Plant Circular RNA Database

Detail information of Os02g0741100_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os02g0741100_circ_g.2
					
						ID in PlantcircBase
						osa_circ_016485
					
						Alias
						Os_ciR8079
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 30998115-30998404  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0741100						
					
						Parent gene annotation
						
							Similar to Chaperone protein dnaJ 16 (Protein ARG1-LIKE1) (AtARL
1) (AtJ16) (AtDjB16). (Os02t0741100-01);Similar to Chaperone pro
tein dnaJ 16 (Protein ARG1-LIKE1) (AtARL1) (AtJ16) (AtDjB16). (O
s02t0741100-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/4
					
						Tissues
						root/shoot, root
					
						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
						Os02t0741100-02:1
Os02t0741100-01:1

General Information
CircRNA Name	Os02g0741100_circ_g.2
ID in PlantcircBase	osa_circ_016485
Alias	Os_ciR8079
Organism	Oryza sativa
Position	chr2: 30998115-30998404 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0741100
Parent gene annotation	Similar to Chaperone protein dnaJ 16 (Protein ARG1-LIKE1) (AtARL 1) (AtJ16) (AtDjB16). (Os02t0741100-01);Similar to Chaperone pro tein dnaJ 16 (Protein ARG1-LIKE1) (AtARL1) (AtJ16) (AtDjB16). (O s02t0741100-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	2/4
Tissues	root/shoot, root
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	Os02t0741100-02:1 Os02t0741100-01:1

			
						 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  
						
							ATGGTCCTAGAAAGGAAAAGAAACCTAAGGAACGACTTCGAAGGAAGAAATGGTTCAACATCCA
TTTGAAAGTAGACAAGAGAAGACCCTGCTGAGGAAGatcgacgagcttctcaaggaaaggaatg
caattcatgcatcctacaccaacaacacaactctgcaacggagttccagtagcaacaaagggaa
aacatcct

						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: 258
Transcript exons: 30998115-30998296,30998329-30998404
ATCGACGAGCTTCTCAAGGAAAGGAATGCAATTCATGCATCCTACACCAACAACACAACTCTGC
AACGGAGTTCCAGTAGCAACAAAGGGAAAACATCCTCTAAAGAGTCCAAAAGTGATGATGACCA
AACTGTGAAAAAGGAAAAGAAATCGAAGAGCAAGTCCATGGAGGGATCCAGAAGCTAAGGAACG
ACTTCGAAGGAAGAAATGGTTCAACATCCATTTGAAAGTAGACAAGAGAAGACCCTGCTGAGGA
AG
Transcript length: 281
Transcript exons: 30998115-30998349,30998359-30998404
ATCGACGAGCTTCTCAAGGAAAGGAATGCAATTCATGCATCCTACACCAACAACACAACTCTGC
AACGGAGTTCCAGTAGCAACAAAGGGAAAACATCCTCTAAAGAGTCCAAAAGTGATGATGACCA
AACTGTGAAAAAGGAAAAGAAATCGAAGAGCAAGTCCATGGAGGGATCCAGAAGTGATGATGAT
GGTCCTAGAAAGGAAAAGAAACCTAAGGAACGACTTCGAAGGATCAACATCCATTTGAAAGTAG
ACAAGAGAAGACCCTGCTGAGGAAG
Transcript length: 290
Transcript exons: 30998115-30998404
ATCGACGAGCTTCTCAAGGAAAGGAATGCAATTCATGCATCCTACACCAACAACACAACTCTGC
AACGGAGTTCCAGTAGCAACAAAGGGAAAACATCCTCTAAAGAGTCCAAAAGTGATGATGACCA
AACTGTGAAAAAGGAAAAGAAATCGAAGAGCAAGTCCATGGAGGGATCCAGAAGTGATGATGAT
GGTCCTAGAAAGGAAAAGAAACCTAAGGAACGACTTCGAAGGAAGAAATGGTTCAACATCCATT
TGAAAGTAGACAAGAGAAGACCCTGCTGAGGAAG
						
						Genomic sequence
						
							ATCGACGAGCTTCTCAAGGAAAGGAATGCAATTCATGCATCCTACACCAACAACACAACTCTGC
AACGGAGTTCCAGTAGCAACAAAGGGAAAACATCCTCTAAAGAGTCCAAAAGTGATGATGACCA
AACTGTGAAAAAGGAAAAGAAATCGAAGAGCAAGTCCATGGAGGGATCCAGAAGTGATGATGAT
GGTCCTAGAAAGGAAAAGAAACCTAAGGAACGACTTCGAAGGAAGAAATGGTTCAACATCCATT
TGAAAGTAGACAAGAGAAGACCCTGCTGAGGAAG

Sequences
Splice junction sequence	ATGGTCCTAGAAAGGAAAAGAAACCTAAGGAACGACTTCGAAGGAAGAAATGGTTCAACATCCA TTTGAAAGTAGACAAGAGAAGACCCTGCTGAGGAAGatcgacgagcttctcaaggaaaggaatg caattcatgcatcctacaccaacaacacaactctgcaacggagttccagtagcaacaaagggaa aacatcct
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: 258 Transcript exons: 30998115-30998296,30998329-30998404 ATCGACGAGCTTCTCAAGGAAAGGAATGCAATTCATGCATCCTACACCAACAACACAACTCTGC AACGGAGTTCCAGTAGCAACAAAGGGAAAACATCCTCTAAAGAGTCCAAAAGTGATGATGACCA AACTGTGAAAAAGGAAAAGAAATCGAAGAGCAAGTCCATGGAGGGATCCAGAAGCTAAGGAACG ACTTCGAAGGAAGAAATGGTTCAACATCCATTTGAAAGTAGACAAGAGAAGACCCTGCTGAGGA AG Transcript length: 281 Transcript exons: 30998115-30998349,30998359-30998404 ATCGACGAGCTTCTCAAGGAAAGGAATGCAATTCATGCATCCTACACCAACAACACAACTCTGC AACGGAGTTCCAGTAGCAACAAAGGGAAAACATCCTCTAAAGAGTCCAAAAGTGATGATGACCA AACTGTGAAAAAGGAAAAGAAATCGAAGAGCAAGTCCATGGAGGGATCCAGAAGTGATGATGAT GGTCCTAGAAAGGAAAAGAAACCTAAGGAACGACTTCGAAGGATCAACATCCATTTGAAAGTAG ACAAGAGAAGACCCTGCTGAGGAAG Transcript length: 290 Transcript exons: 30998115-30998404 ATCGACGAGCTTCTCAAGGAAAGGAATGCAATTCATGCATCCTACACCAACAACACAACTCTGC AACGGAGTTCCAGTAGCAACAAAGGGAAAACATCCTCTAAAGAGTCCAAAAGTGATGATGACCA AACTGTGAAAAAGGAAAAGAAATCGAAGAGCAAGTCCATGGAGGGATCCAGAAGTGATGATGAT GGTCCTAGAAAGGAAAAGAAACCTAAGGAACGACTTCGAAGGAAGAAATGGTTCAACATCCATT TGAAAGTAGACAAGAGAAGACCCTGCTGAGGAAG
Genomic sequence	ATCGACGAGCTTCTCAAGGAAAGGAATGCAATTCATGCATCCTACACCAACAACACAACTCTGC AACGGAGTTCCAGTAGCAACAAAGGGAAAACATCCTCTAAAGAGTCCAAAAGTGATGATGACCA AACTGTGAAAAAGGAAAAGAAATCGAAGAGCAAGTCCATGGAGGGATCCAGAAGTGATGATGAT GGTCCTAGAAAGGAAAAGAAACCTAAGGAACGACTTCGAAGGAAGAAATGGTTCAACATCCATT TGAAAGTAGACAAGAGAAGACCCTGCTGAGGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004267* osi_circ_012269 						
					
						PMCS
						0.546990086

Conservation Information
Conserved circRNAs	osi_circ_004267* osi_circ_012269
PMCS	0.546990086

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							30998355-30998396(+)
30998371-30998158(-)
						
						Potential amino acid sequence
						
							MVQHPFESRQEKTLLRKIDELLKERNAIHASYTNNTTLQRSSSSNKGKTSSKESKSDDDQTVKK
EKKSKSKSMEGSRSDDDGPRKEKKPKERLRRKKWFNIHLKVDKRRPC*(+)
MDVEPFLPSKSFLRFLFLSRTIIITSGSLHGLALRFLFLFHSLVIITFGLFRGCFPFVATGTPL
QSCVVGVGCMNCIPFLEKLVDLPQQGLLLSTFKWMLNHFFLRSRSLGFFSFLGPSSSLLDPSMD
LLFDFFSFFTVWSSSLLDSLEDVFPLLLLELRCRVVLLV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	30998355-30998396(+) 30998371-30998158(-)
Potential amino acid sequence	MVQHPFESRQEKTLLRKIDELLKERNAIHASYTNNTTLQRSSSSNKGKTSSKESKSDDDQTVKK EKKSKSKSMEGSRSDDDGPRKEKKPKERLRRKKWFNIHLKVDKRRPC(+) MDVEPFLPSKSFLRFLFLSRTIIITSGSLHGLALRFLFLFHSLVIITFGLFRGCFPFVATGTPL QSCVVGVGCMNCIPFLEKLVDLPQQGLLLSTFKWMLNHFFLRSRSLGFFSFLGPSSSLLDPSMD LLFDFFSFFTVWSSSLLDSLEDVFPLLLLELRCRVVLLV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os02g0741100_circ_g.2

Address

Any questions?

Supported by