Plant Circular RNA Database

Detail information of Os03g0735025_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0735025_circ_g.3
					
						ID in PlantcircBase
						osa_circ_021680
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 30101072-30102120  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0735000						
					
						Parent gene annotation
						
							Similar to Glucose-1-phosphate adenylyltransferase large subunit
 2 (EC 2.7.7.27) (ADP-glucose synthase) (ADP-glucose pyrophospho
rylase) (AGPASE S) (Alpha-D-glucose-1-phosphate adenyl transfera
se) (BLPL) (Fragment). (Os03t0735000-01);Similar to Glucose-1-ph
osphate adenylyltransferase. (Os03t0735000-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0735025_circ_g.1 Os03g0735000_circ_g.1 Os03g0735025_circ_g.2 Os03g0735025_circ_g.4 Os03g0735025_circ_g.5 Os03g0735000_circ_g.6 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os03t0735025-00:4
Os03t0735025-00:4
Os03t0735000-01:4

General Information
CircRNA Name	Os03g0735025_circ_g.3
ID in PlantcircBase	osa_circ_021680
Alias	NA
Organism	Oryza sativa
Position	chr3: 30101072-30102120 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0735000
Parent gene annotation	Similar to Glucose-1-phosphate adenylyltransferase large subunit 2 (EC 2.7.7.27) (ADP-glucose synthase) (ADP-glucose pyrophospho rylase) (AGPASE S) (Alpha-D-glucose-1-phosphate adenyl transfera se) (BLPL) (Fragment). (Os03t0735000-01);Similar to Glucose-1-ph osphate adenylyltransferase. (Os03t0735000-02)
Parent gene strand	-
Alternative splicing	Os03g0735025_circ_g.1 Os03g0735000_circ_g.1 Os03g0735025_circ_g.2 Os03g0735025_circ_g.4 Os03g0735025_circ_g.5 Os03g0735000_circ_g.6
Support reads	1
Tissues	shoot
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	Os03t0735025-00:4 Os03t0735025-00:4 Os03t0735000-01:4

			
						 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  
						
							GAAGTATCTCTTTCTTAAATATATAAACCCCCATTGACGCTATGTATGGCTTCTCTTTTGCTTC
ATCCTGTGGTAAGCCTAGAACAGTGGTGTCAACTTGcttactattattgatcatagatggcggt
aagtttctccgtgatgtgtacattggtttattagcatcataaaagctgaatctcggtggctgca
taagtgaa

						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: 354
Transcript exons: 30101072-30101158,30101441-30101521,30101722-30101794,30
102008-30102120
CTTACTATTATTGATCATAGATGGCGGTAAGTTTCTCCGTGATGTGTACATTGGTTTATTAGCA
TCATAAAAGCTGAATCTCGGTGGCTGTTCAGCAAGAGAAAGATTGGCTTCAAAGAATGATTTTA
TAGTTCCTATGTCTTCCCAGTAATCATTGAAAAGATATGCCTTTACATTGATTTCTTTTGCTGA
AGCAGGAATGATTTCAGATCCAAAGTCATTTGCTGTGGGAAAACGCCATCTCAAAAGATTTAGA
AGTATCTCTTTCTTAAATATATAAACCCCCATTGACGCTATGTATGGCTTCTCTTTTGCTTCAT
CCTGTGGTAAGCCTAGAACAGTGGTGTCAACTTG
						
						Genomic sequence
						
							CTTACTATTATTGATCATAGATGGCGGTAAGTTTCTCCGTGATGTGTACATTGGTTTATTAGCA
TCATAAAAGCTGAATCTCGGTGGCTGCATAAGTGAATTCAAAAATGATCAAAAGTTACAGAGAG
TTTTCATTTGATCTGTTTTAAAAAGAAAATTTCGTACCTATGTAGTACTATCACCATCATGATA
CTATACGTAGAAGTTAATAACATAAATGAATACGGTGGGGAAAAGGAAGTCAGGAGTTGCTAGA
AGGATGGTGAACATAAAGTATCAATTTGCAGTGTGTACAGTTACATATTTATTAGAGGGATATA
AACTGCAGGAATACGGATAAAATGGCAATTTTGTATTAGTAAAGCATACCTGTTCAGCAAGAGA
AAGATTGGCTTCAAAGAATGATTTTATAGTTCCTATGTCTTCCCAGTAATCATTGAAAAGATAT
GCCTGCAATGAGTTCTAGGTTACAACTGTGCCTGAGATGTTCAAGGCTAGTTTCTGACATGATA
CTGAAGTTGATTGTAAGAAAATAAATAATACATCATACATATGCAGTATTATTATTGAATAAAT
TTGTGTAAATCTGATGCCAATAGTGCAATATTAGAGAACACTACCAAATGGAACTTATTATGTT
AAATCCTTACCTTTACATTGATTTCTTTTGCTGAAGCAGGAATGATTTCAGATCCAAAGTCATT
TGCTGTGGGAAAACGCCATCTGACCTAACAACAATTGCGGTAAAGATTAAGACCTGATAGCAAT
CAATACCACATAAACAGAAGAACAAAAAAGCTGGTTTGTTTATTATACTATTGACATCACTGAA
ATTGAGGTTTGGCATTAGAATGAAAGTACACTTTATAGTCAGATGATTAAATGGAGCATTTTAC
TGAATTTTTATGTGAGCTCCATTGAGTTGAATTGGCATACCTCAAAAGATTTAGAAGTATCTCT
TTCTTAAATATATAAACCCCCATTGACGCTATGTATGGCTTCTCTTTTGCTTCATCCTGTGGTA
AGCCTAGAACAGTGGTGTCAACTTG

Sequences
Splice junction sequence	GAAGTATCTCTTTCTTAAATATATAAACCCCCATTGACGCTATGTATGGCTTCTCTTTTGCTTC ATCCTGTGGTAAGCCTAGAACAGTGGTGTCAACTTGcttactattattgatcatagatggcggt aagtttctccgtgatgtgtacattggtttattagcatcataaaagctgaatctcggtggctgca taagtgaa
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: 354 Transcript exons: 30101072-30101158,30101441-30101521,30101722-30101794,30 102008-30102120 CTTACTATTATTGATCATAGATGGCGGTAAGTTTCTCCGTGATGTGTACATTGGTTTATTAGCA TCATAAAAGCTGAATCTCGGTGGCTGTTCAGCAAGAGAAAGATTGGCTTCAAAGAATGATTTTA TAGTTCCTATGTCTTCCCAGTAATCATTGAAAAGATATGCCTTTACATTGATTTCTTTTGCTGA AGCAGGAATGATTTCAGATCCAAAGTCATTTGCTGTGGGAAAACGCCATCTCAAAAGATTTAGA AGTATCTCTTTCTTAAATATATAAACCCCCATTGACGCTATGTATGGCTTCTCTTTTGCTTCAT CCTGTGGTAAGCCTAGAACAGTGGTGTCAACTTG
Genomic sequence	CTTACTATTATTGATCATAGATGGCGGTAAGTTTCTCCGTGATGTGTACATTGGTTTATTAGCA TCATAAAAGCTGAATCTCGGTGGCTGCATAAGTGAATTCAAAAATGATCAAAAGTTACAGAGAG TTTTCATTTGATCTGTTTTAAAAAGAAAATTTCGTACCTATGTAGTACTATCACCATCATGATA CTATACGTAGAAGTTAATAACATAAATGAATACGGTGGGGAAAAGGAAGTCAGGAGTTGCTAGA AGGATGGTGAACATAAAGTATCAATTTGCAGTGTGTACAGTTACATATTTATTAGAGGGATATA AACTGCAGGAATACGGATAAAATGGCAATTTTGTATTAGTAAAGCATACCTGTTCAGCAAGAGA AAGATTGGCTTCAAAGAATGATTTTATAGTTCCTATGTCTTCCCAGTAATCATTGAAAAGATAT GCCTGCAATGAGTTCTAGGTTACAACTGTGCCTGAGATGTTCAAGGCTAGTTTCTGACATGATA CTGAAGTTGATTGTAAGAAAATAAATAATACATCATACATATGCAGTATTATTATTGAATAAAT TTGTGTAAATCTGATGCCAATAGTGCAATATTAGAGAACACTACCAAATGGAACTTATTATGTT AAATCCTTACCTTTACATTGATTTCTTTTGCTGAAGCAGGAATGATTTCAGATCCAAAGTCATT TGCTGTGGGAAAACGCCATCTGACCTAACAACAATTGCGGTAAAGATTAAGACCTGATAGCAAT CAATACCACATAAACAGAAGAACAAAAAAGCTGGTTTGTTTATTATACTATTGACATCACTGAA ATTGAGGTTTGGCATTAGAATGAAAGTACACTTTATAGTCAGATGATTAAATGGAGCATTTTAC TGAATTTTTATGTGAGCTCCATTGAGTTGAATTGGCATACCTCAAAAGATTTAGAAGTATCTCT TTCTTAAATATATAAACCCCCATTGACGCTATGTATGGCTTCTCTTTTGCTTCATCCTGTGGTA AGCCTAGAACAGTGGTGTCAACTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_005083* 						
					
						PMCS
						0.239118939

Conservation Information
Conserved circRNAs	osi_circ_005083*
PMCS	0.239118939

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							30102063-30101138(+)
30102067-30101082(+)
30102056-30101074(-)
						
						Potential amino acid sequence
						
							MYGFSFASSCGKPRTVVSTCLLLLIIDGGKFLRDVYIGLLAS*(+)
MASLLLHPVVSLEQWCQLAYYY*(+)
MGVYIFKKEILLNLLRWRFPTANDFGSEIIPASAKEINVKAYLFNDYWEDIGTIKSFFEANLSL
AEQPPRFSFYDANKPMYTSRRNLPPSMINNSKQVDTTVLGLPQDEAKEKPYIASMGVYIFKKEI
LLNLLRWRFPTANDFGSEIIPASAKEINVKAYLFNDYWEDIGTIKSFFEANLSLAEQPPRFSFY
DANKPMYTSRRNLPPSMINNSKQVDTTVLGLPQDEAKEKPYIASMGVYIFKKEILLNLLRWRFP
TANDFGSEIIPASAKEINVKAYLFNDYWEDIGTIKSFFEANLSLAEQPPRFSFYDANKPMYTSR
RNLPPSMINNSKQVDTTVLGLPQDEAKEKPYIASMGVYIFKKEILLNLLRWRFPTANDFGSEII
PASAKEINVKAYLFNDYWEDIGTIKSFFEANLSLAEQPPRFSFYDANKPMYTSRRNLPPSMINN
SK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	30102063-30101138(+) 30102067-30101082(+) 30102056-30101074(-)
Potential amino acid sequence	MYGFSFASSCGKPRTVVSTCLLLLIIDGGKFLRDVYIGLLAS(+) MASLLLHPVVSLEQWCQLAYYY(+) MGVYIFKKEILLNLLRWRFPTANDFGSEIIPASAKEINVKAYLFNDYWEDIGTIKSFFEANLSL AEQPPRFSFYDANKPMYTSRRNLPPSMINNSKQVDTTVLGLPQDEAKEKPYIASMGVYIFKKEI LLNLLRWRFPTANDFGSEIIPASAKEINVKAYLFNDYWEDIGTIKSFFEANLSLAEQPPRFSFY DANKPMYTSRRNLPPSMINNSKQVDTTVLGLPQDEAKEKPYIASMGVYIFKKEILLNLLRWRFP TANDFGSEIIPASAKEINVKAYLFNDYWEDIGTIKSFFEANLSLAEQPPRFSFYDANKPMYTSR RNLPPSMINNSKQVDTTVLGLPQDEAKEKPYIASMGVYIFKKEILLNLLRWRFPTANDFGSEII PASAKEINVKAYLFNDYWEDIGTIKSFFEANLSLAEQPPRFSFYDANKPMYTSRRNLPPSMINN SK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0735025_circ_g.3

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