Plant Circular RNA Database

Detail information of AT3G19910_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT3G19910_circ_g.2
					
						ID in PlantcircBase
						ath_circ_022828
					
						Alias
						At_ciR836, Ath_circ_FC2089, AT3G19910_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 6927024-6928252  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
					
						Parent gene
						
							AT3G19910						
					
						Parent gene annotation
						
							E3 ubiquitin ligase BIG BROTHER-related
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT3G19910_circ_g.1 AT3G19910_circ_g.3 AT3G19910_circ_g.4 AT3G19910_circ_g.5 						
					
						Support reads
						8/7
					
						Tissues
						leaf/root, inflorescences, whole_plant
					
						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  
						
							GT-AG							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
						AT3G19910.2:3
AT3G19910.1:3

General Information
CircRNA Name	AT3G19910_circ_g.2
ID in PlantcircBase	ath_circ_022828
Alias	At_ciR836, Ath_circ_FC2089, AT3G19910_C1
Organism	Arabidpsis thaliana
Position	chr3: 6927024-6928252 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
Parent gene	AT3G19910
Parent gene annotation	E3 ubiquitin ligase BIG BROTHER-related
Parent gene strand	+
Alternative splicing	AT3G19910_circ_g.1 AT3G19910_circ_g.3 AT3G19910_circ_g.4 AT3G19910_circ_g.5
Support reads	8/7
Tissues	leaf/root, inflorescences, whole_plant
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	GT-AG 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	AT3G19910.2:3 AT3G19910.1:3

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							Yes							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   
						
							F:TCTGCCTTATCTGGGTTAGCA
 R:ACATCAAGCCCATCTTCCTG
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	Yes 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	F:TCTGCCTTATCTGGGTTAGCA R:ACATCAAGCCCATCTTCCTG 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  
						
							TTCATTGATGTGATTTGAATCTTCTTCCACTTACGTTCTGTACGATTAATTTTTGCAGGATGCC
TGGGATGAGATGGATCCTGATGAGCTTTCATATGAGgagcgggcgtatatgatgttgaccatga
atagtgaaatcagtgactatgggagctgggaaactggaagctatgtatacgatgaggatgagtt
tgatgacc

									
								

					

						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: 417
Transcript exons: 6927024-6927357,6927448-6927488,6928211-6928252
GAGCGGGCGTATATGATGTTGACCATGAATAGTGAAATCAGTGACTATGGGAGCTGGGAAACTG
GAAGCTATGTATACGATGAGGATGAGTTTGATGACCCCGAGAATGAGGATGAGGATGATGATGA
AGATGAATATGAAACAGATGATGATCCTCAGGAAGATGGGCTTGATGTCAATGTGCACGCCAAT
GAAGATGATCAAGAAGATGACGGTAACTCTGACATTGAAGAAGTTGCTTATACAGATGATGAGG
CCTATGCTAGAGCTCTTCAAGAAGCTGAAGAAAGGGATATGGCTGCTAGATTGTCTGCCTTATC
TGGGTTAGCAAACCGGGTGGTTGAAGATCTAGAGGATGAGAGTCATACTTCTCAGGATGCCTGG
GATGAGATGGATCCTGATGAGCTTTCATATGAG
						
					

						Genomic sequence
						
							GAGCGGGCGTATATGATGTTGACCATGAATAGTGAAATCAGTGACTATGGGAGCTGGGAAACTG
GAAGCTATGTATACGATGAGGATGAGTTTGATGACCCCGAGAATGAGGATGAGGATGATGATGA
AGATGAATATGAAACAGATGATGATCCTCAGGAAGATGGGCTTGATGTCAATGTGCACGCCAAT
GAAGATGATCAAGAAGATGACGGTAACTCTGACATTGAAGAAGTTGCTTATACAGATGATGAGG
CCTATGCTAGAGCTCTTCAAGAAGCTGAAGAAAGGGATATGGCTGCTAGATTGTCTGCCTTATC
TGGGTTAGCAAACCGTGAGTACACACTTATAGCTATCATTCAAGTTCTCTTTGAGGGGCGTTCT
AAAATAAATTTTGGATTATGCTAACTGTTATTGGTTGCAGGGGTGGTTGAAGATCTAGAGGATG
AGAGTCATACTTCTCAGGTAGGCTCCTTACACTACAGAAAAATCCTTTAATTATCTTGAGCTGT
AAACCTTTTTCAGTTTTTCTGCTTGAGAATATGAAAGTTTGAACCTTTTTTCCCCCAGTTTGGG
AGTTTGTTTAGTCATATAGTGGCCAAAGGACAAAGTCGTGACATTGAACCCGCCATTGTCTAGT
TATACATCTTACATGGCTCCATCTACCTACTATCCTTCTGTTGTGGCATTAGTTTGTTTCGTTT
TCGTGATAGTTTAGTCCATGGTGTTAACCATTTTAGACCGGAGACCCAGTTAGATTATCCTCCC
TGTGTATGGGGTAGTTATTGTTTGTAGTTAAGCCAGTCACTGGAATAGTGTGCCATGGCCCATG
AATAATTATTATGTAGTCTTACTCAGTCGAAATTGTTTGGTATTTGGTACTAGGCGTACCTAAT
TATTCTCGGTTTATGCTACTGGAATTTTTCACAACTGTATGTCTGTATGTTTGAAGGTCAAAAT
GCATTTACCAGAGGGTAATTGAATCAATTTAGCATTAACTGGTCACTGGTATTGGAGATGGTTA
TGCTCACACCTTGAAGTATGGGCCCTCGCTGTACACACTGAACTTTGTGGAAAAAAATATACTG
AAATTTAGAATTGCAGGGTAGAGAATCATAGAAACTTAAGCTTCATTGATGTGATTTGAATCTT
CTTCCACTTACGTTCTGTACGATTAATTTTTGCAGGATGCCTGGGATGAGATGGATCCTGATGA
GCTTTCATATGAG
						
					

			
		

Sequences
Splice junction sequence	TTCATTGATGTGATTTGAATCTTCTTCCACTTACGTTCTGTACGATTAATTTTTGCAGGATGCC TGGGATGAGATGGATCCTGATGAGCTTTCATATGAGgagcgggcgtatatgatgttgaccatga atagtgaaatcagtgactatgggagctgggaaactggaagctatgtatacgatgaggatgagtt tgatgacc
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: 417 Transcript exons: 6927024-6927357,6927448-6927488,6928211-6928252 GAGCGGGCGTATATGATGTTGACCATGAATAGTGAAATCAGTGACTATGGGAGCTGGGAAACTG GAAGCTATGTATACGATGAGGATGAGTTTGATGACCCCGAGAATGAGGATGAGGATGATGATGA AGATGAATATGAAACAGATGATGATCCTCAGGAAGATGGGCTTGATGTCAATGTGCACGCCAAT GAAGATGATCAAGAAGATGACGGTAACTCTGACATTGAAGAAGTTGCTTATACAGATGATGAGG CCTATGCTAGAGCTCTTCAAGAAGCTGAAGAAAGGGATATGGCTGCTAGATTGTCTGCCTTATC TGGGTTAGCAAACCGGGTGGTTGAAGATCTAGAGGATGAGAGTCATACTTCTCAGGATGCCTGG GATGAGATGGATCCTGATGAGCTTTCATATGAG
Genomic sequence	GAGCGGGCGTATATGATGTTGACCATGAATAGTGAAATCAGTGACTATGGGAGCTGGGAAACTG GAAGCTATGTATACGATGAGGATGAGTTTGATGACCCCGAGAATGAGGATGAGGATGATGATGA AGATGAATATGAAACAGATGATGATCCTCAGGAAGATGGGCTTGATGTCAATGTGCACGCCAAT GAAGATGATCAAGAAGATGACGGTAACTCTGACATTGAAGAAGTTGCTTATACAGATGATGAGG CCTATGCTAGAGCTCTTCAAGAAGCTGAAGAAAGGGATATGGCTGCTAGATTGTCTGCCTTATC TGGGTTAGCAAACCGTGAGTACACACTTATAGCTATCATTCAAGTTCTCTTTGAGGGGCGTTCT AAAATAAATTTTGGATTATGCTAACTGTTATTGGTTGCAGGGGTGGTTGAAGATCTAGAGGATG AGAGTCATACTTCTCAGGTAGGCTCCTTACACTACAGAAAAATCCTTTAATTATCTTGAGCTGT AAACCTTTTTCAGTTTTTCTGCTTGAGAATATGAAAGTTTGAACCTTTTTTCCCCCAGTTTGGG AGTTTGTTTAGTCATATAGTGGCCAAAGGACAAAGTCGTGACATTGAACCCGCCATTGTCTAGT TATACATCTTACATGGCTCCATCTACCTACTATCCTTCTGTTGTGGCATTAGTTTGTTTCGTTT TCGTGATAGTTTAGTCCATGGTGTTAACCATTTTAGACCGGAGACCCAGTTAGATTATCCTCCC TGTGTATGGGGTAGTTATTGTTTGTAGTTAAGCCAGTCACTGGAATAGTGTGCCATGGCCCATG AATAATTATTATGTAGTCTTACTCAGTCGAAATTGTTTGGTATTTGGTACTAGGCGTACCTAAT TATTCTCGGTTTATGCTACTGGAATTTTTCACAACTGTATGTCTGTATGTTTGAAGGTCAAAAT GCATTTACCAGAGGGTAATTGAATCAATTTAGCATTAACTGGTCACTGGTATTGGAGATGGTTA TGCTCACACCTTGAAGTATGGGCCCTCGCTGTACACACTGAACTTTGTGGAAAAAAATATACTG AAATTTAGAATTGCAGGGTAGAGAATCATAGAAACTTAAGCTTCATTGATGTGATTTGAATCTT CTTCCACTTACGTTCTGTACGATTAATTTTTGCAGGATGCCTGGGATGAGATGGATCCTGATGA GCTTTCATATGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.320743265

Conservation Information
Conserved circRNAs	NA
PMCS	0.320743265

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6927036-6928249(+)
						
						Potential amino acid sequence
						
							MMLTMNSEISDYGSWETGSYVYDEDEFDDPENEDEDDDEDEYETDDDPQEDGLDVNVHANEDDQ
EDDGNSDIEEVAYTDDEAYARALQEAEERDMAARLSALSGLANRVVEDLEDESHTSQDAWDEMD
PDELSYEERAYMMLTMNSEISDYGSWETGSYVYDEDEFDDPENEDEDDDEDEYETDDDPQEDGL
DVNVHANEDDQEDDGNSDIEEVAYTDDEAYARALQEAEERDMAARLSALSGLANRVVEDLEDES
HTSQDAWDEMDPDELSYEERAYMMLTMNSEISDYGSWETGSYVYDEDEFDDPENEDEDDDEDEY
ETDDDPQEDGLDVNVHANEDDQEDDGNSDIEEVAYTDDEAYARALQEAEERDMAARLSALSGLA
NRVVEDLEDESHTSQDAWDEMDPDELSYEERAYMMLTMNSEISDYGSWETGSYVYDEDEFDDPE
NEDEDDDEDEYETDDDPQEDGLDVNVHANEDDQEDDGNSDIEEVAYTDDEAYARALQEAEERDM
AARLSALSGLANRVVEDLEDESHTSQDAWDEMDPDELSYE(+)
						
						Sponge-miRNAs
						
							ath-miR414 ath-miR5658 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	Y
Potential coding position	6927036-6928249(+)
Potential amino acid sequence	MMLTMNSEISDYGSWETGSYVYDEDEFDDPENEDEDDDEDEYETDDDPQEDGLDVNVHANEDDQ EDDGNSDIEEVAYTDDEAYARALQEAEERDMAARLSALSGLANRVVEDLEDESHTSQDAWDEMD PDELSYEERAYMMLTMNSEISDYGSWETGSYVYDEDEFDDPENEDEDDDEDEYETDDDPQEDGL DVNVHANEDDQEDDGNSDIEEVAYTDDEAYARALQEAEERDMAARLSALSGLANRVVEDLEDES HTSQDAWDEMDPDELSYEERAYMMLTMNSEISDYGSWETGSYVYDEDEFDDPENEDEDDDEDEY ETDDDPQEDGLDVNVHANEDDQEDDGNSDIEEVAYTDDEAYARALQEAEERDMAARLSALSGLA NRVVEDLEDESHTSQDAWDEMDPDELSYEERAYMMLTMNSEISDYGSWETGSYVYDEDEFDDPE NEDEDDDEDEYETDDDPQEDGLDVNVHANEDDQEDDGNSDIEEVAYTDDEAYARALQEAEERDM AARLSALSGLANRVVEDLEDESHTSQDAWDEMDPDELSYE(+)
Sponge-miRNAs	ath-miR414 ath-miR5658
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Chen et al., 2017a;Zhang et al., 2019

circRNA

Detail information of AT3G19910_circ_g.2

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