG
						
					

			
		

Sequences
Splice junction sequence	AAAGAGCACCCGCGATATGATCAATGAACAAGAGGCCGTGCGAGGTCGGTTATTCACTATCCAA GATGTCATGCAAAACACGGTTCGAGCATGGTTACAGaaagaaacaggaatgtgaaacagatcaa tttggtactggtgaagacgaagaacattctaggagttattggcgaggaattggatgggatagga tctctgag
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: 979 Transcript exons: 17864298-17864661,17864751-17864939,17865037-17865128,17 865419-17865478,17865570-17865639,17865730-17865933 AAAGAAACAGGAATGTGAAACAGATCAATTTGGTACTGGTGAAGACGAAGAACATTCTAGGAGT TATTGGCGAGGAATTGGATGGGATAGGATCTCTGAGCTTGTTCAGACTGTTCAAGTTGATAATA ATTGGGATTTGCGAAAGATTGACTTAGATGAGGATGAAGCCACTGTTGCTGAGCTTGCTGCTCC TTACTGGGAACGACCACTTGCTGGTCCAACTTGGTGGTGTCATCTTGATGCTACCCATCATGGT ATTGCCTCGTGGTTACGTAATGCGCATTGGTTACATCCCGCGGTCAGTCTTGCTCTGCGGGACG AAAGCAAACTGATTAGTGAACGAATGAAACATATTTTCTATGAGGTGCCTGTCAGAGTTGCTGG TGGGTTGCTGTTTGAGCTGTTGGGACAATCAGCGGGTGATCCTTTCATCCAAGAAGATGACATA CCTATTGTCTTAAGGTCTTGGCAAGCACAGAATTTTCTGGTGACTGCATTGCACGTTAAAGGCT TTGCCTTGAACATTAGTGTCTTAGGTATTACTGAAGTCCAGGAAATGCTTATTGCTGGTGGAGC CTGCATTCCGAGAACCGTTCATGAACTAATAGCACATCTTGCATGCCGCCTTGCACGCTGGGAT GATAGGCTATTCCGGAAGTATATATTTGGTGCAGCTGATGAAGTTGAGTTGATGTTTATGAATA AGAGACTGTACGAGGACCCAAATCTGTTCACTACAATCTTGAATCAAGAGATCAGAAGGCTGTC GACCCAGGTTATACGGGTGAAATGGTCGCTTCATGCTAGAGAAGAGATTGTGTTCGAGCTTCTT CAGCAACTAAAAGGCAATAGAACAAAAGACTTGCTAGAAGGAATAAAAAAGAGCACCCGCGATA TGATCAATGAACAAGAGGCCGTGCGAGGTCGGTTATTCACTATCCAAGATGTCATGCAAAACAC GGTTCGAGCATGGTTACAG
Genomic sequence	AAAGAAACAGGAATGTGAAACAGATCAATTTGGTACTGGTGAAGACGAAGAACATTCTAGGAGT TATTGGCGAGGAATTGGATGGGATAGGATCTCTGAGCTTGTTCAGACTGTTCAAGTTGATAATA ATTGGGATTTGCGAAAGATTGACTTAGATGAGGATGAAGCCACTGTTGCTGAGCTTGCTGCTCC TTACTGGGAACGACCACTTGCTGGTCCAACTTGGTGGTGTCATCTTGATGCTACCCATCATGGT ATTGCCTCGTGGTTACGTAATGCGCATTGGTTACATCCCGCGGTCAGTCTTGCTCTGCGGGACG AAAGCAAACTGATTAGTGAACGAATGAAACATATTTTCTATGAGGTAACAAAAATCTGAGTTAT GTTGCTTCTTTGTAATGTGAGCTGTGCTATGATTCTATAGCTGAAATTTGTTAATATGTTGGTG GATAGGTGCCTGTCAGAGTTGCTGGTGGGTTGCTGTTTGAGCTGTTGGGACAATCAGCGGGTGA TCCTTTCATCCAAGAAGATGACATACCTATTGTCTTAAGGTCTTGGCAAGCACAGAATTTTCTG GTGACTGCATTGCACGTTAAAGGCTTTGCCTTGAACATTAGTGTCTTAGGTATTACTGAAGTCC AGGTTTGTTCTTCTTATTTGAATCATTGTTTTCCTTTACTCGTTGATCAATTAGTCAAAACTGG TTTTCAGTCTTCTGGGGTTCCTTCTGTCTTACCAGGAAATGCTTATTGCTGGTGGAGCCTGCAT TCCGAGAACCGTTCATGAACTAATAGCACATCTTGCATGCCGCCTTGCACGCTGGGATGATAGG TATTTCCCTTCCCTTGAATCTAGATTAAGTTGTGAAAAAAGTTGTATATATTGGGGAAGTTTAG TATTCATTATGAAAGTCTTTAGCAGTGGATACACATTTACATGGTCTATACGGTGTAGCCAATG AAATTGTTAAACCTTTGTATTGCTTTGATAGAACCTATTTGTCTTATCTTATTCTTAGAGTTTG AAAGATGGGAGTCAAATGTTGAGAGAACCTTTTGATTCTTTTTCATTCTCTGGATTTGACCTTG TGATGATTGATGATATCAATATCCTTAATGTAGGCTATTCCGGAAGTATATATTTGGTGCAGCT GATGAAGTTGAGTTGATGTTTATGAATAAGTACTTTAACTGAGCCTTCTCTTACTTTAGTATTT TCTTTCCTTGACATATGTCTGATGGAGCAGAATAACTTATTTTTGTTGATATCCAGGAGACTGT ACGAGGACCCAAATCTGTTCACTACAATCTTGAATCAAGAGATCAGAAGGCTGTCGACCCAGGT AAGGCTTTCTTGATTGACTACAAGATGAGATCAGCTAATCTGGATTAATGTTATTCATACAAGT GACTTGTTGTTCATTATTTATTAGGTTATACGGGTGAAATGGTCGCTTCATGCTAGAGAAGAGA TTGTGTTCGAGCTTCTTCAGCAACTAAAAGGCAATAGAACAAAAGACTTGCTAGAAGGAATAAA AAAGAGCACCCGCGATATGATCAATGAACAAGAGGCCGTGCGAGGTCGGTTATTCACTATCCAA GATGTCATGCAAAACACGGTTCGAGCATGGTTACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.170914654

Conservation Information
Conserved circRNAs	NA
PMCS	0.170914654

			
						 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 AT2G42950_circ_g.2

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