Plant Circular RNA Database

Detail information of AT2G43410_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT2G43410_circ_g.2
					
						ID in PlantcircBase
						ath_circ_018141
					
						Alias
						Chr2:18026358|18029348
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 18026358-18029348  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer; CIRI
					
						Parent gene
						
							AT2G43410						
					
						Parent gene annotation
						
							Flowering time control protein FPA
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G43410_circ_g.1 AT2G43410_circ_g.3 AT2G43410_circ_g.4 AT2G43410_circ_g.5 AT2G43410_circ_g.6 AT2G43410_circ_g.7 AT2G43410_circ_g.8 AT2G43410_circ_g.9 AT2G43410_circ_g.10 AT2G43410_circ_g.11 						
					
						Support reads
						8
					
						Tissues
						seedling
					
						Exon boundary  
						
							No-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-TA							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
						AT2G43410.4:4
AT2G43410.1:5
AT2G43410.6:5
AT2G43410.5:4
AT2G43410.3:4
AT2G43410.2:4

General Information
CircRNA Name	AT2G43410_circ_g.2
ID in PlantcircBase	ath_circ_018141
Alias	Chr2:18026358\|18029348
Organism	Arabidpsis thaliana
Position	chr2: 18026358-18029348 JBrowse»
Reference genome	TAIR10.38
Type	u-circRNA
Identification method	CIRCexplorer; CIRI
Parent gene	AT2G43410
Parent gene annotation	Flowering time control protein FPA
Parent gene strand	-
Alternative splicing	AT2G43410_circ_g.1 AT2G43410_circ_g.3 AT2G43410_circ_g.4 AT2G43410_circ_g.5 AT2G43410_circ_g.6 AT2G43410_circ_g.7 AT2G43410_circ_g.8 AT2G43410_circ_g.9 AT2G43410_circ_g.10 AT2G43410_circ_g.11
Support reads	8
Tissues	seedling
Exon boundary	No-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-TA 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	AT2G43410.4:4 AT2G43410.1:5 AT2G43410.6:5 AT2G43410.5:4 AT2G43410.3:4 AT2G43410.2:4

			
						 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  
						
							AATCCTCGATTTTCCCAAACTTGCTGAACTCTTCCTCCAGGTCATCCTTGGAGACATTAGGGCC
GATTCCACCCACCCATAGACTCTTACAAGGTTTTGCccttgaagattatgattatgatggagag
tggagctagtttcaaggcccctgtccagccggagtacctgaagactgttgctgctgtttctgct
gtatctgg

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CCTTGAAGATTATGATTATGATGGAGAGTGGAGCTAGTTTCAAGGCCCCTGTCCAGCCGGAGTA
CCTGAAGACTGTTGCTGCTGTTTCTGCTGTATCTGGAGAAGAAGGTTTGCTGCAAATTGTAGTG
TTGACTGGTATCTCTGATTCTTATCGACCTCCCCATCTGTTGTACCCTGACCATCCCCAGAGAT
CATAGGCTGCAATCGTAGTGCTTGGTTTTGTGGCTCTAAATTTGCCTTATCTGCTGGTGGTTGC
ATGGCAGCTTGAAATTGGGAAGGGTTTAAGTTCTGTGCCTGATTTGTTGTTACGCCATGAAAAT
TAGCTTGCTGATAACTTGGAATTGGACCATAGTTTTGGTTTGGCATGGACGCTTCTGGTTGGTA
TTGCTGGACCATGGGCTGAGAAACAGGATGATTTGACGAACCCTGAGTGTACATGGAATAATTA
TTATGAGGCATATTTGGTAACGGAGACAGCTGAGGCATGTTAACAGATTGGCTCTGGTATTGCA
TGTTGCCATGGACCATTCCACTAGTGTAGTTGGGGTTGTTTGAAGCTGGAGGGTAACGCGAAGG
AGGAGGAGGTAGTTGCCCAGCTGGAGTGTACTGATTTCCGTATTGTTGGAATGACTGATTTGAC
GCATCATGAACTGTTTGTGGACCTCTTTTCCAAGCTTGAGACGGTGCTTCTCCATTGTACAGTC
CATTGGACTGATGTGCTGTGGAAACAACTGTTGAAGGTCCTGACATAGGTTGGTGACTCTCAGG
GGCAGCAGGTTGAGAAGTTGCAGGGAGAATAGATGCCAGAGTGGCTAAAAGCTCCGGAGTTAAA
CTAACCCCAGCTTGAGGCGCTGCATTATTAGGTATTCTGAGAGGCTCGCTAACAGATGGTTTTG
AAGCAGCTGTCAAATGTTCTGGTGCACCCCTAATGTAATTTTCCCTAGGAGGATATAAACTGTG
ACTAGCATTGGCAGGTGAATCCCGGGCTTGATCCATATAATGCAGAGGATTGGACTGAGATTCT
TGTCTGTATGATGCTGTAACAGGAACGGCTGGCGGGGGTAACTTGAGAACAACACCATATAGCC
GTTCTTGACGGGTCACTTGGAGTACATCAGTTAAGAAATCTGATGGAGGCACCAAGAATAAAGT
TGTACCATCATCTAATTTGGCAACACCCGCCCGATCTTTTGAGCTAAGGTACCGGAGAAATTCA
GTGTAAGACGCAAAATCTTCTTCCCTGTCTGGTACGAAAAAAACGATCTCACATCCAATGGCAA
CGGCGTAATGTTTAGCGAGCATATTCAAATCAGTTCTTGCTGAACAATTGACGACCTCAGGCCT
ATAAATCAATTATTAAAAAAAAAACAAAGTCAGTAATTGAGGGCAATGCCAAAAATGAATCAAC
ACCATGAAAATCAAGACATCTCAGAAACTAAACAAGTAATAGTAAAATAAAAATGTACTATCTA
TAATAATGTTACTTCCATCGAGAATGAAATGGAAAATATATAAATCGCTCTGAAAAAGAAAACA
CTAGAAGGGTTAAAGTGCTAGAAATTAGTACTCACAGTTTAGTTTCAATCCCCTTTCCCATAGG
TACACAACGAGCACAACAGACGGGAGTTCCACCCTTGGCAATCATTCCTCTCCATATGTGATCA
GAATCAGGGGGGCCACGGATAGGTCTAGCAGCAACTGAACCTCGACCAAATGACCTCTCATCGA
CACCCATTGGAGTAAAACCGTCCACTGATCCATCTCTTCTGGTTCGTTTACTTTCTCTGACCAA
CTGAGCAGGATCATATCCTTCCCAAGAATCGGGGTTTGACCTCATAGGGCGCCTCGTACCTTGT
GCAGGAGATGGGAGGATTCCAGGTCCTGTTGGAGATGGGAGTATTCCAGTTCCATTTGCAGATG
GCCTCCTCCAGTTTGGCTCCTTACCAACAACGTCATTGTATTCTGCACCATTATATGAACGCTC
ATTTGTACCTCTGAGGGGCCTCATAGACCCAGGAATTCCAGTAGAATGAGGAGAAGATACAAAT
GAAGGATCATTATTGAACATATCTGTCCTTGACCGTTTCATACCAGAGTAAAAACTAGTATCGT
CTTGCTCAGGAGGCAACTCATCGTTTGAGTACATAATTTTGATTCTAGGATTATTGAATAACCT
CCCCTGTAGGCCTTCCTTGCATTGGCGAGCTTCCTCCGCGCTCCTAAACTCCACAAGTGCAAAA
TTCCTTGATGGGTAACTTTTTACCCTCTCGATCTCACCAAAGAGTATCATCGCATTGTGCAGAA
TTTGCTCATCATTGCATTGTGTAGCAGTAGGAGGGAACCCAATCCACAGAACCTTACTTGGCTG
GACATCTCCTTTAAAGTCTTCATATGAGTGAGGATACTGTAAGAATATAACAAAACGTCAAAAC
CAGTAACCTATACATATCACTAGTAACAAGAGACATACTTTCAACATTCAAGACTAACCTGCGG
TTTATGATTCATATTGCCATTTCTGTTATCGTAAGAGCCAGCCCATTGTTCCTGAAGATAACAC
AAAGGTAACTTGATTTCAGACTTAAGAAGTTGAGCCTACTCTACAATGAAATAGAGACGAGTAA
ATACTGCTCCTAGGGGCACAAGACAGAGCTCAGCCCTATCAGTTTGACGCAAATTATGAAACTA
AACAAAATGTTTACTGGAGCGTTTTCAAAAGTAAAAATCAAATGCCACAAGAGTGCTTACTTTT
TTTGGCGCTTGTGACCGGAGAAAATCAACACGCAAAAAGCTACCACCCATAGGCTTTCCATTCA
TGCTCTTAGCCTGTAAAGCATCATCCATCTCATAATAATCAATGAAAGCTGTCTTGCGTTCTCT
GAGAAACCTAAAATCCTCGATTTTCCCAAACTTGCTGAACTCTTCCTCCAGGTCATCCTTGGAG
ACATTAGGGCCGATTCCACCCACCCATAGACTCTTACAAGGTTTTGC
						
					

			
		

Sequences
Splice junction sequence	AATCCTCGATTTTCCCAAACTTGCTGAACTCTTCCTCCAGGTCATCCTTGGAGACATTAGGGCC GATTCCACCCACCCATAGACTCTTACAAGGTTTTGCccttgaagattatgattatgatggagag tggagctagtttcaaggcccctgtccagccggagtacctgaagactgttgctgctgtttctgct gtatctgg
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CCTTGAAGATTATGATTATGATGGAGAGTGGAGCTAGTTTCAAGGCCCCTGTCCAGCCGGAGTA CCTGAAGACTGTTGCTGCTGTTTCTGCTGTATCTGGAGAAGAAGGTTTGCTGCAAATTGTAGTG TTGACTGGTATCTCTGATTCTTATCGACCTCCCCATCTGTTGTACCCTGACCATCCCCAGAGAT CATAGGCTGCAATCGTAGTGCTTGGTTTTGTGGCTCTAAATTTGCCTTATCTGCTGGTGGTTGC ATGGCAGCTTGAAATTGGGAAGGGTTTAAGTTCTGTGCCTGATTTGTTGTTACGCCATGAAAAT TAGCTTGCTGATAACTTGGAATTGGACCATAGTTTTGGTTTGGCATGGACGCTTCTGGTTGGTA TTGCTGGACCATGGGCTGAGAAACAGGATGATTTGACGAACCCTGAGTGTACATGGAATAATTA TTATGAGGCATATTTGGTAACGGAGACAGCTGAGGCATGTTAACAGATTGGCTCTGGTATTGCA TGTTGCCATGGACCATTCCACTAGTGTAGTTGGGGTTGTTTGAAGCTGGAGGGTAACGCGAAGG AGGAGGAGGTAGTTGCCCAGCTGGAGTGTACTGATTTCCGTATTGTTGGAATGACTGATTTGAC GCATCATGAACTGTTTGTGGACCTCTTTTCCAAGCTTGAGACGGTGCTTCTCCATTGTACAGTC CATTGGACTGATGTGCTGTGGAAACAACTGTTGAAGGTCCTGACATAGGTTGGTGACTCTCAGG GGCAGCAGGTTGAGAAGTTGCAGGGAGAATAGATGCCAGAGTGGCTAAAAGCTCCGGAGTTAAA CTAACCCCAGCTTGAGGCGCTGCATTATTAGGTATTCTGAGAGGCTCGCTAACAGATGGTTTTG AAGCAGCTGTCAAATGTTCTGGTGCACCCCTAATGTAATTTTCCCTAGGAGGATATAAACTGTG ACTAGCATTGGCAGGTGAATCCCGGGCTTGATCCATATAATGCAGAGGATTGGACTGAGATTCT TGTCTGTATGATGCTGTAACAGGAACGGCTGGCGGGGGTAACTTGAGAACAACACCATATAGCC GTTCTTGACGGGTCACTTGGAGTACATCAGTTAAGAAATCTGATGGAGGCACCAAGAATAAAGT TGTACCATCATCTAATTTGGCAACACCCGCCCGATCTTTTGAGCTAAGGTACCGGAGAAATTCA GTGTAAGACGCAAAATCTTCTTCCCTGTCTGGTACGAAAAAAACGATCTCACATCCAATGGCAA CGGCGTAATGTTTAGCGAGCATATTCAAATCAGTTCTTGCTGAACAATTGACGACCTCAGGCCT ATAAATCAATTATTAAAAAAAAAACAAAGTCAGTAATTGAGGGCAATGCCAAAAATGAATCAAC ACCATGAAAATCAAGACATCTCAGAAACTAAACAAGTAATAGTAAAATAAAAATGTACTATCTA TAATAATGTTACTTCCATCGAGAATGAAATGGAAAATATATAAATCGCTCTGAAAAAGAAAACA CTAGAAGGGTTAAAGTGCTAGAAATTAGTACTCACAGTTTAGTTTCAATCCCCTTTCCCATAGG TACACAACGAGCACAACAGACGGGAGTTCCACCCTTGGCAATCATTCCTCTCCATATGTGATCA GAATCAGGGGGGCCACGGATAGGTCTAGCAGCAACTGAACCTCGACCAAATGACCTCTCATCGA CACCCATTGGAGTAAAACCGTCCACTGATCCATCTCTTCTGGTTCGTTTACTTTCTCTGACCAA CTGAGCAGGATCATATCCTTCCCAAGAATCGGGGTTTGACCTCATAGGGCGCCTCGTACCTTGT GCAGGAGATGGGAGGATTCCAGGTCCTGTTGGAGATGGGAGTATTCCAGTTCCATTTGCAGATG GCCTCCTCCAGTTTGGCTCCTTACCAACAACGTCATTGTATTCTGCACCATTATATGAACGCTC ATTTGTACCTCTGAGGGGCCTCATAGACCCAGGAATTCCAGTAGAATGAGGAGAAGATACAAAT GAAGGATCATTATTGAACATATCTGTCCTTGACCGTTTCATACCAGAGTAAAAACTAGTATCGT CTTGCTCAGGAGGCAACTCATCGTTTGAGTACATAATTTTGATTCTAGGATTATTGAATAACCT CCCCTGTAGGCCTTCCTTGCATTGGCGAGCTTCCTCCGCGCTCCTAAACTCCACAAGTGCAAAA TTCCTTGATGGGTAACTTTTTACCCTCTCGATCTCACCAAAGAGTATCATCGCATTGTGCAGAA TTTGCTCATCATTGCATTGTGTAGCAGTAGGAGGGAACCCAATCCACAGAACCTTACTTGGCTG GACATCTCCTTTAAAGTCTTCATATGAGTGAGGATACTGTAAGAATATAACAAAACGTCAAAAC CAGTAACCTATACATATCACTAGTAACAAGAGACATACTTTCAACATTCAAGACTAACCTGCGG TTTATGATTCATATTGCCATTTCTGTTATCGTAAGAGCCAGCCCATTGTTCCTGAAGATAACAC AAAGGTAACTTGATTTCAGACTTAAGAAGTTGAGCCTACTCTACAATGAAATAGAGACGAGTAA ATACTGCTCCTAGGGGCACAAGACAGAGCTCAGCCCTATCAGTTTGACGCAAATTATGAAACTA AACAAAATGTTTACTGGAGCGTTTTCAAAAGTAAAAATCAAATGCCACAAGAGTGCTTACTTTT TTTGGCGCTTGTGACCGGAGAAAATCAACACGCAAAAAGCTACCACCCATAGGCTTTCCATTCA TGCTCTTAGCCTGTAAAGCATCATCCATCTCATAATAATCAATGAAAGCTGTCTTGCGTTCTCT GAGAAACCTAAAATCCTCGATTTTCCCAAACTTGCTGAACTCTTCCTCCAGGTCATCCTTGGAG ACATTAGGGCCGATTCCACCCACCCATAGACTCTTACAAGGTTTTGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.12202734

Conservation Information
Conserved circRNAs	NA
PMCS	0.12202734

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							th-miRf10988-akr NA 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to methyl jasmonate

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	th-miRf10988-akr NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to methyl jasmonate

			
						 Other Information
					
						References
						Zhang et al., 2020

circRNA

Detail information of AT2G43410_circ_g.2

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