Plant Circular RNA Database

Detail information of AT5G10940_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT5G10940_circ_g.6
					
						ID in PlantcircBase
						ath_circ_037492
					
						Alias
						5:3452307-3453179
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 3452307-3453179  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G10940						
					
						Parent gene annotation
						
							Putative uncharacterized protein At5g10940
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G10940_circ_g.1 AT5G10940_circ_g.2 AT5G10940_circ_g.3 AT5G10940_circ_g.4 AT5G10940_circ_g.5 AT5G10940_circ_g.7 AT5G10940_circ_g.8 AT5G10940_circ_g.9 AT5G10940_circ_g.10 						
					
						Support reads
						3
					
						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  
						
							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
						AT5G10940.1:4
AT5G10940.2:4

General Information
CircRNA Name	AT5G10940_circ_g.6
ID in PlantcircBase	ath_circ_037492
Alias	5:3452307-3453179
Organism	Arabidpsis thaliana
Position	chr5: 3452307-3453179 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G10940
Parent gene annotation	Putative uncharacterized protein At5g10940
Parent gene strand	-
Alternative splicing	AT5G10940_circ_g.1 AT5G10940_circ_g.2 AT5G10940_circ_g.3 AT5G10940_circ_g.4 AT5G10940_circ_g.5 AT5G10940_circ_g.7 AT5G10940_circ_g.8 AT5G10940_circ_g.9 AT5G10940_circ_g.10
Support reads	3
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	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	AT5G10940.1:4 AT5G10940.2:4

			
						 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  
						
							TTTTCACTCTTCGTGTGTGACATTGGTACAATGCTGATGGAATAATAGCATTGTCATCTTCTGC
TCTACCGCTTAACCGGGATGTATTGAATAGCCTAACacgttcagaaagatgcatgggacagaag
taattgacacacggaggtggaggcatccttttccgacttgatgccaacggtgggagcatccttc
tatcgtat

						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: 471
Transcript exons: 3452307-3452424,3452507-3452622,3452867-3452995,3453072-
3453179
ACGTTCAGAAAGATGCATGGGACAGAAGTAATTGACACACGGAGGTGGAGGCATCCTTTTCCGA
CTTGATGCCAACGGTGGGAGCATCCTTCTATCGTATAAACGAGCAAATGCATCACTTCCACCAA
CAAGAAGTAGGTGCGGTCTTGTGGCACTTATATCACAAGACTTCAGGGAGAGAGTTTGCTTTGG
AGGATCAGCTAGTGCTCTTTTGGCACCACTGCGCAGATCAAGCAGAACACTGCGGCATTCTTGG
TGAGCGGTTCCAGCAGGAGGACAAGAGGTAGATTCCCGGAAATCATGCTGCCTTAAAGTCCCAT
CTTCACTAGCACTCCATACAACATTGGGGTTACCAGGTTCGACAGCTAGTTTTTTCACTCTTCG
TGTGTGACATTGGTACAATGCTGATGGAATAATAGCATTGTCATCTTCTGCTCTACCGCTTAAC
CGGGATGTATTGAATAGCCTAAC
						
						Genomic sequence
						
							ACGTTCAGAAAGATGCATGGGACAGAAGTAATTGACACACGGAGGTGGAGGCATCCTTTTCCGA
CTTGATGCCAACGGTGGGAGCATCCTTCTATCGTATAAACGAGCAAATGCATCACTGCCAAAGA
TGAAAAAAGAGAGTAGCAAGTTAGTTAAGAAATAAGGAGAGAACTCTGATCCAAAAACATGGAA
GCAAATACCTTCCACCAACAAGAAGTAGGTGCGGTCTTGTGGCACTTATATCACAAGACTTCAG
GGAGAGAGTTTGCTTTGGAGGATCAGCTAGTGCTCTTTTGGCACCACTGCGCAGATCAAGCTGC
AAAATTCAGAGCTATCAACAACTTTCATTTGCAGAAGAAAGTTTTCATAAGAGCCACACCTATA
ACTATACGTCTACAAAGTATCCAGATAGGGCTCATATGATATTCAAACATCCACAAAAAAACTC
TGATTATAGACAAGTATCAAAATACTGTTTTTGAGAAAGTTAAAGCCAAGATGGAAGTACTAGA
GAAATACAAACGTAATTGAAAACAATGTAACCACAGTTTGGATATCACCAGAACACTGCGGCAT
TCTTGGTGAGCGGTTCCAGCAGGAGGACAAGAGGTAGATTCCCGGAAATCATGCTGCCTTAAAG
TCCCATCTTCACTAGCACTCCATACAACATTGGGGTTACCAGGTTCGACCTACATGGTGGTAAA
AACATCTGTTAAGCAAACAGCTCAAAATGCTAGACCCAAATAATGATTAAGAGGGTCTTACAGC
TAGTTTTTTCACTCTTCGTGTGTGACATTGGTACAATGCTGATGGAATAATAGCATTGTCATCT
TCTGCTCTACCGCTTAACCGGGATGTATTGAATAGCCTAAC

Sequences
Splice junction sequence	TTTTCACTCTTCGTGTGTGACATTGGTACAATGCTGATGGAATAATAGCATTGTCATCTTCTGC TCTACCGCTTAACCGGGATGTATTGAATAGCCTAACacgttcagaaagatgcatgggacagaag taattgacacacggaggtggaggcatccttttccgacttgatgccaacggtgggagcatccttc tatcgtat
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: 471 Transcript exons: 3452307-3452424,3452507-3452622,3452867-3452995,3453072- 3453179 ACGTTCAGAAAGATGCATGGGACAGAAGTAATTGACACACGGAGGTGGAGGCATCCTTTTCCGA CTTGATGCCAACGGTGGGAGCATCCTTCTATCGTATAAACGAGCAAATGCATCACTTCCACCAA CAAGAAGTAGGTGCGGTCTTGTGGCACTTATATCACAAGACTTCAGGGAGAGAGTTTGCTTTGG AGGATCAGCTAGTGCTCTTTTGGCACCACTGCGCAGATCAAGCAGAACACTGCGGCATTCTTGG TGAGCGGTTCCAGCAGGAGGACAAGAGGTAGATTCCCGGAAATCATGCTGCCTTAAAGTCCCAT CTTCACTAGCACTCCATACAACATTGGGGTTACCAGGTTCGACAGCTAGTTTTTTCACTCTTCG TGTGTGACATTGGTACAATGCTGATGGAATAATAGCATTGTCATCTTCTGCTCTACCGCTTAAC CGGGATGTATTGAATAGCCTAAC
Genomic sequence	ACGTTCAGAAAGATGCATGGGACAGAAGTAATTGACACACGGAGGTGGAGGCATCCTTTTCCGA CTTGATGCCAACGGTGGGAGCATCCTTCTATCGTATAAACGAGCAAATGCATCACTGCCAAAGA TGAAAAAAGAGAGTAGCAAGTTAGTTAAGAAATAAGGAGAGAACTCTGATCCAAAAACATGGAA GCAAATACCTTCCACCAACAAGAAGTAGGTGCGGTCTTGTGGCACTTATATCACAAGACTTCAG GGAGAGAGTTTGCTTTGGAGGATCAGCTAGTGCTCTTTTGGCACCACTGCGCAGATCAAGCTGC AAAATTCAGAGCTATCAACAACTTTCATTTGCAGAAGAAAGTTTTCATAAGAGCCACACCTATA ACTATACGTCTACAAAGTATCCAGATAGGGCTCATATGATATTCAAACATCCACAAAAAAACTC TGATTATAGACAAGTATCAAAATACTGTTTTTGAGAAAGTTAAAGCCAAGATGGAAGTACTAGA GAAATACAAACGTAATTGAAAACAATGTAACCACAGTTTGGATATCACCAGAACACTGCGGCAT TCTTGGTGAGCGGTTCCAGCAGGAGGACAAGAGGTAGATTCCCGGAAATCATGCTGCCTTAAAG TCCCATCTTCACTAGCACTCCATACAACATTGGGGTTACCAGGTTCGACCTACATGGTGGTAAA AACATCTGTTAAGCAAACAGCTCAAAATGCTAGACCCAAATAATGATTAAGAGGGTCTTACAGC TAGTTTTTTCACTCTTCGTGTGTGACATTGGTACAATGCTGATGGAATAATAGCATTGTCATCT TCTGCTCTACCGCTTAACCGGGATGTATTGAATAGCCTAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.201979384

Conservation Information
Conserved circRNAs	NA
PMCS	0.201979384

			
						 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 AT5G10940_circ_g.6

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