Plant Circular RNA Database

Detail information of Os05g0173500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os05g0173500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_026833
					
						Alias
						Os_ciR10223
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 4405709-4407009  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os05g0173500						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os05t0173500-01);Hypothetical c
onserved gene. (Os05t0173500-02);Hypothetical conserved gene. (O
s05t0173500-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0173500_circ_g.2 Os05g0173500_circ_g.3 Os05g0173500_circ_g.4 						
					
						Support reads
						2/1
					
						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
						Os05t0173500-01:8
Os05t0173500-02:8
Os05t0173500-03:8

General Information
CircRNA Name	Os05g0173500_circ_g.1
ID in PlantcircBase	osa_circ_026833
Alias	Os_ciR10223
Organism	Oryza sativa
Position	chr5: 4405709-4407009 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os05g0173500
Parent gene annotation	Conserved hypothetical protein. (Os05t0173500-01);Hypothetical c onserved gene. (Os05t0173500-02);Hypothetical conserved gene. (O s05t0173500-03)
Parent gene strand	+
Alternative splicing	Os05g0173500_circ_g.2 Os05g0173500_circ_g.3 Os05g0173500_circ_g.4
Support reads	2/1
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	Os05t0173500-01:8 Os05t0173500-02:8 Os05t0173500-03:8

			
						 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  
						
							GAGATTAATTTTTATCTTCAGAAACCAAAACCACATACCTATTTGGACTACGCCAGGAAGAAGT
TACAGATATCAATGAATATCGATTTGATTACCAAAAgttgagttcttagagtgggagcattacc
acttaaattataatacctatgaggatgatctagcatatgtcaggtatcgtgcacgcttagcaaa
tgagacta

									
								

					

						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: 616
Transcript exons: 4405709-4405810,4405887-4405928,4406030-4406125,4406203-
4406295,4406408-4406527,4406637-4406669,4406756-4406806,
4406931-4407009
GTTGAGTTCTTAGAGTGGGAGCATTACCACTTAAATTATAATACCTATGAGGATGATCTAGCAT
ATGTCAGGTATCGTGCACGCTTAGCAAATGAGACTAAGTGGATTGAAGATTATCTGGCCCGTGA
CATAACTCAGGCTGAGTGGCGTAGGGTTAAGGATATAGCTTCAGTTCAAGCACTGAAGATTGCA
AGAGTCTCTGGTGGTGTCAAGGCACAGGCAGCTTTGGCTGGTTTCAGAGATCATATATGGAGCA
TTCAGTTTGATTTCAATCACTATAAGGATTTTGATGGTGTTTACTTCAAGATTTGGAAGCGGGT
TGCTAAGAGAAAGATGAATTTTAGAGAAGCTTTGTTGGAAGTGTATAGAGAAGATATGTTTCCT
GTGCGCAAGAATGGTATTAAGTACGAACTTGATAATACTCAACTAAGATTCAAGTCGATGAAAG
AAAAGTATGATGCCCACGTGGCTTGCCTTGATGAGTCGGTGCCAGAAGATGAAGTTCGTCAGTT
GATCAAAGAGGCCGTTATAAAAATGAAACCAAAACCACATACCTATTTGGACTACGCCAGGAAG
AAGTTACAGATATCAATGAATATCGATTTGATTACCAAAA
						
					

						Genomic sequence
						
							GTTGAGTTCTTAGAGTGGGAGCATTACCACTTAAATTATAATACCTATGAGGATGATCTAGCAT
ATGTCAGGTATCGTGCACGCTTAGCAAATGAGACTAAGGTATGATTGAATTAATCAAAGTGCTA
AGTACTGGTCATATATCATCTTTTTCTGACAGCCTTTATTTACGTGATAGTGGATTGAAGATTA
TCTGGCCCGTGACATAACTCAGGCTGAGGTAGGATCCAAAAGCCTTTTGCACCTAATAAACTGT
TGTGCAATGCATATTTATATTATAAGTCCCACAACTCATGCATGACAATTGTTTCCATTGTTTA
GTGGCGTAGGGTTAAGGATATAGCTTCAGTTCAAGCACTGAAGATTGCAAGAGTCTCTGGTGGT
GTCAAGGCACAGGCAGCTTTGGCTGGTTTCAGAGTAAAACCTCTTCTCTTGTTAATTTTAGGTG
GAGAGTGTAATTGTAATAGTGTTTAACAATACTATTTTAAAATCAGGATCATATATGGAGCATT
CAGTTTGATTTCAATCACTATAAGGATTTTGATGGTGTTTACTTCAAGATTTGGAAGCGGGTTG
CTAAGAGAAAGGTTAGATTGCCTCAGTATGCACAGCAAGCAACTTATGGTGCTATTTTCTTTTG
TCCATTCCTTGCTTGTTAATGACATATACCTTCTTTTTTAAAATTTCATCTTTTATTAGATGAA
TTTTAGAGAAGCTTTGTTGGAAGTGTATAGAGAAGATATGTTTCCTGTGCGCAAGAATGGTATT
AAGTACGAACTTGATAATACTCAACTAAGATTCAAGTCGATGAAAGAAAAGGTATGTTCCTCTT
CTCAGTTTTACTGCATTGTTTTGCCCTTCTTTGTTGGATATTTTTCAACTCGTCATCCATCCAT
ATAATTTCTTCTCTTTTGTTCCTGTTGTCCAGTATGATGCCCACGTGGCTTGCCTTGATGAGTC
GGTAAGCATGCTTTGCTTAGATTAATATAATAATATATATCCAGCTGGAGTATGTTGTTCATAT
TGATGAAACTTCTATGTTTGTAGGTGCCAGAAGATGAAGTTCGTCAGTTGATCAAAGAGGCCGT
TATAAAAATGGTTAGTTGATTTATTTCCCTATCATATAAATGCACGCTGTCTAGTTTACTATGG
GTCTATGGCGTTGAGTAACATCTTGAAGTTGGGTTTATTTGCTTATGTGGAGATTAATTTTTAT
CTTCAGAAACCAAAACCACATACCTATTTGGACTACGCCAGGAAGAAGTTACAGATATCAATGA
ATATCGATTTGATTACCAAAA
						
					

			
		

Sequences
Splice junction sequence	GAGATTAATTTTTATCTTCAGAAACCAAAACCACATACCTATTTGGACTACGCCAGGAAGAAGT TACAGATATCAATGAATATCGATTTGATTACCAAAAgttgagttcttagagtgggagcattacc acttaaattataatacctatgaggatgatctagcatatgtcaggtatcgtgcacgcttagcaaa tgagacta
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: 616 Transcript exons: 4405709-4405810,4405887-4405928,4406030-4406125,4406203- 4406295,4406408-4406527,4406637-4406669,4406756-4406806, 4406931-4407009 GTTGAGTTCTTAGAGTGGGAGCATTACCACTTAAATTATAATACCTATGAGGATGATCTAGCAT ATGTCAGGTATCGTGCACGCTTAGCAAATGAGACTAAGTGGATTGAAGATTATCTGGCCCGTGA CATAACTCAGGCTGAGTGGCGTAGGGTTAAGGATATAGCTTCAGTTCAAGCACTGAAGATTGCA AGAGTCTCTGGTGGTGTCAAGGCACAGGCAGCTTTGGCTGGTTTCAGAGATCATATATGGAGCA TTCAGTTTGATTTCAATCACTATAAGGATTTTGATGGTGTTTACTTCAAGATTTGGAAGCGGGT TGCTAAGAGAAAGATGAATTTTAGAGAAGCTTTGTTGGAAGTGTATAGAGAAGATATGTTTCCT GTGCGCAAGAATGGTATTAAGTACGAACTTGATAATACTCAACTAAGATTCAAGTCGATGAAAG AAAAGTATGATGCCCACGTGGCTTGCCTTGATGAGTCGGTGCCAGAAGATGAAGTTCGTCAGTT GATCAAAGAGGCCGTTATAAAAATGAAACCAAAACCACATACCTATTTGGACTACGCCAGGAAG AAGTTACAGATATCAATGAATATCGATTTGATTACCAAAA
Genomic sequence	GTTGAGTTCTTAGAGTGGGAGCATTACCACTTAAATTATAATACCTATGAGGATGATCTAGCAT ATGTCAGGTATCGTGCACGCTTAGCAAATGAGACTAAGGTATGATTGAATTAATCAAAGTGCTA AGTACTGGTCATATATCATCTTTTTCTGACAGCCTTTATTTACGTGATAGTGGATTGAAGATTA TCTGGCCCGTGACATAACTCAGGCTGAGGTAGGATCCAAAAGCCTTTTGCACCTAATAAACTGT TGTGCAATGCATATTTATATTATAAGTCCCACAACTCATGCATGACAATTGTTTCCATTGTTTA GTGGCGTAGGGTTAAGGATATAGCTTCAGTTCAAGCACTGAAGATTGCAAGAGTCTCTGGTGGT GTCAAGGCACAGGCAGCTTTGGCTGGTTTCAGAGTAAAACCTCTTCTCTTGTTAATTTTAGGTG GAGAGTGTAATTGTAATAGTGTTTAACAATACTATTTTAAAATCAGGATCATATATGGAGCATT CAGTTTGATTTCAATCACTATAAGGATTTTGATGGTGTTTACTTCAAGATTTGGAAGCGGGTTG CTAAGAGAAAGGTTAGATTGCCTCAGTATGCACAGCAAGCAACTTATGGTGCTATTTTCTTTTG TCCATTCCTTGCTTGTTAATGACATATACCTTCTTTTTTAAAATTTCATCTTTTATTAGATGAA TTTTAGAGAAGCTTTGTTGGAAGTGTATAGAGAAGATATGTTTCCTGTGCGCAAGAATGGTATT AAGTACGAACTTGATAATACTCAACTAAGATTCAAGTCGATGAAAGAAAAGGTATGTTCCTCTT CTCAGTTTTACTGCATTGTTTTGCCCTTCTTTGTTGGATATTTTTCAACTCGTCATCCATCCAT ATAATTTCTTCTCTTTTGTTCCTGTTGTCCAGTATGATGCCCACGTGGCTTGCCTTGATGAGTC GGTAAGCATGCTTTGCTTAGATTAATATAATAATATATATCCAGCTGGAGTATGTTGTTCATAT TGATGAAACTTCTATGTTTGTAGGTGCCAGAAGATGAAGTTCGTCAGTTGATCAAAGAGGCCGT TATAAAAATGGTTAGTTGATTTATTTCCCTATCATATAAATGCACGCTGTCTAGTTTACTATGG GTCTATGGCGTTGAGTAACATCTTGAAGTTGGGTTTATTTGCTTATGTGGAGATTAATTTTTAT CTTCAGAAACCAAAACCACATACCTATTTGGACTACGCCAGGAAGAAGTTACAGATATCAATGA ATATCGATTTGATTACCAAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.310649761

Conservation Information
Conserved circRNAs	NA
PMCS	0.310649761

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4406409-4405710(+)
4405774-4406959(-)
						
						Potential amino acid sequence
						
							MNFREALLEVYREDMFPVRKNGIKYELDNTQLRFKSMKEKYDAHVACLDESVPEDEVRQLIKEA
VIKMKPKPHTYLDYARKKLQISMNIDLITKS*(+)
MLDHPHRYYNLSGNAPTLRTQLLVIKSIFIDICNFFLA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4406409-4405710(+) 4405774-4406959(-)
Potential amino acid sequence	MNFREALLEVYREDMFPVRKNGIKYELDNTQLRFKSMKEKYDAHVACLDESVPEDEVRQLIKEA VIKMKPKPHTYLDYARKKLQISMNIDLITKS(+) MLDHPHRYYNLSGNAPTLRTQLLVIKSIFIDICNFFLA(-)
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 Os05g0173500_circ_g.1

Address

Any questions?

Supported by