Plant Circular RNA Database

Detail information of AT4G33240_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT4G33240_circ_g.3
					
						ID in PlantcircBase
						ath_circ_034361
					
						Alias
						Ath_circ_FC2955, AT4G33240_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 16032191-16033227  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI2
					
						Parent gene
						
							AT4G33240						
					
						Parent gene annotation
						
							1-phosphatidylinositol-3-phosphate 5-kinase FAB1A
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G33240_circ_g.1 AT4G33240_circ_g.2 AT4G33240_circ_g.4 						
					
						Support reads
						1/4
					
						Tissues
						root/seedlings, leaf
					
						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
						AT4G33240.1:3
AT4G33240.4:3
AT4G33240.7:3
AT4G33240.2:3
AT4G33240.3:3
AT4G33240.5:3
AT4G33240.6:3

General Information
CircRNA Name	AT4G33240_circ_g.3
ID in PlantcircBase	ath_circ_034361
Alias	Ath_circ_FC2955, AT4G33240_C1
Organism	Arabidpsis thaliana
Position	chr4: 16032191-16033227 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI2
Parent gene	AT4G33240
Parent gene annotation	1-phosphatidylinositol-3-phosphate 5-kinase FAB1A
Parent gene strand	-
Alternative splicing	AT4G33240_circ_g.1 AT4G33240_circ_g.2 AT4G33240_circ_g.4
Support reads	1/4
Tissues	root/seedlings, leaf
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	AT4G33240.1:3 AT4G33240.4:3 AT4G33240.7:3 AT4G33240.2:3 AT4G33240.3:3 AT4G33240.5:3 AT4G33240.6:3

			
						 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  
						
							CAGGCAGTTTCTTAACAGATATTGTCAGACTACCTTGCCTATGAGTATAACAATGAATGTGTGC
TTCCGCTGGCATCGTACATGACGGGCAGCACTGATCcttatattcctttttacgttgctcaaga
agtcctgcaagttcttcaagagaaagcttgatcttgttgggagtgctgcccttggaacctgcgc
ccatagtt

									
								

					

						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: 138
Transcript exons: 16032191-16032286,16033186-16033227
CTTATATTCCTTTTTACGTTGCTCAAGAAGTCCTGCAAGTTCTTCAAGAGAAAGCTTGATCTTG
TTGGGAGTGCTGCCCTTGGAACCTGCGCCCATGTGTGCTTCCGCTGGCATCGTACATGACGGGC
AGCACTGATC
Transcript length: 618
Transcript exons: 16032191-16032355,16032452-16032575,16032899-16033227
CTTATATTCCTTTTTACGTTGCTCAAGAAGTCCTGCAAGTTCTTCAAGAGAAAGCTTGATCTTG
TTGGGAGTGCTGCCCTTGGAACCTGCGCCCATAGTTTTCGCTGAAATTTGACTAAGAGCCTCCT
GAACCTCATTAAAAAGGACTTCCGCTTTTTTAATCACCTCTTTTGATTCCTTTTGGAGCCATTC
CTGGTTCTCATAGTTAAAATAAAGCTTTGCTGGTGGCAGAGTCACTGCGTAAATATTGATTGAA
GCATAGCGGAAGCAAGCAACCATTCTCCCAAAACCGTAGAACCGGAGACAGTCTCTGTGAAGGG
AATGACCACAGTTGGCCACACGACTAGCCGCTGCATGGTTAGAAAAGCTCAGCTCCAAAAATTT
GCCAAAAGACAGGCCCCACGCAGCATCTGACATTACAATTCTGCGTGTGGCTGGAGGAAAGCCA
TTGATCCGAGGACATTTCAGGCACCGATGCCACATCCAAATCTTCCCTTCACGTTGCCCAGGTA
GCAATTCAGGCAGTTTCTTAACAGATATTGTCAGACTACCTTGCCTATGAGTATAACAATGAAT
GTGTGCTTCCGCTGGCATCGTACATGACGGGCAGCACTGATC
						
					

						Genomic sequence
						
							CTTATATTCCTTTTTACGTTGCTCAAGAAGTCCTGCAAGTTCTTCAAGAGAAAGCTTGATCTTG
TTGGGAGTGCTGCCCTTGGAACCTGCGCCCATAGTTTTCGCTGAAATTTGACTAAGAGCCTCCT
GAACCTCATTAAAAAGGACTTCCGCTTTTTTAATCACCTATAGTATACAGACCATGACAATTAA
GTAAAATAAGACTCCTGGCTTTGTTGAATATGTACAAATATTCGATTAAAAATGTGGGAAACTT
GTAACCTCTTTTGATTCCTTTTGGAGCCATTCCTGGTTCTCATAGTTAAAATAAAGCTTTGCTG
GTGGCAGAGTCACTGCGTAAATATTGATTGAAGCATAGCGGAAGCAAGCAACCATTCTCCCAAA
ACTGCATTAAGAAAAATTTAAGTGATACTCATTACTGGCGTGGTCATGGTTGTTTAATACAAGG
CCACAACCGTCAAACATAGACTGACACTTGCCGTATAGATGACAATTAGAGAAGTGAATGACCA
ACACTACAGTACTACTTATGCAGAGCCTATCTAGACAGTACATCTGATGTAATATATACTAAGT
GCTAAGCCTGATTGCATTACGCAAGATGCTACTTGAGAATCAGACATATTGGACGAGGGAAAAT
CAGTAATGTGTAATAACAAGTGAAACAATCCGCAGAAAATATTTATATTAGGAAGCATCTATTT
ATACCCGTAGAACCGGAGACAGTCTCTGTGAAGGGAATGACCACAGTTGGCCACACGACTAGCC
GCTGCATGGTTAGAAAAGCTCAGCTCCAAAAATTTGCCAAAAGACAGGCCCCACGCAGCATCTG
ACATTACAATTCTGCGTGTGGCTGGAGGAAAGCCATTGATCCGAGGACATTTCAGGCACCGATG
CCACATCCAAATCTTCCCTTCACGTTGCCCAGGTAGCAATTCAGGCAGTTTCTTAACAGATATT
GTCAGACTACCTTGCCTATGAGTATAACAATGAATGTGTGCTTCCGCTGGCATCGTACATGACG
GGCAGCACTGATC
						
					

			
		

Sequences
Splice junction sequence	CAGGCAGTTTCTTAACAGATATTGTCAGACTACCTTGCCTATGAGTATAACAATGAATGTGTGC TTCCGCTGGCATCGTACATGACGGGCAGCACTGATCcttatattcctttttacgttgctcaaga agtcctgcaagttcttcaagagaaagcttgatcttgttgggagtgctgcccttggaacctgcgc ccatagtt
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: 138 Transcript exons: 16032191-16032286,16033186-16033227 CTTATATTCCTTTTTACGTTGCTCAAGAAGTCCTGCAAGTTCTTCAAGAGAAAGCTTGATCTTG TTGGGAGTGCTGCCCTTGGAACCTGCGCCCATGTGTGCTTCCGCTGGCATCGTACATGACGGGC AGCACTGATC Transcript length: 618 Transcript exons: 16032191-16032355,16032452-16032575,16032899-16033227 CTTATATTCCTTTTTACGTTGCTCAAGAAGTCCTGCAAGTTCTTCAAGAGAAAGCTTGATCTTG TTGGGAGTGCTGCCCTTGGAACCTGCGCCCATAGTTTTCGCTGAAATTTGACTAAGAGCCTCCT GAACCTCATTAAAAAGGACTTCCGCTTTTTTAATCACCTCTTTTGATTCCTTTTGGAGCCATTC CTGGTTCTCATAGTTAAAATAAAGCTTTGCTGGTGGCAGAGTCACTGCGTAAATATTGATTGAA GCATAGCGGAAGCAAGCAACCATTCTCCCAAAACCGTAGAACCGGAGACAGTCTCTGTGAAGGG AATGACCACAGTTGGCCACACGACTAGCCGCTGCATGGTTAGAAAAGCTCAGCTCCAAAAATTT GCCAAAAGACAGGCCCCACGCAGCATCTGACATTACAATTCTGCGTGTGGCTGGAGGAAAGCCA TTGATCCGAGGACATTTCAGGCACCGATGCCACATCCAAATCTTCCCTTCACGTTGCCCAGGTA GCAATTCAGGCAGTTTCTTAACAGATATTGTCAGACTACCTTGCCTATGAGTATAACAATGAAT GTGTGCTTCCGCTGGCATCGTACATGACGGGCAGCACTGATC
Genomic sequence	CTTATATTCCTTTTTACGTTGCTCAAGAAGTCCTGCAAGTTCTTCAAGAGAAAGCTTGATCTTG TTGGGAGTGCTGCCCTTGGAACCTGCGCCCATAGTTTTCGCTGAAATTTGACTAAGAGCCTCCT GAACCTCATTAAAAAGGACTTCCGCTTTTTTAATCACCTATAGTATACAGACCATGACAATTAA GTAAAATAAGACTCCTGGCTTTGTTGAATATGTACAAATATTCGATTAAAAATGTGGGAAACTT GTAACCTCTTTTGATTCCTTTTGGAGCCATTCCTGGTTCTCATAGTTAAAATAAAGCTTTGCTG GTGGCAGAGTCACTGCGTAAATATTGATTGAAGCATAGCGGAAGCAAGCAACCATTCTCCCAAA ACTGCATTAAGAAAAATTTAAGTGATACTCATTACTGGCGTGGTCATGGTTGTTTAATACAAGG CCACAACCGTCAAACATAGACTGACACTTGCCGTATAGATGACAATTAGAGAAGTGAATGACCA ACACTACAGTACTACTTATGCAGAGCCTATCTAGACAGTACATCTGATGTAATATATACTAAGT GCTAAGCCTGATTGCATTACGCAAGATGCTACTTGAGAATCAGACATATTGGACGAGGGAAAAT CAGTAATGTGTAATAACAAGTGAAACAATCCGCAGAAAATATTTATATTAGGAAGCATCTATTT ATACCCGTAGAACCGGAGACAGTCTCTGTGAAGGGAATGACCACAGTTGGCCACACGACTAGCC GCTGCATGGTTAGAAAAGCTCAGCTCCAAAAATTTGCCAAAAGACAGGCCCCACGCAGCATCTG ACATTACAATTCTGCGTGTGGCTGGAGGAAAGCCATTGATCCGAGGACATTTCAGGCACCGATG CCACATCCAAATCTTCCCTTCACGTTGCCCAGGTAGCAATTCAGGCAGTTTCTTAACAGATATT GTCAGACTACCTTGCCTATGAGTATAACAATGAATGTGTGCTTCCGCTGGCATCGTACATGACG GGCAGCACTGATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.452710597

Conservation Information
Conserved circRNAs	NA
PMCS	0.452710597

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16033204-16032193(-)
						
						Potential amino acid sequence
						
							MPAEAHIHCYTHRQGSLTISVKKLPELLPGQREGKIWMWHRCLKCPRINGFPPATRRIVMSDAA
WGLSFGKFLELSFSNHAAASRVANCGHSLHRDCLRFYGFGRMVACFRYASINIYAVTLPPAKLY
FNYENQEWLQKESKEVIKKAEVLFNEVQEALSQISAKTMGAGSKGSTPNKIKLSLEELAGLLEQ
RKKEYKDQCCPSCTMPAEAHIHCYTHRQGSLTISVKKLPELLPGQREGKIWMWHRCLKCPRING
FPPATRRIVMSDAAWGLSFGKFLELSFSNHAAASRVANCGHSLHRDCLRFYGFGRMVACFRYAS
INIYAVTLPPAKLYFNYENQEWLQKESKEVIKKAEVLFNEVQEALSQISAKTMGAGSKGSTPNK
IKLSLEELAGLLEQRKKEYKDQCCPSCTMPAEAHIHCYTHRQGSLTISVKKLPELLPGQREGKI
WMWHRCLKCPRINGFPPATRRIVMSDAAWGLSFGKFLELSFSNHAAASRVANCGHSLHRDCLRF
YGFGRMVACFRYASINIYAVTLPPAKLYFNYENQEWLQKESKEVIKKAEVLFNEVQEALSQISA
KTMGAGSKGSTPNKIKLSLEELAGLLEQRKKEYKDQCCPSCTMPAEAHIHCYTHRQGSLTISVK
KLPELLPGQREGKIWMWHRCLKCPRINGFPPATRRIVMSDAAWGLSFGKFLELSFSNHAAASRV
ANCGHSLHRDCLRFYGFGRMVACFRYASINIYAVTLPPAKLYFNYENQEWLQKESKEVIKKAEV
LFNEVQEALSQISAKTMGAGSKGSTPNKIKLSLEELAGLLEQRKKEYK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	Y
Potential coding position	16033204-16032193(-)
Potential amino acid sequence	MPAEAHIHCYTHRQGSLTISVKKLPELLPGQREGKIWMWHRCLKCPRINGFPPATRRIVMSDAA WGLSFGKFLELSFSNHAAASRVANCGHSLHRDCLRFYGFGRMVACFRYASINIYAVTLPPAKLY FNYENQEWLQKESKEVIKKAEVLFNEVQEALSQISAKTMGAGSKGSTPNKIKLSLEELAGLLEQ RKKEYKDQCCPSCTMPAEAHIHCYTHRQGSLTISVKKLPELLPGQREGKIWMWHRCLKCPRING FPPATRRIVMSDAAWGLSFGKFLELSFSNHAAASRVANCGHSLHRDCLRFYGFGRMVACFRYAS INIYAVTLPPAKLYFNYENQEWLQKESKEVIKKAEVLFNEVQEALSQISAKTMGAGSKGSTPNK IKLSLEELAGLLEQRKKEYKDQCCPSCTMPAEAHIHCYTHRQGSLTISVKKLPELLPGQREGKI WMWHRCLKCPRINGFPPATRRIVMSDAAWGLSFGKFLELSFSNHAAASRVANCGHSLHRDCLRF YGFGRMVACFRYASINIYAVTLPPAKLYFNYENQEWLQKESKEVIKKAEVLFNEVQEALSQISA KTMGAGSKGSTPNKIKLSLEELAGLLEQRKKEYKDQCCPSCTMPAEAHIHCYTHRQGSLTISVK KLPELLPGQREGKIWMWHRCLKCPRINGFPPATRRIVMSDAAWGLSFGKFLELSFSNHAAASRV ANCGHSLHRDCLRFYGFGRMVACFRYASINIYAVTLPPAKLYFNYENQEWLQKESKEVIKKAEV LFNEVQEALSQISAKTMGAGSKGSTPNKIKLSLEELAGLLEQRKKEYK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress

			
						 Other Information
					
						References
						Chu et al., 2017;Pan et al., 2017;Chen et al., 2017a;Zhang et al., 2019

circRNA

Detail information of AT4G33240_circ_g.3

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