Plant Circular RNA Database

Detail information of Os02g0623500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0623500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_015558
					
						Alias
						Os02circ19067
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 24849615-24854686  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os02g0623500						
					
						Parent gene annotation
						
							Lysyl-tRNA synthetase, class II domain containing protein. (Os02
t0623500-01);Similar to Lysyl-tRNA synthetase. (Os02t0623500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0622300_circ_g.1 Os02g0622350_circ_ag.1 Os02g0622300_circ_g.2 Os02g0622350_circ_g.1 Os02g0622400_circ_g.1 Os02g0622400_circ_g.2 Os02g0623400_circ_ig.1 Os02g0623500_circ_igg.1 Os02g0623500_circ_igg.2 Os02g0623500_circ_g.2 Os02g0623500_circ_g.3 Os02g0623500_circ_g.4 						
					
						Support reads
						2
					
						Tissues
						leaf and panicle
					
						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
						Os02t0623500-02:6
Os02t0623500-01:6

General Information
CircRNA Name	Os02g0623500_circ_g.1
ID in PlantcircBase	osa_circ_015558
Alias	Os02circ19067
Organism	Oryza sativa
Position	chr2: 24849615-24854686 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os02g0623500
Parent gene annotation	Lysyl-tRNA synthetase, class II domain containing protein. (Os02 t0623500-01);Similar to Lysyl-tRNA synthetase. (Os02t0623500-02)
Parent gene strand	-
Alternative splicing	Os02g0622300_circ_g.1 Os02g0622350_circ_ag.1 Os02g0622300_circ_g.2 Os02g0622350_circ_g.1 Os02g0622400_circ_g.1 Os02g0622400_circ_g.2 Os02g0623400_circ_ig.1 Os02g0623500_circ_igg.1 Os02g0623500_circ_igg.2 Os02g0623500_circ_g.2 Os02g0623500_circ_g.3 Os02g0623500_circ_g.4
Support reads	2
Tissues	leaf and panicle
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	Os02t0623500-02:6 Os02t0623500-01:6

			
						 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  
						
							TTTTCAAATGCAGCTCTGTTGCAATCCTCAAGTAAAGATCTCTTTGCAGTGAGTTATGGTGGGT
TATAAATGGTCTTGCTTCAGCACCACCTGCTGCTCCctgatcaattgggtctgtgagctcagaa
aatgcattaccaatctcacgaccacatatgaaaagttcaaatcgctcggtaagaccagcatacc
tacagcaa

						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: 690
Transcript exons: 24849615-24849705,24851086-24851180,24851978-24852175,24
853842-24853946,24854152-24854244,24854579-24854686
CTGATCAATTGGGTCTGTGAGCTCAGAAAATGCATTACCAATCTCACGACCACATATGAAAAGT
TCAAATCGCTCGGTAAGACCAGCATACCTCCTATGTGGTTTGGCCAATGGTGATATCTCAACTG
GGTAGTCAAGAACAAATGTTGGCTGTACCAGACTTGATTCAACAACAGTCTCAAAGACCTCATT
GAGAACATGTCCAACAGATGAACAAGCTTGCAATGAGATATTCTCATTGCTCTCTGTTTTGATC
CCTCTTGCAGCATTTTTGGCGGATTCAAGATCTTCTCCAAAGCTATTAAAGTCAATTCCAGTTG
CTTCTTTGACAAGAGAATGCATGGTTTCCCTCCTCCATGGTCTTTCAAGGGAGATTTCAGTTCC
CTGATAATCAACCCTAAGTTTGCCATGAGTAGCCATTGCACATCTAGTAACAATTTCTTCAGCC
AAATTCATCATGCTTTCATAGTCTGAATAGGCTTCATACATCTCAATTGTGGTAAATTCAGGAT
TATGGCGAGTGGAAATGCCTTCATTCCGAAATATTCTCCCAATCTCATAAACTTTCTCAAGCCC
TCCAACCAGCATCCTTTTCAAATGCAGCTCTGTTGCAATCCTCAAGTAAAGATCTCTTTGCAGT
GAGTTATGGTGGGTTATAAATGGTCTTGCTTCAGCACCACCTGCTGCTCC
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TTTTCAAATGCAGCTCTGTTGCAATCCTCAAGTAAAGATCTCTTTGCAGTGAGTTATGGTGGGT TATAAATGGTCTTGCTTCAGCACCACCTGCTGCTCCctgatcaattgggtctgtgagctcagaa aatgcattaccaatctcacgaccacatatgaaaagttcaaatcgctcggtaagaccagcatacc tacagcaa
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: 690 Transcript exons: 24849615-24849705,24851086-24851180,24851978-24852175,24 853842-24853946,24854152-24854244,24854579-24854686 CTGATCAATTGGGTCTGTGAGCTCAGAAAATGCATTACCAATCTCACGACCACATATGAAAAGT TCAAATCGCTCGGTAAGACCAGCATACCTCCTATGTGGTTTGGCCAATGGTGATATCTCAACTG GGTAGTCAAGAACAAATGTTGGCTGTACCAGACTTGATTCAACAACAGTCTCAAAGACCTCATT GAGAACATGTCCAACAGATGAACAAGCTTGCAATGAGATATTCTCATTGCTCTCTGTTTTGATC CCTCTTGCAGCATTTTTGGCGGATTCAAGATCTTCTCCAAAGCTATTAAAGTCAATTCCAGTTG CTTCTTTGACAAGAGAATGCATGGTTTCCCTCCTCCATGGTCTTTCAAGGGAGATTTCAGTTCC CTGATAATCAACCCTAAGTTTGCCATGAGTAGCCATTGCACATCTAGTAACAATTTCTTCAGCC AAATTCATCATGCTTTCATAGTCTGAATAGGCTTCATACATCTCAATTGTGGTAAATTCAGGAT TATGGCGAGTGGAAATGCCTTCATTCCGAAATATTCTCCCAATCTCATAAACTTTCTCAAGCCC TCCAACCAGCATCCTTTTCAAATGCAGCTCTGTTGCAATCCTCAAGTAAAGATCTCTTTGCAGT GAGTTATGGTGGGTTATAAATGGTCTTGCTTCAGCACCACCTGCTGCTCC
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.097847069

Conservation Information
Conserved circRNAs	NA
PMCS	0.097847069

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24854643-24851108(+)
24854586-24849617(-)
24853869-24854652(-)
						
						Potential amino acid sequence
						
							MVGYKWSCFSTTCCSLINWVCELRKCITNLTTTYEKFKSLGKTSIPPMWFGQW*(+)
MLVGGLEKVYEIGRIFRNEGISTRHNPEFTTIEMYEAYSDYESMMNLAEEIVTRCAMATHGKLR
VDYQGTEISLERPWRRETMHSLVKEATGIDFNSFGEDLESAKNAARGIKTESNENISLQACSSV
GHVLNEVFETVVESSLVQPTFVLDYPVEISPLAKPHRRYAGLTERFELFICGREIGNAFSELTD
PIDQGAAGGAEARPFITHHNSLQRDLYLRIATELHLKRMLVGGLEKVYEIGRIFRNEGISTRHN
PEFTTIEMYEAYSDYESMMNLAEEIVTRCAMATHGKLRVDYQGTEISLERPWRRETMHSLVKEA
TGIDFNSFGEDLESAKNAARGIKTESNENISLQACSSVGHVLNEVFETVVESSLVQPTFVLDYP
VEISPLAKPHRRYAGLTERFELFICGREIGNAFSELTDPIDQGAAGGAEARPFITHHNSLQRDL
YLRIATELHLKRMLVGGLEKVYEIGRIFRNEGISTRHNPEFTTIEMYEAYSDYESMMNLAEEIV
TRCAMATHGKLRVDYQGTEISLERPWRRETMHSLVKEATGIDFNSFGEDLESAKNAARGIKTES
NENISLQACSSVGHVLNEVFETVVESSLVQPTFVLDYPVEISPLAKPHRRYAGLTERFELFICG
REIGNAFSELTDPIDQGAAGGAEARPFITHHNSLQRDLYLRIATELHLKRMLVGGLEKVYEIGR
IFRNEGISTRHNPEFTTIEMYEAYSDYESMMNLAEEIVTRCAMATHGKLRVDYQGTEISLERPW
RRETMHSLVKEATGIDFNSFGEDLESAKNAARGIKTESNENISLQACSSVGHVLNEVFETVVES
SLVQPTFVLDYPVEISPLAKPHRRYAGLTERFELFICGREIGNAFSELTDPIDQ(-)
MANLGLIIRELKSPLKDHGGGKPCILLSKKQLELTLIALEKILNPPKMLQEGSKQRAMRISHCK
LVHLLDMFSMRSLRLLLNQVWYSQHLFLTTQLRYHHWPNHIGGMLVLPSDLNFSYVVVRLVMHF
LSSQTQLIREQQVVLKQDHL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24854643-24851108(+) 24854586-24849617(-) 24853869-24854652(-)
Potential amino acid sequence	MVGYKWSCFSTTCCSLINWVCELRKCITNLTTTYEKFKSLGKTSIPPMWFGQW(+) MLVGGLEKVYEIGRIFRNEGISTRHNPEFTTIEMYEAYSDYESMMNLAEEIVTRCAMATHGKLR VDYQGTEISLERPWRRETMHSLVKEATGIDFNSFGEDLESAKNAARGIKTESNENISLQACSSV GHVLNEVFETVVESSLVQPTFVLDYPVEISPLAKPHRRYAGLTERFELFICGREIGNAFSELTD PIDQGAAGGAEARPFITHHNSLQRDLYLRIATELHLKRMLVGGLEKVYEIGRIFRNEGISTRHN PEFTTIEMYEAYSDYESMMNLAEEIVTRCAMATHGKLRVDYQGTEISLERPWRRETMHSLVKEA TGIDFNSFGEDLESAKNAARGIKTESNENISLQACSSVGHVLNEVFETVVESSLVQPTFVLDYP VEISPLAKPHRRYAGLTERFELFICGREIGNAFSELTDPIDQGAAGGAEARPFITHHNSLQRDL YLRIATELHLKRMLVGGLEKVYEIGRIFRNEGISTRHNPEFTTIEMYEAYSDYESMMNLAEEIV TRCAMATHGKLRVDYQGTEISLERPWRRETMHSLVKEATGIDFNSFGEDLESAKNAARGIKTES NENISLQACSSVGHVLNEVFETVVESSLVQPTFVLDYPVEISPLAKPHRRYAGLTERFELFICG REIGNAFSELTDPIDQGAAGGAEARPFITHHNSLQRDLYLRIATELHLKRMLVGGLEKVYEIGR IFRNEGISTRHNPEFTTIEMYEAYSDYESMMNLAEEIVTRCAMATHGKLRVDYQGTEISLERPW RRETMHSLVKEATGIDFNSFGEDLESAKNAARGIKTESNENISLQACSSVGHVLNEVFETVVES SLVQPTFVLDYPVEISPLAKPHRRYAGLTERFELFICGREIGNAFSELTDPIDQ(-) MANLGLIIRELKSPLKDHGGGKPCILLSKKQLELTLIALEKILNPPKMLQEGSKQRAMRISHCK LVHLLDMFSMRSLRLLLNQVWYSQHLFLTTQLRYHHWPNHIGGMLVLPSDLNFSYVVVRLVMHF LSSQTQLIREQQVVLKQDHL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015

circRNA

Detail information of Os02g0623500_circ_g.1

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