Plant Circular RNA Database

Detail information of Os03g0284900_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os03g0284900_circ_g.2
					
						ID in PlantcircBase
						osa_circ_019226
					
						Alias
						Os03circ11489
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 9800011-9800986  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder, SMALT, Segemehl
					
						Parent gene
						
							Os03g0284900						
					
						Parent gene annotation
						
							Annexin repeat, conserved site domain containing protein. (Os03t
0284900-01);Annexin repeat, conserved site domain containing pro
tein. (Os03t0284900-02);Hypothetical conserved gene. (Os03t02849
00-03);Similar to cDNA clone:001-032-C02, full insert sequence. 
(Os03t0284900-04)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0284900_circ_g.3 Os03g0284900_circ_g.4 Os03g0284900_circ_g.5 						
					
						Support reads
						2/1
					
						Tissues
						leaf/seed
					
						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
						Os03t0284900-01:3
Os03t0284900-04:3
Os03t0284900-03:3
Os03t0284900-02:3

General Information
CircRNA Name	Os03g0284900_circ_g.2
ID in PlantcircBase	osa_circ_019226
Alias	Os03circ11489
Organism	Oryza sativa
Position	chr3: 9800011-9800986 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	PcircRNA_finder, SMALT, Segemehl
Parent gene	Os03g0284900
Parent gene annotation	Annexin repeat, conserved site domain containing protein. (Os03t 0284900-01);Annexin repeat, conserved site domain containing pro tein. (Os03t0284900-02);Hypothetical conserved gene. (Os03t02849 00-03);Similar to cDNA clone:001-032-C02, full insert sequence. (Os03t0284900-04)
Parent gene strand	-
Alternative splicing	Os03g0284900_circ_g.3 Os03g0284900_circ_g.4 Os03g0284900_circ_g.5
Support reads	2/1
Tissues	leaf/seed
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	Os03t0284900-01:3 Os03t0284900-04:3 Os03t0284900-03:3 Os03t0284900-02:3

			
						 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  
						
							ACCCAGCCTTTCTCATTTCTTGATAGATTGCCAAACATTGCTGGACTTCCTGTAATGATCCATA
TTTATTGCGTGCTGTCAAAAGAGTCTTGTATGTGACctagtagatacttctctttgatcttccg
gagaactgagagaactacaacgcgagattcaacctgtgaaacatatagttgagttcatgagtaa
ggatgtat

						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: 361
Transcript exons: 9800011-9800071,9800340-9800541,9800889-9800986
CTAGTAGATACTTCTCTTTGATCTTCCGGAGAACTGAGAGAACTACAACGCGAGATTCAACCTT
TGAAAGCCCACGAACATCGACAGTTTGGTTTTGATCAACATCTTTCTGCAAGAATGTTGTCACT
TTCTCAAGAACGAGCTTGAATGATTCTTTCCTCTGATCCAATTGGTAATATTCTCGATTTCCAT
TACCGCTAGACAAAACTCCTTCACACCATTCCACTATCAAATTCTTGAGGTAATAGTCATTTGC
TTGATACCCAGCCTTTCTCATTTCTTGATAGATTGCCAAACATTGCTGGACTTCCTGTAATGAT
CCATATTTATTGCGTGCTGTCAAAAGAGTCTTGTATGTGAC
						
						Genomic sequence
						
							CTAGTAGATACTTCTCTTTGATCTTCCGGAGAACTGAGAGAACTACAACGCGAGATTCAACCTG
TGAAACATATAGTTGAGTTCATGAGTAAGGATGTATCATGTAATGGAGATGGTGTGGTAGAACT
CAAGAGTCAAAACATGTCGCTGGGAATGAGATGTTCTCATGCAAAAATCAGCCATCATGCTCAT
GTGAGATGAGATAAGCAACAGTTTGTGAAGTCTGTGGGTTGGAAATTGCAAATTCTCTTGTAAC
TAATGTACAAAGGTAAGCAGATCTTTTTATGAGTTCTCTAAAAACAAAAATATCATATCCATAG
TCAAATTACCTTTGAAAGCCCACGAACATCGACAGTTTGGTTTTGATCAACATCTTTCTGCAAG
AATGTTGTCACTTTCTCAAGAACGAGCTTGAATGATTCTTTCCTCTGATCCAATTGGTAATATT
CTCGATTTCCATTACCGCTAGACAAAACTCCTTCACACCATTCCACTATCAAATTCTTGAGGTA
ATAGTCATTTGCTTGATACCTGTCATGGGTCAACTGCAAATTTAACACGAGGACAAAACATAGA
GAGATATACCCTGTGTAGTGATAGTACGAGTCTATCAGCCATTAGGTTGTCACATGTTTTCTAC
AAAGGAACAATAGGATTAGGATCATCCAACACCTAGGCATGAGAGTTGCATTTGGATGTATTTA
TAGCGAAAGAACATCTATGCTCGAACTAGTGTTTTTTTTTTCTTATGTACAAAGTTAACCTTTT
ATGGAATCTTTGATGAATCACTGTCTTCTCAAACCAATAAGCAATAAGAGGTTTGTTGTTCTTA
AAGAAGTGCCAAATAAACAATTTAAAGATGTTATAATCAGAATTACCCAGCCTTTCTCATTTCT
TGATAGATTGCCAAACATTGCTGGACTTCCTGTAATGATCCATATTTATTGCGTGCTGTCAAAA
GAGTCTTGTATGTGAC

Sequences
Splice junction sequence	ACCCAGCCTTTCTCATTTCTTGATAGATTGCCAAACATTGCTGGACTTCCTGTAATGATCCATA TTTATTGCGTGCTGTCAAAAGAGTCTTGTATGTGACctagtagatacttctctttgatcttccg gagaactgagagaactacaacgcgagattcaacctgtgaaacatatagttgagttcatgagtaa ggatgtat
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: 361 Transcript exons: 9800011-9800071,9800340-9800541,9800889-9800986 CTAGTAGATACTTCTCTTTGATCTTCCGGAGAACTGAGAGAACTACAACGCGAGATTCAACCTT TGAAAGCCCACGAACATCGACAGTTTGGTTTTGATCAACATCTTTCTGCAAGAATGTTGTCACT TTCTCAAGAACGAGCTTGAATGATTCTTTCCTCTGATCCAATTGGTAATATTCTCGATTTCCAT TACCGCTAGACAAAACTCCTTCACACCATTCCACTATCAAATTCTTGAGGTAATAGTCATTTGC TTGATACCCAGCCTTTCTCATTTCTTGATAGATTGCCAAACATTGCTGGACTTCCTGTAATGAT CCATATTTATTGCGTGCTGTCAAAAGAGTCTTGTATGTGAC
Genomic sequence	CTAGTAGATACTTCTCTTTGATCTTCCGGAGAACTGAGAGAACTACAACGCGAGATTCAACCTG TGAAACATATAGTTGAGTTCATGAGTAAGGATGTATCATGTAATGGAGATGGTGTGGTAGAACT CAAGAGTCAAAACATGTCGCTGGGAATGAGATGTTCTCATGCAAAAATCAGCCATCATGCTCAT GTGAGATGAGATAAGCAACAGTTTGTGAAGTCTGTGGGTTGGAAATTGCAAATTCTCTTGTAAC TAATGTACAAAGGTAAGCAGATCTTTTTATGAGTTCTCTAAAAACAAAAATATCATATCCATAG TCAAATTACCTTTGAAAGCCCACGAACATCGACAGTTTGGTTTTGATCAACATCTTTCTGCAAG AATGTTGTCACTTTCTCAAGAACGAGCTTGAATGATTCTTTCCTCTGATCCAATTGGTAATATT CTCGATTTCCATTACCGCTAGACAAAACTCCTTCACACCATTCCACTATCAAATTCTTGAGGTA ATAGTCATTTGCTTGATACCTGTCATGGGTCAACTGCAAATTTAACACGAGGACAAAACATAGA GAGATATACCCTGTGTAGTGATAGTACGAGTCTATCAGCCATTAGGTTGTCACATGTTTTCTAC AAAGGAACAATAGGATTAGGATCATCCAACACCTAGGCATGAGAGTTGCATTTGGATGTATTTA TAGCGAAAGAACATCTATGCTCGAACTAGTGTTTTTTTTTTCTTATGTACAAAGTTAACCTTTT ATGGAATCTTTGATGAATCACTGTCTTCTCAAACCAATAAGCAATAAGAGGTTTGTTGTTCTTA AAGAAGTGCCAAATAAACAATTTAAAGATGTTATAATCAGAATTACCCAGCCTTTCTCATTTCT TGATAGATTGCCAAACATTGCTGGACTTCCTGTAATGATCCATATTTATTGCGTGCTGTCAAAA GAGTCTTGTATGTGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004736* osi_circ_012835 						
					
						PMCS
						0.250393033

Conservation Information
Conserved circRNAs	osi_circ_004736* osi_circ_012835
PMCS	0.250393033

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9800904-9800954(-)
						
						Potential amino acid sequence
						
							MRKAGYQANDYYLKNLIVEWCEGVLSSGNGNREYYQLDQRKESFKLVLEKVTTFLQKDVDQNQT
VDVRGLSKVESRVVVLSVLRKIKEKYLLGHIQDSFDSTQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9800904-9800954(-)
Potential amino acid sequence	MRKAGYQANDYYLKNLIVEWCEGVLSSGNGNREYYQLDQRKESFKLVLEKVTTFLQKDVDQNQT VDVRGLSKVESRVVVLSVLRKIKEKYLLGHIQDSFDSTQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os03g0284900_circ_g.2

Address

Any questions?

Supported by