Plant Circular RNA Database

Detail information of Os08g0178300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os08g0178300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_036127
					
						Alias
						Os_ciR11675
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 4589299-4589998  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os08g0178300						
					
						Parent gene annotation
						
							Protein of unknown function DUF2050, pre-mRNA-splicing factor do
main containing protein. (Os08t0178300-01);Hypothetical conserve
d gene. (Os08t0178300-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0178300_circ_g.2 						
					
						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
						Os08t0178300-02:3
Os08t0178300-01:3

General Information
CircRNA Name	Os08g0178300_circ_g.1
ID in PlantcircBase	osa_circ_036127
Alias	Os_ciR11675
Organism	Oryza sativa
Position	chr8: 4589299-4589998 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os08g0178300
Parent gene annotation	Protein of unknown function DUF2050, pre-mRNA-splicing factor do main containing protein. (Os08t0178300-01);Hypothetical conserve d gene. (Os08t0178300-02)
Parent gene strand	+
Alternative splicing	Os08g0178300_circ_g.2
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	Os08t0178300-02:3 Os08t0178300-01:3

			
						 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  
						
							ATACCTAGTCACAGCTGGCTGAAGCGTGGTGTAGATCCTCCTCCAAACCGCTACGGCATAAAGC
CTGGTCGTCATTGGGACGGAGTGGATCGCAGCAATGgaaatacatatagaatggggtaaagggt
tggtgcagaagcgagaagctgaggctagattacaggagcttgaatctgaaaagagtaagccatt
tgcacgga

									
								

					

						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: 336
Transcript exons: 4589299-4589380,4589654-4589726,4589818-4589998
GAAATACATATAGAATGGGGTAAAGGGTTGGTGCAGAAGCGAGAAGCTGAGGCTAGATTACAGG
AGCTTGAATCTGAAAAGAGGATGATCCTGAGCTCGACACCATGCTAAAAAACAGAATCCGGTGG
GGTGATCCTATGGCTCATCTTGTCAAGAGGAATGATACAGACCTCCTTCTGGAGGACTTGGGAG
ATGATGAAAAGATGAAAGAATCTGGCTTCATTGTTCCCCAAAATATACCTAGTCACAGCTGGCT
GAAGCGTGGTGTAGATCCTCCTCCAAACCGCTACGGCATAAAGCCTGGTCGTCATTGGGACGGA
GTGGATCGCAGCAATG
Transcript length: 358
Transcript exons: 4589299-4589402,4589654-4589726,4589818-4589998
GAAATACATATAGAATGGGGTAAAGGGTTGGTGCAGAAGCGAGAAGCTGAGGCTAGATTACAGG
AGCTTGAATCTGAAAAGAGTAAGCCATTTGCACGGACAAGGGATGATCCTGAGCTCGACACCAT
GCTAAAAAACAGAATCCGGTGGGGTGATCCTATGGCTCATCTTGTCAAGAGGAATGATACAGAC
CTCCTTCTGGAGGACTTGGGAGATGATGAAAAGATGAAAGAATCTGGCTTCATTGTTCCCCAAA
ATATACCTAGTCACAGCTGGCTGAAGCGTGGTGTAGATCCTCCTCCAAACCGCTACGGCATAAA
GCCTGGTCGTCATTGGGACGGAGTGGATCGCAGCAATG
						
					

						Genomic sequence
						
							GAAATACATATAGAATGGGGTAAAGGGTTGGTGCAGAAGCGAGAAGCTGAGGCTAGATTACAGG
AGCTTGAATCTGAAAAGAGTAAGCCATTTGCACGGACAAGGTATTTAATACAAGTTTTGTTGCC
TTAATATTCAGATTTTGCCTACTCGATAGCGTTGTTCTTGCTTAATTGCCTTGAACAAACTAGT
GATGTTGAGTTGAAAATCTCCCTCCCTCTCCTCACTGTATCTCTGTGTGTGTGTGTGTGTGTGT
GTGTGTGTGTTTATTAAATATGTTTATTTCTTTGTCAACTGTGAAGGTGTGGAAACATTCATTG
CAAATATTTATAATTTGAACTTGTTTTGCATGTAGGGATGATCCTGAGCTCGACACCATGCTAA
AAAACAGAATCCGGTGGGGTGATCCTATGGCTCATCTTGTCAAGGTAGCTGCCACTTTTGATTT
TGAGTGGTTCAGTTGAACCCTTGAACACCTTCACCTGGCTAATTGCTGATTTATGTGTACATAT
GTTGCAGAGGAATGATACAGACCTCCTTCTGGAGGACTTGGGAGATGATGAAAAGATGAAAGAA
TCTGGCTTCATTGTTCCCCAAAATATACCTAGTCACAGCTGGCTGAAGCGTGGTGTAGATCCTC
CTCCAAACCGCTACGGCATAAAGCCTGGTCGTCATTGGGACGGAGTGGATCGCAGCAATG
						
					

			
		

Sequences
Splice junction sequence	ATACCTAGTCACAGCTGGCTGAAGCGTGGTGTAGATCCTCCTCCAAACCGCTACGGCATAAAGC CTGGTCGTCATTGGGACGGAGTGGATCGCAGCAATGgaaatacatatagaatggggtaaagggt tggtgcagaagcgagaagctgaggctagattacaggagcttgaatctgaaaagagtaagccatt tgcacgga
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: 336 Transcript exons: 4589299-4589380,4589654-4589726,4589818-4589998 GAAATACATATAGAATGGGGTAAAGGGTTGGTGCAGAAGCGAGAAGCTGAGGCTAGATTACAGG AGCTTGAATCTGAAAAGAGGATGATCCTGAGCTCGACACCATGCTAAAAAACAGAATCCGGTGG GGTGATCCTATGGCTCATCTTGTCAAGAGGAATGATACAGACCTCCTTCTGGAGGACTTGGGAG ATGATGAAAAGATGAAAGAATCTGGCTTCATTGTTCCCCAAAATATACCTAGTCACAGCTGGCT GAAGCGTGGTGTAGATCCTCCTCCAAACCGCTACGGCATAAAGCCTGGTCGTCATTGGGACGGA GTGGATCGCAGCAATG Transcript length: 358 Transcript exons: 4589299-4589402,4589654-4589726,4589818-4589998 GAAATACATATAGAATGGGGTAAAGGGTTGGTGCAGAAGCGAGAAGCTGAGGCTAGATTACAGG AGCTTGAATCTGAAAAGAGTAAGCCATTTGCACGGACAAGGGATGATCCTGAGCTCGACACCAT GCTAAAAAACAGAATCCGGTGGGGTGATCCTATGGCTCATCTTGTCAAGAGGAATGATACAGAC CTCCTTCTGGAGGACTTGGGAGATGATGAAAAGATGAAAGAATCTGGCTTCATTGTTCCCCAAA ATATACCTAGTCACAGCTGGCTGAAGCGTGGTGTAGATCCTCCTCCAAACCGCTACGGCATAAA GCCTGGTCGTCATTGGGACGGAGTGGATCGCAGCAATG
Genomic sequence	GAAATACATATAGAATGGGGTAAAGGGTTGGTGCAGAAGCGAGAAGCTGAGGCTAGATTACAGG AGCTTGAATCTGAAAAGAGTAAGCCATTTGCACGGACAAGGTATTTAATACAAGTTTTGTTGCC TTAATATTCAGATTTTGCCTACTCGATAGCGTTGTTCTTGCTTAATTGCCTTGAACAAACTAGT GATGTTGAGTTGAAAATCTCCCTCCCTCTCCTCACTGTATCTCTGTGTGTGTGTGTGTGTGTGT GTGTGTGTGTTTATTAAATATGTTTATTTCTTTGTCAACTGTGAAGGTGTGGAAACATTCATTG CAAATATTTATAATTTGAACTTGTTTTGCATGTAGGGATGATCCTGAGCTCGACACCATGCTAA AAAACAGAATCCGGTGGGGTGATCCTATGGCTCATCTTGTCAAGGTAGCTGCCACTTTTGATTT TGAGTGGTTCAGTTGAACCCTTGAACACCTTCACCTGGCTAATTGCTGATTTATGTGTACATAT GTTGCAGAGGAATGATACAGACCTCCTTCTGGAGGACTTGGGAGATGATGAAAAGATGAAAGAA TCTGGCTTCATTGTTCCCCAAAATATACCTAGTCACAGCTGGCTGAAGCGTGGTGTAGATCCTC CTCCAAACCGCTACGGCATAAAGCCTGGTCGTCATTGGGACGGAGTGGATCGCAGCAATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007569* osi_circ_018259 						
					
						PMCS
						0.336342476

Conservation Information
Conserved circRNAs	osi_circ_007569* osi_circ_018259
PMCS	0.336342476

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4589677-4589318(+)
4589997-4589318(+)
4589309-4589905(-)
4589679-4589681(-)
						
						Potential amino acid sequence
						
							MLKNRIRWGDPMAHLVKRNDTDLLLEDLGDDEKMKESGFIVPQNIPSHSWLKRGVDPPPNRYGI
KPGRHWDGVDRSNGNTYRMG*(+)
MEIHIEWGKGLVQKREAEARLQELESEKSKPFARTRDDPELDTMLKNRIRWGDPMAHLVKRNDT
DLLLEDLGDDEKMKESGFIVPQNIPSHSWLKRGVDPPPNRYGIKPGRHWDGVDRSNGNTYRMG*
(+)
MYFHCCDPLRPNDDQALCRSGLEEDLHHASASCD*(-)
MVSSSGSSLVRANGLLFSDSSSCNLASASRFCTNPLPHSICISIAAIHSVPMTTRLYAVAVWRR
IYTTLQPAVTRYILGNNEARFFHLFIISQVLQKEVCIIPLDKMSHRITPPDSVF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4589677-4589318(+) 4589997-4589318(+) 4589309-4589905(-) 4589679-4589681(-)
Potential amino acid sequence	MLKNRIRWGDPMAHLVKRNDTDLLLEDLGDDEKMKESGFIVPQNIPSHSWLKRGVDPPPNRYGI KPGRHWDGVDRSNGNTYRMG(+) MEIHIEWGKGLVQKREAEARLQELESEKSKPFARTRDDPELDTMLKNRIRWGDPMAHLVKRNDT DLLLEDLGDDEKMKESGFIVPQNIPSHSWLKRGVDPPPNRYGIKPGRHWDGVDRSNGNTYRMG (+) MYFHCCDPLRPNDDQALCRSGLEEDLHHASASCD(-) MVSSSGSSLVRANGLLFSDSSSCNLASASRFCTNPLPHSICISIAAIHSVPMTTRLYAVAVWRR IYTTLQPAVTRYILGNNEARFFHLFIISQVLQKEVCIIPLDKMSHRITPPDSVF(-)
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 Os08g0178300_circ_g.1

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