Plant Circular RNA Database

Detail information of Os01g0185200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os01g0185200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_000603
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 4516740-4517933  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0185200						
					
						Parent gene annotation
						
							Similar to glutaminyl-tRNA synthetase. (Os01t0185200-01);Similar
 to glutaminyl-tRNA synthetase. (Os01t0185200-02);Glutaminyl-tRN
A synthetase, class Ic domain containing protein. (Os01t0185200-
03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0185200_circ_g.1 Os01g0185200_circ_g.2 Os01g0185200_circ_g.4 Os01g0185200_circ_g.5 Os01g0185200_circ_g.6 Os01g0185200_circ_g.7 Os01g0185200_circ_g.8 						
					
						Support reads
						1
					
						Tissues
						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  
						
							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
						Os01t0185200-03:4

General Information
CircRNA Name	Os01g0185200_circ_g.3
ID in PlantcircBase	osa_circ_000603
Alias	NA
Organism	Oryza sativa
Position	chr1: 4516740-4517933 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0185200
Parent gene annotation	Similar to glutaminyl-tRNA synthetase. (Os01t0185200-01);Similar to glutaminyl-tRNA synthetase. (Os01t0185200-02);Glutaminyl-tRN A synthetase, class Ic domain containing protein. (Os01t0185200- 03)
Parent gene strand	-
Alternative splicing	Os01g0185200_circ_g.1 Os01g0185200_circ_g.2 Os01g0185200_circ_g.4 Os01g0185200_circ_g.5 Os01g0185200_circ_g.6 Os01g0185200_circ_g.7 Os01g0185200_circ_g.8
Support reads	1
Tissues	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	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	Os01t0185200-03:4

			
						 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  
						
							TCACTTTTCCACCGGTTGCCTTAAGGTGTTTCTCTAAAATCTCCTTACTGTTATGCGCTCTCCA
TATGTTCCCATCACTATAGAATATTTCTGTATGAACttttattctatatgctattaaatcagac
atattcttgttatcattctgcatatcttgtttcattcggagtgttgctgcaccttcagcaatca
acccacgt

									
								

					

						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: 585
Transcript exons: 4516740-4516937,4517058-4517235,4517635-4517690,4517781-
4517933
TTTTATTCTATATGCTATTAAATCAGACATATTCTTGTTATCATTCTGCATATCTTGTTTCATT
CGGAGTGTTGCTGCACCTTCAGCAATCAACCCACGTCTCATGTCTTCAAATAGTTTCAGTGATT
CTTCAATGGGTCTATCCCTCCATGGACTATTCATTTTCTTTTCCCTGTATTCCTTGATTTCTTC
TGCGGTCTGGTGATCCACATAGGCTAGCCCTTTTCGTATTAACTCAACTGCATGCTCATATAAA
GCCTGGAAATAATCACTTGTATATGTAACTTTGTAGGGCTCCCATCCCATCCAGTGTACGATTT
CCTGAATGTGGTCAATATACTCTTTCTTTTCGGCTTCTGGATTTGTGTCATCAAACCTAAGGTA
ACAATGACCATTTCTCTCTTTCGCCAGTCCAAAATCAATAAACATAGCCTTGGCATGACCAATA
TGAAGATATCCATTAGGTTCTGGTGGGAAACGGGTCATCACTTTTCCACCGGTTGCCTTAAGGT
GTTTCTCTAAAATCTCCTTACTGTTATGCGCTCTCCATATGTTCCCATCACTATAGAATATTTC
TGTATGAAC
						
					

						Genomic sequence
						
							TTTTATTCTATATGCTATTAAATCAGACATATTCTTGTTATCATTCTGCATATCTTGTTTCATT
CGGAGTGTTGCTGCACCTTCAGCAATCAACCCACGTCTCATGTCTTCAAATAGTTTCAGTGATT
CTTCAATGGGTCTATCCCTCCATGGACTATTCATTTTCTTTTCCCTGTATTCCTTGATTTCTTC
TGCGGTCTGGCAAGCATATACCAGTCAGCATGTGCACATTTTATTTCTCAAGGGCATGATGTAA
CAGCTCCACACAACTTCAATTACTGTTGGATCGAAATAATAAAAAAGAGAGCTGGAGGAAACCT
GGTGATCCACATAGGCTAGCCCTTTTCGTATTAACTCAACTGCATGCTCATATAAAGCCTGGAA
ATAATCACTTGTATATGTAACTTTGTAGGGCTCCCATCCCATCCAGTGTACGATTTCCTGAATG
TGGTCAATATACTCTTTCTTTTCGGCTTCTGGATTTGTGTCATCAAACCTGTTGTTAAGATATA
TATAGACATTATCAGTACACATGTTCCCATGAAAGCAAATGAACTGAAGCAGCTAAGGATTTTA
AAGTTCTCTGAACAAATTAAGATCAAGCAAAAATCACGAAATCTCAATTAATAATGGAAATGCA
GAGCAGAATTATATAGATCCAGCATAACCTGATACATGCAGTATAGATTTATAGGTCTGCCATA
TTTTAGTACATGGTCTATACAGAATGAGTATACAAAATAAAATTTGCAAAATGGAATAAAACTC
TTCTAATGCTTAGAACATTGGCACAAAACTGCCCTTAAAGCAGCATCAAACAGGCCATGAAAGA
ATATAAAAATGGTAAGTTATCAGGACAAAACTGTTCAAGATTTCCAAGTCAAAATCTTATTACC
TAAGGTAACAATGACCATTTCTCTCTTTCGCCAGTCCAAAATCAATAAACATAGCCTGCATAAG
ATGAAGCATATAAGCATAATCTTCAAAAATGATTTAAGTGGTATGTGCGAAAATACAATTAACG
AAAGCAAATATTGAAACCTTGGCATGACCAATATGAAGATATCCATTAGGTTCTGGTGGGAAAC
GGGTCATCACTTTTCCACCGGTTGCCTTAAGGTGTTTCTCTAAAATCTCCTTACTGTTATGCGC
TCTCCATATGTTCCCATCACTATAGAATATTTCTGTATGAAC
						
					

			
		

Sequences
Splice junction sequence	TCACTTTTCCACCGGTTGCCTTAAGGTGTTTCTCTAAAATCTCCTTACTGTTATGCGCTCTCCA TATGTTCCCATCACTATAGAATATTTCTGTATGAACttttattctatatgctattaaatcagac atattcttgttatcattctgcatatcttgtttcattcggagtgttgctgcaccttcagcaatca acccacgt
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: 585 Transcript exons: 4516740-4516937,4517058-4517235,4517635-4517690,4517781- 4517933 TTTTATTCTATATGCTATTAAATCAGACATATTCTTGTTATCATTCTGCATATCTTGTTTCATT CGGAGTGTTGCTGCACCTTCAGCAATCAACCCACGTCTCATGTCTTCAAATAGTTTCAGTGATT CTTCAATGGGTCTATCCCTCCATGGACTATTCATTTTCTTTTCCCTGTATTCCTTGATTTCTTC TGCGGTCTGGTGATCCACATAGGCTAGCCCTTTTCGTATTAACTCAACTGCATGCTCATATAAA GCCTGGAAATAATCACTTGTATATGTAACTTTGTAGGGCTCCCATCCCATCCAGTGTACGATTT CCTGAATGTGGTCAATATACTCTTTCTTTTCGGCTTCTGGATTTGTGTCATCAAACCTAAGGTA ACAATGACCATTTCTCTCTTTCGCCAGTCCAAAATCAATAAACATAGCCTTGGCATGACCAATA TGAAGATATCCATTAGGTTCTGGTGGGAAACGGGTCATCACTTTTCCACCGGTTGCCTTAAGGT GTTTCTCTAAAATCTCCTTACTGTTATGCGCTCTCCATATGTTCCCATCACTATAGAATATTTC TGTATGAAC
Genomic sequence	TTTTATTCTATATGCTATTAAATCAGACATATTCTTGTTATCATTCTGCATATCTTGTTTCATT CGGAGTGTTGCTGCACCTTCAGCAATCAACCCACGTCTCATGTCTTCAAATAGTTTCAGTGATT CTTCAATGGGTCTATCCCTCCATGGACTATTCATTTTCTTTTCCCTGTATTCCTTGATTTCTTC TGCGGTCTGGCAAGCATATACCAGTCAGCATGTGCACATTTTATTTCTCAAGGGCATGATGTAA CAGCTCCACACAACTTCAATTACTGTTGGATCGAAATAATAAAAAAGAGAGCTGGAGGAAACCT GGTGATCCACATAGGCTAGCCCTTTTCGTATTAACTCAACTGCATGCTCATATAAAGCCTGGAA ATAATCACTTGTATATGTAACTTTGTAGGGCTCCCATCCCATCCAGTGTACGATTTCCTGAATG TGGTCAATATACTCTTTCTTTTCGGCTTCTGGATTTGTGTCATCAAACCTGTTGTTAAGATATA TATAGACATTATCAGTACACATGTTCCCATGAAAGCAAATGAACTGAAGCAGCTAAGGATTTTA AAGTTCTCTGAACAAATTAAGATCAAGCAAAAATCACGAAATCTCAATTAATAATGGAAATGCA GAGCAGAATTATATAGATCCAGCATAACCTGATACATGCAGTATAGATTTATAGGTCTGCCATA TTTTAGTACATGGTCTATACAGAATGAGTATACAAAATAAAATTTGCAAAATGGAATAAAACTC TTCTAATGCTTAGAACATTGGCACAAAACTGCCCTTAAAGCAGCATCAAACAGGCCATGAAAGA ATATAAAAATGGTAAGTTATCAGGACAAAACTGTTCAAGATTTCCAAGTCAAAATCTTATTACC TAAGGTAACAATGACCATTTCTCTCTTTCGCCAGTCCAAAATCAATAAACATAGCCTGCATAAG ATGAAGCATATAAGCATAATCTTCAAAAATGATTTAAGTGGTATGTGCGAAAATACAATTAACG AAAGCAAATATTGAAACCTTGGCATGACCAATATGAAGATATCCATTAGGTTCTGGTGGGAAAC GGGTCATCACTTTTCCACCGGTTGCCTTAAGGTGTTTCTCTAAAATCTCCTTACTGTTATGCGC TCTCCATATGTTCCCATCACTATAGAATATTTCTGTATGAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.292310895

Conservation Information
Conserved circRNAs	NA
PMCS	0.292310895

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4517887-4516757(+)
4517836-4516742(-)
						
						Potential amino acid sequence
						
							MRSPYVPITIEYFCMNFYSICY*(+)
MTRFPPEPNGYLHIGHAKAMFIDFGLAKERNGHCYLRFDDTNPEAEKKEYIDHIQEIVHWMGWE
PYKVTYTSDYFQALYEHAVELIRKGLAYVDHQTAEEIKEYREKKMNSPWRDRPIEESLKLFEDM
RRGLIAEGAATLRMKQDMQNDNKNMSDLIAYRIKVHTEIFYSDGNIWRAHNSKEILEKHLKATG
GKVMTRFPPEPNGYLHIGHAKAMFIDFGLAKERNGHCYLRFDDTNPEAEKKEYIDHIQEIVHWM
GWEPYKVTYTSDYFQALYEHAVELIRKGLAYVDHQTAEEIKEYREKKMNSPWRDRPIEESLKLF
EDMRRGLIAEGAATLRMKQDMQNDNKNMSDLIAYRIKVHTEIFYSDGNIWRAHNSKEILEKHLK
ATGGKVMTRFPPEPNGYLHIGHAKAMFIDFGLAKERNGHCYLRFDDTNPEAEKKEYIDHIQEIV
HWMGWEPYKVTYTSDYFQALYEHAVELIRKGLAYVDHQTAEEIKEYREKKMNSPWRDRPIEESL
KLFEDMRRGLIAEGAATLRMKQDMQNDNKNMSDLIAYRIKVHTEIFYSDGNIWRAHNSKEILEK
HLKATGGKVMTRFPPEPNGYLHIGHAKAMFIDFGLAKERNGHCYLRFDDTNPEAEKKEYIDHIQ
EIVHWMGWEPYKVTYTSDYFQALYEHAVELIRKGLAYVDHQTAEEIKEYREKKMNSPWRDRPIE
ESLKLFEDMRRGLIAEGAATLRMKQDMQNDNKNMSDLIAYRIK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4517887-4516757(+) 4517836-4516742(-)
Potential amino acid sequence	MRSPYVPITIEYFCMNFYSICY*(+) MTRFPPEPNGYLHIGHAKAMFIDFGLAKERNGHCYLRFDDTNPEAEKKEYIDHIQEIVHWMGWE PYKVTYTSDYFQALYEHAVELIRKGLAYVDHQTAEEIKEYREKKMNSPWRDRPIEESLKLFEDM RRGLIAEGAATLRMKQDMQNDNKNMSDLIAYRIKVHTEIFYSDGNIWRAHNSKEILEKHLKATG GKVMTRFPPEPNGYLHIGHAKAMFIDFGLAKERNGHCYLRFDDTNPEAEKKEYIDHIQEIVHWM GWEPYKVTYTSDYFQALYEHAVELIRKGLAYVDHQTAEEIKEYREKKMNSPWRDRPIEESLKLF EDMRRGLIAEGAATLRMKQDMQNDNKNMSDLIAYRIKVHTEIFYSDGNIWRAHNSKEILEKHLK ATGGKVMTRFPPEPNGYLHIGHAKAMFIDFGLAKERNGHCYLRFDDTNPEAEKKEYIDHIQEIV HWMGWEPYKVTYTSDYFQALYEHAVELIRKGLAYVDHQTAEEIKEYREKKMNSPWRDRPIEESL KLFEDMRRGLIAEGAATLRMKQDMQNDNKNMSDLIAYRIKVHTEIFYSDGNIWRAHNSKEILEK HLKATGGKVMTRFPPEPNGYLHIGHAKAMFIDFGLAKERNGHCYLRFDDTNPEAEKKEYIDHIQ EIVHWMGWEPYKVTYTSDYFQALYEHAVELIRKGLAYVDHQTAEEIKEYREKKMNSPWRDRPIE ESLKLFEDMRRGLIAEGAATLRMKQDMQNDNKNMSDLIAYRIK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0185200_circ_g.3

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