Plant Circular RNA Database

Detail information of AT1G29200_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G29200_circ_g.1
					
						ID in PlantcircBase
						ath_circ_004757
					
						Alias
						1:10208589-10209358
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 10208589-10209358  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G29200						
					
						Parent gene annotation
						
							O-fucosyltransferase 8
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						1/1
					
						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
						AT1G29200.1:4
AT1G29200.2:4
AT1G29200.4:4
AT1G29200.3:4

General Information
CircRNA Name	AT1G29200_circ_g.1
ID in PlantcircBase	ath_circ_004757
Alias	1:10208589-10209358
Organism	Arabidpsis thaliana
Position	chr1: 10208589-10209358 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G29200
Parent gene annotation	O-fucosyltransferase 8
Parent gene strand	+
Alternative splicing	NA
Support reads	1/1
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	AT1G29200.1:4 AT1G29200.2:4 AT1G29200.4:4 AT1G29200.3:4

			
						 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  
						
							CATCGAACATGTTCTTCCTTTGTTAAAGAAGTATGGAATGGTTCATCTTTTCGGATACGGGAAT
CGCCTCGGGTTTGATCCATTGCCTTTTGACGTTCAGaatgaattcaaacccgatacaccaaact
tccgggaggaaagatcttcaaagtcatcacagtggaagccttgtgcagataataacaaagcagc
tgtggcat

						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: 528
Transcript exons: 10208589-10208765,10208843-10208931,10209014-10209131,10
209215-10209358
AATGAATTCAAACCCGATACACCAAACTTCCGGGAGGAAAGATCTTCAAAGTCATCACAGTGGA
AGCCTTGTGCAGATAATAACAAAGCAGCTGTGGCATTAGAGAGGTCTAGAGAATTAAGCAATGG
TTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCTATCTGTAACGCTGTT
GCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTTCCTCGGTTTCTTTACAGCAATGTATGGA
AAGATCCTAGCCAATTTGGTGATATATACCAAGAGGATCATTTTATCGAGTATCTGAAAGATGA
GGTGAATATAGTGAAGAATCTTCCTCAACATCTAAAATCTACTGATAACAAGAATCTCAGCTTG
GTTACTGATACGGAGCTTGTAAAAGAGGCAACACCAGTCGATTACATCGAACATGTTCTTCCTT
TGTTAAAGAAGTATGGAATGGTTCATCTTTTCGGATACGGGAATCGCCTCGGGTTTGATCCATT
GCCTTTTGACGTTCAG
						
						Genomic sequence
						
							AATGAATTCAAACCCGATACACCAAACTTCCGGGAGGAAAGATCTTCAAAGTCATCACAGTGGA
AGCCTTGTGCAGATAATAACAAAGCAGCTGTGGCATTAGAGAGGTCTAGAGAATTAAGCAATGG
TTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCTGTAAGTATATACCAA
AGTAATCATTATATATTTGATTCATCAAGAAAGTATATATAGTGAATGTTAGTTTCTTGCAGAT
CTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTTCCTCGGTTTCTTTAC
AGCAATGTATGGAAAGATCCTAGGTATTTTAAACTCCTCAAGACTTTCAAAATTTATTATAAAA
AAAATTTGTTTGTTGATTTTGCGAAAGTGCGTAAATGGCAGCCAATTTGGTGATATATACCAAG
AGGATCATTTTATCGAGTATCTGAAAGATGAGGTGAATATAGTGAAGAATCTTCCTCAACATCT
AAAATCTACTGATAACAAGAATCTCAGCTTGGTGTGTTTTTGAACTCCCTTTTTTCCTTGTCCG
GTCTAATTTATTGGAGATGCAAAATTCATAATGTTTGTTTTTCTACATAGGTTACTGATACGGA
GCTTGTAAAAGAGGCAACACCAGTCGATTACATCGAACATGTTCTTCCTTTGTTAAAGAAGTAT
GGAATGGTTCATCTTTTCGGATACGGGAATCGCCTCGGGTTTGATCCATTGCCTTTTGACGTTC
AG

Sequences
Splice junction sequence	CATCGAACATGTTCTTCCTTTGTTAAAGAAGTATGGAATGGTTCATCTTTTCGGATACGGGAAT CGCCTCGGGTTTGATCCATTGCCTTTTGACGTTCAGaatgaattcaaacccgatacaccaaact tccgggaggaaagatcttcaaagtcatcacagtggaagccttgtgcagataataacaaagcagc tgtggcat
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: 528 Transcript exons: 10208589-10208765,10208843-10208931,10209014-10209131,10 209215-10209358 AATGAATTCAAACCCGATACACCAAACTTCCGGGAGGAAAGATCTTCAAAGTCATCACAGTGGA AGCCTTGTGCAGATAATAACAAAGCAGCTGTGGCATTAGAGAGGTCTAGAGAATTAAGCAATGG TTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCTATCTGTAACGCTGTT GCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTTCCTCGGTTTCTTTACAGCAATGTATGGA AAGATCCTAGCCAATTTGGTGATATATACCAAGAGGATCATTTTATCGAGTATCTGAAAGATGA GGTGAATATAGTGAAGAATCTTCCTCAACATCTAAAATCTACTGATAACAAGAATCTCAGCTTG GTTACTGATACGGAGCTTGTAAAAGAGGCAACACCAGTCGATTACATCGAACATGTTCTTCCTT TGTTAAAGAAGTATGGAATGGTTCATCTTTTCGGATACGGGAATCGCCTCGGGTTTGATCCATT GCCTTTTGACGTTCAG
Genomic sequence	AATGAATTCAAACCCGATACACCAAACTTCCGGGAGGAAAGATCTTCAAAGTCATCACAGTGGA AGCCTTGTGCAGATAATAACAAAGCAGCTGTGGCATTAGAGAGGTCTAGAGAATTAAGCAATGG TTACATCATGGTTAGTGCAAATGGAGGCCTTAATCAACAGCGCGTGGCTGTAAGTATATACCAA AGTAATCATTATATATTTGATTCATCAAGAAAGTATATATAGTGAATGTTAGTTTCTTGCAGAT CTGTAACGCTGTTGCGGTTGCTGCTCTGCTCAACGCGACTCTAGTTCTTCCTCGGTTTCTTTAC AGCAATGTATGGAAAGATCCTAGGTATTTTAAACTCCTCAAGACTTTCAAAATTTATTATAAAA AAAATTTGTTTGTTGATTTTGCGAAAGTGCGTAAATGGCAGCCAATTTGGTGATATATACCAAG AGGATCATTTTATCGAGTATCTGAAAGATGAGGTGAATATAGTGAAGAATCTTCCTCAACATCT AAAATCTACTGATAACAAGAATCTCAGCTTGGTGTGTTTTTGAACTCCCTTTTTTCCTTGTCCG GTCTAATTTATTGGAGATGCAAAATTCATAATGTTTGTTTTTCTACATAGGTTACTGATACGGA GCTTGTAAAAGAGGCAACACCAGTCGATTACATCGAACATGTTCTTCCTTTGTTAAAGAAGTAT GGAATGGTTCATCTTTTCGGATACGGGAATCGCCTCGGGTTTGATCCATTGCCTTTTGACGTTC AG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.317928557

Conservation Information
Conserved circRNAs	NA
PMCS	0.317928557

			
						 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 AT1G29200_circ_g.1

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