Plant Circular RNA Database

Detail information of Os10g0431000_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os10g0431000_circ_g.1
					
						ID in PlantcircBase
						osa_circ_006861
					
						Alias
						Os_ciR2085
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 15362168-15362857  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os10g0431000						
					
						Parent gene annotation
						
							Similar to predicted protein. (Os10t0431000-01);Non-protein codi
ng transcript. (Os10t0431000-02);Similar to DNA-binding protein-
like. (Os10t0431000-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os10g0431000_circ_igg.1 Os10g0431000_circ_igg.2 Os10g0431000_circ_g.3 Os10g0431000_circ_g.4 Os10g0431000_circ_g.5 Os10g0431000_circ_g.6 Os10g0431000_circ_g.7 Os10g0431100_circ_ig.1 						
					
						Support reads
						8/2
					
						Tissues
						root/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
						Os10t0431000-03:3

General Information
CircRNA Name	Os10g0431000_circ_g.1
ID in PlantcircBase	osa_circ_006861
Alias	Os_ciR2085
Organism	Oryza sativa
Position	chr10: 15362168-15362857 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os10g0431000
Parent gene annotation	Similar to predicted protein. (Os10t0431000-01);Non-protein codi ng transcript. (Os10t0431000-02);Similar to DNA-binding protein- like. (Os10t0431000-03)
Parent gene strand	+
Alternative splicing	Os10g0431000_circ_igg.1 Os10g0431000_circ_igg.2 Os10g0431000_circ_g.3 Os10g0431000_circ_g.4 Os10g0431000_circ_g.5 Os10g0431000_circ_g.6 Os10g0431000_circ_g.7 Os10g0431100_circ_ig.1
Support reads	8/2
Tissues	root/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	Os10t0431000-03:3

			
						 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  
						
							CTTCACAGCTCGGTAGCCAGGCGGTTGATGCATCTGAAAATAAAGTTGATGAAGATAGTAAAAT
AAAAGCACTTATTGATACATCTGCACTCGACTATAGaatatgctgatgaagctactatgatacc
aaagaacacatcggtgttgattcgtcggataccaggaagaccaaggaagcctattgtaacagaa
ccagaaga

						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: 340
Transcript exons: 15362168-15362267,15362476-15362554,15362697-15362857
AATATGCTGATGAAGCTACTATGATACCAAAGAACACATCGGTGTTGATTCGTCGGATACCAGG
AAGACCAAGGAAGCCTATTGTAACAGAACCAGAAGAGACAAAAGCCATGGAAGGTAGGGTAGAA
GAAACCATGCCTTCTGGTAGTGCTTTTCTTGCTGATGCATCTATGAAATATCCTGAAGAATCTG
AGTGGGATGACGAGTTTGGCAATGATTTATATGTTTCTGATTCAGTCCCTTCACAGCTCGGTAG
CCAGGCGGTTGATGCATCTGAAAATAAAGTTGATGAAGATAGTAAAATAAAAGCACTTATTGAT
ACATCTGCACTCGACTATAG
						
						Genomic sequence
						
							AATATGCTGATGAAGCTACTATGATACCAAAGAACACATCGGTGTTGATTCGTCGGATACCAGG
AAGACCAAGGAAGCCTATTGTAACAGAACCAGAAGAGTACCGTCTTGATCTTTGATTCCATACT
GTACACATCTCCTAATTCACATACATTTGGAGCCAAACCACAATTTAGTTATATGAGGGGACAT
GCTTTCAAATTTGTTTTGACTGAATCACGCCTCTGGTTATGCTTGGAGTTAGATTCCTTTCCCT
CTCCCTTTCCTTTCTAGTATGCATAATTTGAGATGCTCGCTCATTTGTGCAGGACAAAAGCCAT
GGAAGGTAGGGTAGAAGAAACCATGCCTTCTGGTAGTGCTTTTCTTGCTGATGCATCTATGAAA
TATGTAAGAATAAAGTCTTCTAGTCTTGGATACTATTTGCCCTTGCAGTATCTGCCATTTTATT
TTTATTTAGATGTTTGAGCTGTTGCAGACTTGCATTTGTGTGTTAATACATGGAGCTGATATTC
AAAATATTAAATTGCAGCCTGAAGAATCTGAGTGGGATGACGAGTTTGGCAATGATTTATATGT
TTCTGATTCAGTCCCTTCACAGCTCGGTAGCCAGGCGGTTGATGCATCTGAAAATAAAGTTGAT
GAAGATAGTAAAATAAAAGCACTTATTGATACATCTGCACTCGACTATAG

Sequences
Splice junction sequence	CTTCACAGCTCGGTAGCCAGGCGGTTGATGCATCTGAAAATAAAGTTGATGAAGATAGTAAAAT AAAAGCACTTATTGATACATCTGCACTCGACTATAGaatatgctgatgaagctactatgatacc aaagaacacatcggtgttgattcgtcggataccaggaagaccaaggaagcctattgtaacagaa ccagaaga
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: 340 Transcript exons: 15362168-15362267,15362476-15362554,15362697-15362857 AATATGCTGATGAAGCTACTATGATACCAAAGAACACATCGGTGTTGATTCGTCGGATACCAGG AAGACCAAGGAAGCCTATTGTAACAGAACCAGAAGAGACAAAAGCCATGGAAGGTAGGGTAGAA GAAACCATGCCTTCTGGTAGTGCTTTTCTTGCTGATGCATCTATGAAATATCCTGAAGAATCTG AGTGGGATGACGAGTTTGGCAATGATTTATATGTTTCTGATTCAGTCCCTTCACAGCTCGGTAG CCAGGCGGTTGATGCATCTGAAAATAAAGTTGATGAAGATAGTAAAATAAAAGCACTTATTGAT ACATCTGCACTCGACTATAG
Genomic sequence	AATATGCTGATGAAGCTACTATGATACCAAAGAACACATCGGTGTTGATTCGTCGGATACCAGG AAGACCAAGGAAGCCTATTGTAACAGAACCAGAAGAGTACCGTCTTGATCTTTGATTCCATACT GTACACATCTCCTAATTCACATACATTTGGAGCCAAACCACAATTTAGTTATATGAGGGGACAT GCTTTCAAATTTGTTTTGACTGAATCACGCCTCTGGTTATGCTTGGAGTTAGATTCCTTTCCCT CTCCCTTTCCTTTCTAGTATGCATAATTTGAGATGCTCGCTCATTTGTGCAGGACAAAAGCCAT GGAAGGTAGGGTAGAAGAAACCATGCCTTCTGGTAGTGCTTTTCTTGCTGATGCATCTATGAAA TATGTAAGAATAAAGTCTTCTAGTCTTGGATACTATTTGCCCTTGCAGTATCTGCCATTTTATT TTTATTTAGATGTTTGAGCTGTTGCAGACTTGCATTTGTGTGTTAATACATGGAGCTGATATTC AAAATATTAAATTGCAGCCTGAAGAATCTGAGTGGGATGACGAGTTTGGCAATGATTTATATGT TTCTGATTCAGTCCCTTCACAGCTCGGTAGCCAGGCGGTTGATGCATCTGAAAATAAAGTTGAT GAAGATAGTAAAATAAAAGCACTTATTGATACATCTGCACTCGACTATAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_008425 						
					
						PMCS
						0.190734191

Conservation Information
Conserved circRNAs	osi_circ_008425
PMCS	0.190734191

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							15362189-15362174(+)
15362513-15362762(-)
						
						Potential amino acid sequence
						
							MIPKNTSVLIRRIPGRPRKPIVTEPEETKAMEGRVEETMPSGSAFLADASMKYPEESEWDDEFG
NDLYVSDSVPSQLGSQAVDASENKVDEDSKIKALIDTSALDYRIC*(+)
MVSSTLPSMAFVSSGSVTIGFLGLPGIRRINTDVFFGIIVASSAYSIVECRCINKCFYFTIFIN
FIFRCINRLATEL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	15362189-15362174(+) 15362513-15362762(-)
Potential amino acid sequence	MIPKNTSVLIRRIPGRPRKPIVTEPEETKAMEGRVEETMPSGSAFLADASMKYPEESEWDDEFG NDLYVSDSVPSQLGSQAVDASENKVDEDSKIKALIDTSALDYRIC(+) MVSSTLPSMAFVSSGSVTIGFLGLPGIRRINTDVFFGIIVASSAYSIVECRCINKCFYFTIFIN FIFRCINRLATEL(-)
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 Os10g0431000_circ_g.1

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