Plant Circular RNA Database

Detail information of AT5G42020_circ_g.7

			
						 General Information
					
						CircRNA Name
						AT5G42020_circ_g.7
					
						ID in PlantcircBase
						ath_circ_041948
					
						Alias
						Ath_circ_FC3628, AT5G42020_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 16809221-16810133  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
					
						Parent gene
						
							AT5G42020						
					
						Parent gene annotation
						
							Heat shock protein 70 (Hsp 70) family protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G42020_circ_g.6 AT5G42020_circ_g.8 AT5G42020_circ_g.9 						
					
						Support reads
						228/23
					
						Tissues
						root, inflorescences, whole_plant/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
						AT5G42020.2:3
AT5G42020.1:3
AT5G42020.3:3

General Information
CircRNA Name	AT5G42020_circ_g.7
ID in PlantcircBase	ath_circ_041948
Alias	Ath_circ_FC3628, AT5G42020_C1
Organism	Arabidpsis thaliana
Position	chr5: 16809221-16810133 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
Parent gene	AT5G42020
Parent gene annotation	Heat shock protein 70 (Hsp 70) family protein
Parent gene strand	-
Alternative splicing	AT5G42020_circ_g.6 AT5G42020_circ_g.8 AT5G42020_circ_g.9
Support reads	228/23
Tissues	root, inflorescences, whole_plant/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	AT5G42020.2:3 AT5G42020.1:3 AT5G42020.3:3

			
						 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  
						
							TAAACACCAACACAAGAGTAAGTGGTACCAAGATCTATCCCAATAACTGATCCTAACTTCGTAG
CCTCTTCTTTTGCAGTGGAAAACGCAAATAAACATCctcccaagtgagtgtcaccatttgtgga
gagaacctcaaacactccgttatcaatggtcaagacactgacatcaaaagtaccaccaccaagg
tcaaatac

									
								

					

						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: 184
Transcript exons: 16809221-16809331,16810061-16810133
CTCCCAAGTGAGTGTCACCATTTGTGGAGAGAACCTCAAACACTCCGTTATCAATGGTCAAGAC
ACTGACATCAAAAGTACCACCACCAAGGTCAAATACAAGGATGTTCTCCAAGATCTATCCCAAT
AACTGATCCTAACTTCGTAGCCTCTTCTTTTGCAGTGGAAAACGCAAATAAACATC
Transcript length: 224
Transcript exons: 16809221-16809333,16810023-16810133
CTCCCAAGTGAGTGTCACCATTTGTGGAGAGAACCTCAAACACTCCGTTATCAATGGTCAAGAC
ACTGACATCAAAAGTACCACCACCAAGGTCAAATACAAGGATGTTCTTCGACCATTCTTGTAAA
CACCAACACAAGAGTAAGTGGTACCAAGATCTATCCCAATAACTGATCCTAACTTCGTAGCCTC
TTCTTTTGCAGTGGAAAACGCAAATAAACATC
Transcript length: 279
Transcript exons: 16809221-16809356,16809991-16810133
CTCCCAAGTGAGTGTCACCATTTGTGGAGAGAACCTCAAACACTCCGTTATCAATGGTCAAGAC
ACTGACATCAAAAGTACCACCACCAAGGTCAAATACAAGGATGTTCTTCTCACCACCCTTCTTA
TCAAGACCGTTTCCTTGGTCATTGGCAATAATTTCAACATGACCATTCTTGTAAACACCAACAC
AAGAGTAAGTGGTACCAAGATCTATCCCAATAACTGATCCTAACTTCGTAGCCTCTTCTTTTGC
AGTGGAAAACGCAAATAAACATC
Transcript length: 726
Transcript exons: 16809221-16809463,16809570-16809784,16809866-16810133
CTCCCAAGTGAGTGTCACCATTTGTGGAGAGAACCTCAAACACTCCGTTATCAATGGTCAAGAC
ACTGACATCAAAAGTACCACCACCAAGGTCAAATACAAGGATGTTCTTCTCACCACCCTTCTTA
TCAAGACCGTAGGCAATAGCAGCAGCAGTAGGTTCGTTGATGATTCTAGCAACATTGAGCCCAG
CAATAACACCGGCATCCTTGGTAGCTTGCCTTTGAGCATCATTGAAGTAAGCTGGAACAGTGAC
AACAGCGTCCTTGATTTTCTTTCCAAGGTAGGCTTCGGCTGTCTCCTTCATCTTAGTCAGAATC
ATGGCACTGATCTCCTCAGGACTGAAAACCTTAGTCTCACCATCCTTGATCTTGACTTGAATGT
ATGGCTTACCATCCTTGTTCACAATCTGGTAAGGTACAAGTTTCCTGTCCTTTTGAACCTCCTT
GTCCTCAAATTTTCGCCCGATCAATCTCTTAACGTCGAAGACAGTCCTCTCAGGATTAACAGCC
GCCTGATTCTTAGCAGCCTCACCAATGAGCCTTTCAGAGTCAGTAAAACCAACCCATGAAGGTG
TAATACGGTTTCCTTGGTCATTGGCAATAATTTCAACATGACCATTCTTGTAAACACCAACACA
AGAGTAAGTGGTACCAAGATCTATCCCAATAACTGATCCTAACTTCGTAGCCTCTTCTTTTGCA
GTGGAAAACGCAAATAAACATC
						
					

						Genomic sequence
						
							CTCCCAAGTGAGTGTCACCATTTGTGGAGAGAACCTCAAACACTCCGTTATCAATGGTCAAGAC
ACTGACATCAAAAGTACCACCACCAAGGTCAAATACAAGGATGTTCTTCTCACCACCCTTCTTA
TCAAGACCGTAGGCAATAGCAGCAGCAGTAGGTTCGTTGATGATTCTAGCAACATTGAGCCCAG
CAATAACACCGGCATCCTTGGTAGCTTGCCTTTGAGCATCATTGAAGTAAGCTGCGCATAGTCA
AACACCAAATAAACAATCAATCACCAATACAGATAAGAAATTTATCTCTCCACTACATATATAA
CAGAAAACCCGAATTAACAACAAACTAACCTGGAACAGTGACAACAGCGTCCTTGATTTTCTTT
CCAAGGTAGGCTTCGGCTGTCTCCTTCATCTTAGTCAGAATCATGGCACTGATCTCCTCAGGAC
TGAAAACCTTAGTCTCACCATCCTTGATCTTGACTTGAATGTATGGCTTACCATCCTTGTTCAC
AATCTGGTAAGGTACAAGTTTCCTGTCCTTTTGAACCTCCTTGTCCTCAAATCTGCCAAATACA
ATAAGAAAGAATTAAACCAACAATATCATCACAAACATATAGAAGAAAAAAAAGAGAATAAGTA
ATTACTTTCGCCCGATCAATCTCTTAACGTCGAAGACAGTCCTCTCAGGATTAACAGCCGCCTG
ATTCTTAGCAGCCTCACCAATGAGCCTTTCAGAGTCAGTAAAACCAACCCATGAAGGTGTAATA
CGGTTTCCTTGGTCATTGGCAATAATTTCAACATGACCATTCTTGTAAACACCAACACAAGAGT
AAGTGGTACCAAGATCTATCCCAATAACTGATCCTAACTTCGTAGCCTCTTCTTTTGCAGTGGA
AAACGCAAATAAACATC
						
					

			
		

Sequences
Splice junction sequence	TAAACACCAACACAAGAGTAAGTGGTACCAAGATCTATCCCAATAACTGATCCTAACTTCGTAG CCTCTTCTTTTGCAGTGGAAAACGCAAATAAACATCctcccaagtgagtgtcaccatttgtgga gagaacctcaaacactccgttatcaatggtcaagacactgacatcaaaagtaccaccaccaagg tcaaatac
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: 184 Transcript exons: 16809221-16809331,16810061-16810133 CTCCCAAGTGAGTGTCACCATTTGTGGAGAGAACCTCAAACACTCCGTTATCAATGGTCAAGAC ACTGACATCAAAAGTACCACCACCAAGGTCAAATACAAGGATGTTCTCCAAGATCTATCCCAAT AACTGATCCTAACTTCGTAGCCTCTTCTTTTGCAGTGGAAAACGCAAATAAACATC Transcript length: 224 Transcript exons: 16809221-16809333,16810023-16810133 CTCCCAAGTGAGTGTCACCATTTGTGGAGAGAACCTCAAACACTCCGTTATCAATGGTCAAGAC ACTGACATCAAAAGTACCACCACCAAGGTCAAATACAAGGATGTTCTTCGACCATTCTTGTAAA CACCAACACAAGAGTAAGTGGTACCAAGATCTATCCCAATAACTGATCCTAACTTCGTAGCCTC TTCTTTTGCAGTGGAAAACGCAAATAAACATC Transcript length: 279 Transcript exons: 16809221-16809356,16809991-16810133 CTCCCAAGTGAGTGTCACCATTTGTGGAGAGAACCTCAAACACTCCGTTATCAATGGTCAAGAC ACTGACATCAAAAGTACCACCACCAAGGTCAAATACAAGGATGTTCTTCTCACCACCCTTCTTA TCAAGACCGTTTCCTTGGTCATTGGCAATAATTTCAACATGACCATTCTTGTAAACACCAACAC AAGAGTAAGTGGTACCAAGATCTATCCCAATAACTGATCCTAACTTCGTAGCCTCTTCTTTTGC AGTGGAAAACGCAAATAAACATC Transcript length: 726 Transcript exons: 16809221-16809463,16809570-16809784,16809866-16810133 CTCCCAAGTGAGTGTCACCATTTGTGGAGAGAACCTCAAACACTCCGTTATCAATGGTCAAGAC ACTGACATCAAAAGTACCACCACCAAGGTCAAATACAAGGATGTTCTTCTCACCACCCTTCTTA TCAAGACCGTAGGCAATAGCAGCAGCAGTAGGTTCGTTGATGATTCTAGCAACATTGAGCCCAG CAATAACACCGGCATCCTTGGTAGCTTGCCTTTGAGCATCATTGAAGTAAGCTGGAACAGTGAC AACAGCGTCCTTGATTTTCTTTCCAAGGTAGGCTTCGGCTGTCTCCTTCATCTTAGTCAGAATC ATGGCACTGATCTCCTCAGGACTGAAAACCTTAGTCTCACCATCCTTGATCTTGACTTGAATGT ATGGCTTACCATCCTTGTTCACAATCTGGTAAGGTACAAGTTTCCTGTCCTTTTGAACCTCCTT GTCCTCAAATTTTCGCCCGATCAATCTCTTAACGTCGAAGACAGTCCTCTCAGGATTAACAGCC GCCTGATTCTTAGCAGCCTCACCAATGAGCCTTTCAGAGTCAGTAAAACCAACCCATGAAGGTG TAATACGGTTTCCTTGGTCATTGGCAATAATTTCAACATGACCATTCTTGTAAACACCAACACA AGAGTAAGTGGTACCAAGATCTATCCCAATAACTGATCCTAACTTCGTAGCCTCTTCTTTTGCA GTGGAAAACGCAAATAAACATC
Genomic sequence	CTCCCAAGTGAGTGTCACCATTTGTGGAGAGAACCTCAAACACTCCGTTATCAATGGTCAAGAC ACTGACATCAAAAGTACCACCACCAAGGTCAAATACAAGGATGTTCTTCTCACCACCCTTCTTA TCAAGACCGTAGGCAATAGCAGCAGCAGTAGGTTCGTTGATGATTCTAGCAACATTGAGCCCAG CAATAACACCGGCATCCTTGGTAGCTTGCCTTTGAGCATCATTGAAGTAAGCTGCGCATAGTCA AACACCAAATAAACAATCAATCACCAATACAGATAAGAAATTTATCTCTCCACTACATATATAA CAGAAAACCCGAATTAACAACAAACTAACCTGGAACAGTGACAACAGCGTCCTTGATTTTCTTT CCAAGGTAGGCTTCGGCTGTCTCCTTCATCTTAGTCAGAATCATGGCACTGATCTCCTCAGGAC TGAAAACCTTAGTCTCACCATCCTTGATCTTGACTTGAATGTATGGCTTACCATCCTTGTTCAC AATCTGGTAAGGTACAAGTTTCCTGTCCTTTTGAACCTCCTTGTCCTCAAATCTGCCAAATACA ATAAGAAAGAATTAAACCAACAATATCATCACAAACATATAGAAGAAAAAAAAGAGAATAAGTA ATTACTTTCGCCCGATCAATCTCTTAACGTCGAAGACAGTCCTCTCAGGATTAACAGCCGCCTG ATTCTTAGCAGCCTCACCAATGAGCCTTTCAGAGTCAGTAAAACCAACCCATGAAGGTGTAATA CGGTTTCCTTGGTCATTGGCAATAATTTCAACATGACCATTCTTGTAAACACCAACACAAGAGT AAGTGGTACCAAGATCTATCCCAATAACTGATCCTAACTTCGTAGCCTCTTCTTTTGCAGTGGA AAACGCAAATAAACATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						1.118232858

Conservation Information
Conserved circRNAs	NA
PMCS	1.118232858

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16809649-16809223(-)
						
						Potential amino acid sequence
						
							MILTKMKETAEAYLGKKIKDAVVTVPAYFNDAQRQATKDAGVIAGLNVARIINEPTAAAIAYGL
DKKGGEKNILVFDLGGGTFDVSVLTIDNGVFEVLSTNGDTHLGGCLFAFSTAKEEATKLGSVIG
IDLGTTYSCVGVYKNGHVEIIANDQGNRITPSWVGFTDSERLIGEAAKNQAAVNPERTVFDVKR
LIGRKFEDKEVQKDRKLVPYQIVNKDGKPYIQVKIKDGETKVFSPEEISAMILTKMKETAEAYL
GKKIKDAVVTVPAYFNDAQRQATKDAGVIAGLNVARIINEPTAAAIAYGLDKKGGEKNILVFDL
GGGTFDVSVLTIDNGVFEVLSTNGDTHLGGCLFAFSTAKEEATKLGSVIGIDLGTTYSCVGVYK
NGHVEIIANDQGNRITPSWVGFTDSERLIGEAAKNQAAVNPERTVFDVKRLIGRKFEDKEVQKD
RKLVPYQIVNKDGKPYIQVKIKDGETKVFSPEEISAMILTKMKETAEAYLGKKIKDAVVTVPAY
FNDAQRQATKDAGVIAGLNVARIINEPTAAAIAYGLDKKGGEKNILVFDLGGGTFDVSVLTIDN
GVFEVLSTNGDTHLGGCLFAFSTAKEEATKLGSVIGIDLGTTYSCVGVYKNGHVEIIANDQGNR
ITPSWVGFTDSERLIGEAAKNQAAVNPERTVFDVKRLIGRKFEDKEVQKDRKLVPYQIVNKDGK
PYIQVKIKDGETKVFSPEEISAMILTKMKETAEAYLGKKIKDAVVTVPAYFNDAQRQATKDAGV
IAGLNVARIINEPTAAAIAYGLDKKGGEKNILVFDLGGGTFDVSVLTIDNGVFEVLSTNGDTHL
G(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress; responsive to heat stress

Functional Information
Coding potential	Y
Potential coding position	16809649-16809223(-)
Potential amino acid sequence	MILTKMKETAEAYLGKKIKDAVVTVPAYFNDAQRQATKDAGVIAGLNVARIINEPTAAAIAYGL DKKGGEKNILVFDLGGGTFDVSVLTIDNGVFEVLSTNGDTHLGGCLFAFSTAKEEATKLGSVIG IDLGTTYSCVGVYKNGHVEIIANDQGNRITPSWVGFTDSERLIGEAAKNQAAVNPERTVFDVKR LIGRKFEDKEVQKDRKLVPYQIVNKDGKPYIQVKIKDGETKVFSPEEISAMILTKMKETAEAYL GKKIKDAVVTVPAYFNDAQRQATKDAGVIAGLNVARIINEPTAAAIAYGLDKKGGEKNILVFDL GGGTFDVSVLTIDNGVFEVLSTNGDTHLGGCLFAFSTAKEEATKLGSVIGIDLGTTYSCVGVYK NGHVEIIANDQGNRITPSWVGFTDSERLIGEAAKNQAAVNPERTVFDVKRLIGRKFEDKEVQKD RKLVPYQIVNKDGKPYIQVKIKDGETKVFSPEEISAMILTKMKETAEAYLGKKIKDAVVTVPAY FNDAQRQATKDAGVIAGLNVARIINEPTAAAIAYGLDKKGGEKNILVFDLGGGTFDVSVLTIDN GVFEVLSTNGDTHLGGCLFAFSTAKEEATKLGSVIGIDLGTTYSCVGVYKNGHVEIIANDQGNR ITPSWVGFTDSERLIGEAAKNQAAVNPERTVFDVKRLIGRKFEDKEVQKDRKLVPYQIVNKDGK PYIQVKIKDGETKVFSPEEISAMILTKMKETAEAYLGKKIKDAVVTVPAYFNDAQRQATKDAGV IAGLNVARIINEPTAAAIAYGLDKKGGEKNILVFDLGGGTFDVSVLTIDNGVFEVLSTNGDTHL G(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress; responsive to heat stress

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

circRNA

Detail information of AT5G42020_circ_g.7

Address

Any questions?

Supported by