Plant Circular RNA Database

Detail information of AT3G15880_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT3G15880_circ_g.2
					
						ID in PlantcircBase
						ath_circ_021996
					
						Alias
						3:5366365-5368461
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 5366365-5368461  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G15880						
					
						Parent gene annotation
						
							WUS-interacting protein 2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G15880_circ_g.1 AT3G15880_circ_g.3 AT3G15880_circ_g.4 AT3G15880_circ_g.5 AT3G15880_circ_g.6 AT3G15880_circ_g.7 AT3G15880_circ_g.8 AT3G15880_circ_g.9 AT3G15880_circ_g.10 AT3G15880_circ_g.11 AT3G15880_circ_g.12 AT3G15880_circ_g.13 AT3G15880_circ_g.14 AT3G15880_circ_g.15 						
					
						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
						AT3G15880.4:8
AT3G15880.1:8
AT3G15880.2:8
AT3G15880.3:8

General Information
CircRNA Name	AT3G15880_circ_g.2
ID in PlantcircBase	ath_circ_021996
Alias	3:5366365-5368461
Organism	Arabidpsis thaliana
Position	chr3: 5366365-5368461 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G15880
Parent gene annotation	WUS-interacting protein 2
Parent gene strand	-
Alternative splicing	AT3G15880_circ_g.1 AT3G15880_circ_g.3 AT3G15880_circ_g.4 AT3G15880_circ_g.5 AT3G15880_circ_g.6 AT3G15880_circ_g.7 AT3G15880_circ_g.8 AT3G15880_circ_g.9 AT3G15880_circ_g.10 AT3G15880_circ_g.11 AT3G15880_circ_g.12 AT3G15880_circ_g.13 AT3G15880_circ_g.14 AT3G15880_circ_g.15
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	AT3G15880.4:8 AT3G15880.1:8 AT3G15880.2:8 AT3G15880.3:8

			
						 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  
						
							AAACCTTGATTGTCTTGTCTTCTCCACAAGTCACAACACATAATTGCTGGTTTGGTTGGGAGAA
AGCAAGATCGTTGACATTACCAGCATGGGCATCAATctttcccaaaagattccgctcactcttt
tgccatttccatagtttatgtgcagcattttctgctaatgccaatatagcacctccagaatttg
tatatatc

									
								

					

						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: 1074
Transcript exons: 5366365-5366475,5366761-5366904,5367013-5367111,5367204-
5367368,5367448-5367682,5367777-5367904,5368197-5368292,
5368366-5368461
CTTTCCCAAAAGATTCCGCTCACTCTTTTGCCATTTCCATAGTTTATGTGCAGCATTTTCTGCT
AATGCCAATATAGCACCTCCAGAATTTGTATATATCAACTTAACAACTCTTGCTGGTAGCAGGG
TGTCAGGAAGCCGCAGAGTACGAAGCTGGGAACGTTCACTGATCTCAGTCAGCTTCCAAGTCTT
TGATTTCTCTGCATCATCAGCGATTCGTGGTTTGACATCTGGCAGACTGCGATTATCTCCATTC
AATCCAGTAACAGATGCCACTGGTCCACTTCTTTCACCCATTGATAGACTCATTCCAGTGCTTG
AATTTGGAGTGCCAAATGTGCCAACAATAGGACCCTTAGCAACTGACCCAGGAGGAGCTCTAGA
GCTATCAAGGCCACGGTTTGCCATGGAATGCAAAATTCTGGAACCTTCAGCATTCGCTAGAATC
TTAATTCCGTTATCAGTAGTTGAGACGGCCAGCAGAGTTCCTTCTTTATTGATCCTTAAGCAAG
GGGAAGACGGTAAACCCCCTTCTGCAGCCGTTGAACTCAAGAGATCAACACTATCCATATCCCA
AAATTTGACTTGGAATTCATCACCAGCTACCAAAAATTTATTCTTCATGGTGTCGAACTGGACA
ACCCCCACAGACCGTTTCCCCAGTCCAAGATAAGTCCGCTTCACAGCTCCTTCACTTTCATTCC
ATTCAACAATGAATGACTCCCCCTCCTTACTAGTACCACAAGAAAATAATCTAGTCCCATCAGC
ACAATATGCCATCGACGTGCAAGATCGACCGGGGGCATCATAATCCACTCTAGAACCCATGTTG
TCATATAACCAAGCCTTTATTTTCCCATCAACAGCAGTTGAGAATATGAACTGAATATTCTCTT
TCTGGTGTGGGCACACGGAATAAACAGGTGCCTCATGACCTTCAAAAGTGTGCAATTTATTTCC
GGTAACAGCATCCCAGACCTTGATTGTCTTGTCTTCTCCACAAGTCACAACACATAATTGCTGG
TTTGGTTGGGAGAAAGCAAGATCGTTGACATTACCAGCATGGGCATCAAT
						
					

						Genomic sequence
						
							CTTTCCCAAAAGATTCCGCTCACTCTTTTGCCATTTCCATAGTTTATGTGCAGCATTTTCTGCT
AATGCCAATATAGCACCTCCAGAATTTGTATATATCAACTTAACAACCTGCATCGAGAAATAAG
ATGACATCATGACCAAGATAAGAAGAGAGAATCAGACAAAGGACTCCAGAAATAAGTTTTATGC
AAAGGAAACTTTAAGATAATTTTCATTTGAACTACTAGTAATGAAAATTGTCTATTTAATCATA
GAATTCCAAATATAATAAAAGGAAGTATTTTAGCTCTAATAGTGGGAAATGATTGCTATATCAT
TCTTTTAAAGTAAGGTCTGCAACGCATCCTAGTTGGAACAAAATGACAACATGTTTCAAATAGA
TTGGATACATACTCTTGCTGGTAGCAGGGTGTCAGGAAGCCGCAGAGTACGAAGCTGGGAACGT
TCACTGATCTCAGTCAGCTTCCAAGTCTTTGATTTCTCTGCATCATCAGCGATTCGTGGTTTGA
CATCTGGCAGACTGCGATTATCTCCATTCTAAAACCAAAAAATTATGAATAAACTTAGCAGGAA
TTCAGTAAAGCGTTTTGAATGAAAATATCTAACCGAACAAAATATCTTAAAACATTTCACAGGT
AGGATTACCAATCCAGTAACAGATGCCACTGGTCCACTTCTTTCACCCATTGATAGACTCATTC
CAGTGCTTGAATTTGGAGTGCCAAATGTGCCAACAATAGGACCCTAAAACAAAAATCATGCATT
CAAATTTTTTGTTTTCTGCAATAGCAACCAGCCAGAACAGAATAAGAAAGAATATGATGACAAG
TGTTTACCTTAGCAACTGACCCAGGAGGAGCTCTAGAGCTATCAAGGCCACGGTTTGCCATGGA
ATGCAAAATTCTGGAACCTTCAGCATTCGCTAGAATCTTAATTCCGTTATCAGTAGTTGAGACG
GCCAGCAGAGTTCCTTCTTTATTGATCCTTAAGCAAGGGGAAGACTATTGATATTAAGTTAGCA
ACCAATTCTTTTAAAGGTCAATACTACAAACAGCAATTGAGGTAGACATAGACCCTTACCGGTA
AACCCCCTTCTGCAGCCGTTGAACTCAAGAGATCAACACTATCCATATCCCAAAATTTGACTTG
GAATTCATCACCAGCTACCAAAAATTTATTCTTCATGGTGTCGAACTGGACAACCCCCACAGAC
CGTTTCCCCAGTCCAAGATAAGTCCGCTTCACAGCTCCTTCACTTTCATTCCATTCAACAATGA
ATGACTCCCCCTCCTTACTAGTACCACAAGAAAATAATCTACAACAAACGAGAAGATAAACAAG
ATATGAACAAAAGGATAGATAAGTACAGCATAATAAGATTATAATATTACAGCATGGGAATCAT
TTACCTAGTCCCATCAGCACAATATGCCATCGACGTGCAAGATCGACCGGGGGCATCATAATCC
ACTCTAGAACCCATGTTGTCATATAACCAAGCCTTTATTTTCCCATCAACAGCAGTTGAGAATA
TGAACTGACAGAAAGAAAAAATCCCCATTATAACTATCTCAATGGCCAAAGAGAGCAAAAGTGA
AAAATCTTGCACAGACTATAAATGTAGATTGAGAAACATAAAACTGCTCACATCATTGTATAGC
AATACACTTGTAATTATCATAACATAAATTTGACAAAAGATGGAAATGCGAGAAATTAGGCATT
CTGCTTGAGCAGAGAACACCAAATAGACAATTGGTAAACGAGATTGCATCTAATTGGATGCCTT
AAAATAAAGAGCAAGAGACACTTTATGCATTCTACTCTACCTGAATATTCTCTTTCTGGTGTGG
GCACACGGAATAAACAGGTGCCTCATGACCTTCAAAAGTGTGCAATTTATTTCCGGTAACAGCA
TCCCAGACCTGTATAGAAATTATTTATATAAGCAGGATGGTCTCATTATACAAATGTAAAAACA
TACGTCAAGATGCAAACCTTGATTGTCTTGTCTTCTCCACAAGTCACAACACATAATTGCTGGT
TTGGTTGGGAGAAAGCAAGATCGTTGACATTACCAGCATGGGCATCAAT
						
					

			
		

Sequences
Splice junction sequence	AAACCTTGATTGTCTTGTCTTCTCCACAAGTCACAACACATAATTGCTGGTTTGGTTGGGAGAA AGCAAGATCGTTGACATTACCAGCATGGGCATCAATctttcccaaaagattccgctcactcttt tgccatttccatagtttatgtgcagcattttctgctaatgccaatatagcacctccagaatttg tatatatc
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: 1074 Transcript exons: 5366365-5366475,5366761-5366904,5367013-5367111,5367204- 5367368,5367448-5367682,5367777-5367904,5368197-5368292, 5368366-5368461 CTTTCCCAAAAGATTCCGCTCACTCTTTTGCCATTTCCATAGTTTATGTGCAGCATTTTCTGCT AATGCCAATATAGCACCTCCAGAATTTGTATATATCAACTTAACAACTCTTGCTGGTAGCAGGG TGTCAGGAAGCCGCAGAGTACGAAGCTGGGAACGTTCACTGATCTCAGTCAGCTTCCAAGTCTT TGATTTCTCTGCATCATCAGCGATTCGTGGTTTGACATCTGGCAGACTGCGATTATCTCCATTC AATCCAGTAACAGATGCCACTGGTCCACTTCTTTCACCCATTGATAGACTCATTCCAGTGCTTG AATTTGGAGTGCCAAATGTGCCAACAATAGGACCCTTAGCAACTGACCCAGGAGGAGCTCTAGA GCTATCAAGGCCACGGTTTGCCATGGAATGCAAAATTCTGGAACCTTCAGCATTCGCTAGAATC TTAATTCCGTTATCAGTAGTTGAGACGGCCAGCAGAGTTCCTTCTTTATTGATCCTTAAGCAAG GGGAAGACGGTAAACCCCCTTCTGCAGCCGTTGAACTCAAGAGATCAACACTATCCATATCCCA AAATTTGACTTGGAATTCATCACCAGCTACCAAAAATTTATTCTTCATGGTGTCGAACTGGACA ACCCCCACAGACCGTTTCCCCAGTCCAAGATAAGTCCGCTTCACAGCTCCTTCACTTTCATTCC ATTCAACAATGAATGACTCCCCCTCCTTACTAGTACCACAAGAAAATAATCTAGTCCCATCAGC ACAATATGCCATCGACGTGCAAGATCGACCGGGGGCATCATAATCCACTCTAGAACCCATGTTG TCATATAACCAAGCCTTTATTTTCCCATCAACAGCAGTTGAGAATATGAACTGAATATTCTCTT TCTGGTGTGGGCACACGGAATAAACAGGTGCCTCATGACCTTCAAAAGTGTGCAATTTATTTCC GGTAACAGCATCCCAGACCTTGATTGTCTTGTCTTCTCCACAAGTCACAACACATAATTGCTGG TTTGGTTGGGAGAAAGCAAGATCGTTGACATTACCAGCATGGGCATCAAT
Genomic sequence	CTTTCCCAAAAGATTCCGCTCACTCTTTTGCCATTTCCATAGTTTATGTGCAGCATTTTCTGCT AATGCCAATATAGCACCTCCAGAATTTGTATATATCAACTTAACAACCTGCATCGAGAAATAAG ATGACATCATGACCAAGATAAGAAGAGAGAATCAGACAAAGGACTCCAGAAATAAGTTTTATGC AAAGGAAACTTTAAGATAATTTTCATTTGAACTACTAGTAATGAAAATTGTCTATTTAATCATA GAATTCCAAATATAATAAAAGGAAGTATTTTAGCTCTAATAGTGGGAAATGATTGCTATATCAT TCTTTTAAAGTAAGGTCTGCAACGCATCCTAGTTGGAACAAAATGACAACATGTTTCAAATAGA TTGGATACATACTCTTGCTGGTAGCAGGGTGTCAGGAAGCCGCAGAGTACGAAGCTGGGAACGT TCACTGATCTCAGTCAGCTTCCAAGTCTTTGATTTCTCTGCATCATCAGCGATTCGTGGTTTGA CATCTGGCAGACTGCGATTATCTCCATTCTAAAACCAAAAAATTATGAATAAACTTAGCAGGAA TTCAGTAAAGCGTTTTGAATGAAAATATCTAACCGAACAAAATATCTTAAAACATTTCACAGGT AGGATTACCAATCCAGTAACAGATGCCACTGGTCCACTTCTTTCACCCATTGATAGACTCATTC CAGTGCTTGAATTTGGAGTGCCAAATGTGCCAACAATAGGACCCTAAAACAAAAATCATGCATT CAAATTTTTTGTTTTCTGCAATAGCAACCAGCCAGAACAGAATAAGAAAGAATATGATGACAAG TGTTTACCTTAGCAACTGACCCAGGAGGAGCTCTAGAGCTATCAAGGCCACGGTTTGCCATGGA ATGCAAAATTCTGGAACCTTCAGCATTCGCTAGAATCTTAATTCCGTTATCAGTAGTTGAGACG GCCAGCAGAGTTCCTTCTTTATTGATCCTTAAGCAAGGGGAAGACTATTGATATTAAGTTAGCA ACCAATTCTTTTAAAGGTCAATACTACAAACAGCAATTGAGGTAGACATAGACCCTTACCGGTA AACCCCCTTCTGCAGCCGTTGAACTCAAGAGATCAACACTATCCATATCCCAAAATTTGACTTG GAATTCATCACCAGCTACCAAAAATTTATTCTTCATGGTGTCGAACTGGACAACCCCCACAGAC CGTTTCCCCAGTCCAAGATAAGTCCGCTTCACAGCTCCTTCACTTTCATTCCATTCAACAATGA ATGACTCCCCCTCCTTACTAGTACCACAAGAAAATAATCTACAACAAACGAGAAGATAAACAAG ATATGAACAAAAGGATAGATAAGTACAGCATAATAAGATTATAATATTACAGCATGGGAATCAT TTACCTAGTCCCATCAGCACAATATGCCATCGACGTGCAAGATCGACCGGGGGCATCATAATCC ACTCTAGAACCCATGTTGTCATATAACCAAGCCTTTATTTTCCCATCAACAGCAGTTGAGAATA TGAACTGACAGAAAGAAAAAATCCCCATTATAACTATCTCAATGGCCAAAGAGAGCAAAAGTGA AAAATCTTGCACAGACTATAAATGTAGATTGAGAAACATAAAACTGCTCACATCATTGTATAGC AATACACTTGTAATTATCATAACATAAATTTGACAAAAGATGGAAATGCGAGAAATTAGGCATT CTGCTTGAGCAGAGAACACCAAATAGACAATTGGTAAACGAGATTGCATCTAATTGGATGCCTT AAAATAAAGAGCAAGAGACACTTTATGCATTCTACTCTACCTGAATATTCTCTTTCTGGTGTGG GCACACGGAATAAACAGGTGCCTCATGACCTTCAAAAGTGTGCAATTTATTTCCGGTAACAGCA TCCCAGACCTGTATAGAAATTATTTATATAAGCAGGATGGTCTCATTATACAAATGTAAAAACA TACGTCAAGATGCAAACCTTGATTGTCTTGTCTTCTCCACAAGTCACAACACATAATTGCTGGT TTGGTTGGGAGAAAGCAAGATCGTTGACATTACCAGCATGGGCATCAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.241346252

Conservation Information
Conserved circRNAs	NA
PMCS	0.241346252

			
						 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 AT3G15880_circ_g.2

Address

Any questions?

Supported by