Plant Circular RNA Database

Detail information of Os03g0686300_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0686300_circ_g.3
					
						ID in PlantcircBase
						osa_circ_021030
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 27376464-27377852  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0686201						
					
						Parent gene annotation
						
							Hypothetical gene. (Os03t0686201-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0686300_circ_g.4 Os03g0686300_circ_g.5 Os03g0686300_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
						Os03t0686300-00:5
Os03t0686201-01:5
Os03t0686300-00:5

General Information
CircRNA Name	Os03g0686300_circ_g.3
ID in PlantcircBase	osa_circ_021030
Alias	NA
Organism	Oryza sativa
Position	chr3: 27376464-27377852 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0686201
Parent gene annotation	Hypothetical gene. (Os03t0686201-01)
Parent gene strand	+
Alternative splicing	Os03g0686300_circ_g.4 Os03g0686300_circ_g.5 Os03g0686300_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	Os03t0686300-00:5 Os03t0686201-01:5 Os03t0686300-00:5

			
						 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  
						
							AACAAACAGAAAAACACACCTGTTGCTTCTCGTTGAGTGATTTTTGTGGCTTCTCCTCAGTCTC
AGGCTCTTTAGGGTTGAGTGAGATAGGGGTGATATCataattggctttcagaacattcaagtag
ttcgttagaattttcacaatgctctgccaatgggcaatcagggtttgttgggccaaggcattcg
cttgagaa

									
								

					

						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: 753
Transcript exons: 27376464-27376604,27376694-27376900,27376987-27377139,27
377479-27377649,27377772-27377852
ATAATTGGCTTTCAGAACATTCAAGTAGTTCGTTAGAATTTTCACAATGCTCTGCCAATGGGCA
ATCAGGGTTTGTTGGGCCAAGGCATTCGCTTGAGAACGAGATCCTTTAATTAGACTAGCACGAG
ATGTTCTCGGCGCCTGGATGCAAAGACCAAGTAATGGGGATATTTCCTTCTTCAAGTTGTCTCT
TATCATGCCATAGATTTTCTCAAGGAAAGCTGTAAGCTGCTGCTTGAAAAGCAGAGCAGGATAC
TTGGCTTCAACTTGACGAAGATCACCTATTCCTCCCATCAAGCGGCTAGCCAGAAAAGGACGGC
CAGCACTCTGTGGTGAAGCTCTCATTCCCGAGAACACCCGCCCAAATGATGCAGCAGAAGATCT
TCGCCTCTGAGGTGTGAGTCCAGCTGCTCCAGTTGTTTTCAGTGTTCGTTGTAATAGTAGGAGT
AATGTGGATGAATTGGAGAGCCAATATGCTAGTTTGTCGTTATTTTCCTGGGCCTCTATAGCAG
TGCCTATTGTTTGAATTATACGGTCAAAAACACCAGTCCTTTCAACTTCAAATGATCTCCAATG
CAGAAGGCATCTGTATATAAGGCAAGCAGCAATGGGCCTCCCACTGGAGAAACCTAGATCTTGT
GATACACATTTGATCAGCATATCTTGGTTTTCCTGTTGCTTCTCGTTGAGTGATTTTTGTGGCT
TCTCCTCAGTCTCAGGCTCTTTAGGGTTGAGTGAGATAGGGGTGATATC
						
					

						Genomic sequence
						
							ATAATTGGCTTTCAGAACATTCAAGTAGTTCGTTAGAATTTTCACAATGCTCTGCCAATGGGCA
ATCAGGGTTTGTTGGGCCAAGGCATTCGCTTGAGAACGAGATCCTTTAATTAGACTAGCACGAG
ATGTTCTCGGCGCCTGCAAAAAATAAGCATCACAAAAAAAACAAACCTGAAGTTCACTCTCTTT
TTATAAACAAATACCAAGCTAGTGCCCCCAATTCATACCTGGATGCAAAGACCAAGTAATGGGG
ATATTTCCTTCTTCAAGTTGTCTCTTATCATGCCATAGATTTTCTCAAGGAAAGCTGTAAGCTG
CTGCTTGAAAAGCAGAGCAGGATACTTGGCTTCAACTTGACGAAGATCACCTATTCCTCCCATC
AAGCGGCTAGCCAGAAAAGGACGGCCAGCACTCTGTGGTGAAGCTCTCATTCCCTTTTAATTTC
AGAAATGGTGAATTAAAAGATATTCGGACTAGAAAATCCTAAGAGTAAAACAAACAGAGATGAA
ATATGTTTTACCGAGAACACCCGCCCAAATGATGCAGCAGAAGATCTTCGCCTCTGAGGTGTGA
GTCCAGCTGCTCCAGTTGTTTTCAGTGTTCGTTGTAATAGTAGGAGTAATGTGGATGAATTGGA
GAGCCAATATGCTAGTTTGTCGTTATTTTCCTGGGCCTTTGGAAAGTAAGAATTTAAACTTAGC
TATATAGCAAATTAAGGATATAAAAAACATTAAGGGTAAACGAATTTTAATCTATACTCCATCC
ATCCCAAAAAAGGACAACTTCTGGGGATGAATCTGACAGTATCCCCAGAAGTTGTTTTTTTTGG
GGGGACGGAGGGTGCGAGTTATAGCAGCATTAAAAATTTTAAGCTCCAGTATTTCTGTTTTTCA
ATTTCTACAGCAAAAGCCTAAGATATCTGTAATAGGCAAACAGAATATCATATGCAGCTTTCCA
ACTTCCAAGAAAAAGGAGGTAAAGCGGAATGGACAAGCAATATATTATTTATTACCTCTATAGC
AGTGCCTATTGTTTGAATTATACGGTCAAAAACACCAGTCCTTTCAACTTCAAATGATCTCCAA
TGCAGAAGGCATCTGTATATAAGGCAAGCAGCAATGGGCCTCCCACTGGAGAAACCTAGATCTT
GTGATACACATTTGATCAGCATATCTTGGTTTTCCTGAAGCATAAAACAAATACAGTATGAAAA
ATAACTCACAATAGTCATAACTTCAGGGTCAAATAAACAGAGGTGTGAAATTTGCTTCAGGACA
GAAATGTCAAACAAACAGAAAAACACACCTGTTGCTTCTCGTTGAGTGATTTTTGTGGCTTCTC
CTCAGTCTCAGGCTCTTTAGGGTTGAGTGAGATAGGGGTGATATC
						
					

			
		

Sequences
Splice junction sequence	AACAAACAGAAAAACACACCTGTTGCTTCTCGTTGAGTGATTTTTGTGGCTTCTCCTCAGTCTC AGGCTCTTTAGGGTTGAGTGAGATAGGGGTGATATCataattggctttcagaacattcaagtag ttcgttagaattttcacaatgctctgccaatgggcaatcagggtttgttgggccaaggcattcg cttgagaa
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: 753 Transcript exons: 27376464-27376604,27376694-27376900,27376987-27377139,27 377479-27377649,27377772-27377852 ATAATTGGCTTTCAGAACATTCAAGTAGTTCGTTAGAATTTTCACAATGCTCTGCCAATGGGCA ATCAGGGTTTGTTGGGCCAAGGCATTCGCTTGAGAACGAGATCCTTTAATTAGACTAGCACGAG ATGTTCTCGGCGCCTGGATGCAAAGACCAAGTAATGGGGATATTTCCTTCTTCAAGTTGTCTCT TATCATGCCATAGATTTTCTCAAGGAAAGCTGTAAGCTGCTGCTTGAAAAGCAGAGCAGGATAC TTGGCTTCAACTTGACGAAGATCACCTATTCCTCCCATCAAGCGGCTAGCCAGAAAAGGACGGC CAGCACTCTGTGGTGAAGCTCTCATTCCCGAGAACACCCGCCCAAATGATGCAGCAGAAGATCT TCGCCTCTGAGGTGTGAGTCCAGCTGCTCCAGTTGTTTTCAGTGTTCGTTGTAATAGTAGGAGT AATGTGGATGAATTGGAGAGCCAATATGCTAGTTTGTCGTTATTTTCCTGGGCCTCTATAGCAG TGCCTATTGTTTGAATTATACGGTCAAAAACACCAGTCCTTTCAACTTCAAATGATCTCCAATG CAGAAGGCATCTGTATATAAGGCAAGCAGCAATGGGCCTCCCACTGGAGAAACCTAGATCTTGT GATACACATTTGATCAGCATATCTTGGTTTTCCTGTTGCTTCTCGTTGAGTGATTTTTGTGGCT TCTCCTCAGTCTCAGGCTCTTTAGGGTTGAGTGAGATAGGGGTGATATC
Genomic sequence	ATAATTGGCTTTCAGAACATTCAAGTAGTTCGTTAGAATTTTCACAATGCTCTGCCAATGGGCA ATCAGGGTTTGTTGGGCCAAGGCATTCGCTTGAGAACGAGATCCTTTAATTAGACTAGCACGAG ATGTTCTCGGCGCCTGCAAAAAATAAGCATCACAAAAAAAACAAACCTGAAGTTCACTCTCTTT TTATAAACAAATACCAAGCTAGTGCCCCCAATTCATACCTGGATGCAAAGACCAAGTAATGGGG ATATTTCCTTCTTCAAGTTGTCTCTTATCATGCCATAGATTTTCTCAAGGAAAGCTGTAAGCTG CTGCTTGAAAAGCAGAGCAGGATACTTGGCTTCAACTTGACGAAGATCACCTATTCCTCCCATC AAGCGGCTAGCCAGAAAAGGACGGCCAGCACTCTGTGGTGAAGCTCTCATTCCCTTTTAATTTC AGAAATGGTGAATTAAAAGATATTCGGACTAGAAAATCCTAAGAGTAAAACAAACAGAGATGAA ATATGTTTTACCGAGAACACCCGCCCAAATGATGCAGCAGAAGATCTTCGCCTCTGAGGTGTGA GTCCAGCTGCTCCAGTTGTTTTCAGTGTTCGTTGTAATAGTAGGAGTAATGTGGATGAATTGGA GAGCCAATATGCTAGTTTGTCGTTATTTTCCTGGGCCTTTGGAAAGTAAGAATTTAAACTTAGC TATATAGCAAATTAAGGATATAAAAAACATTAAGGGTAAACGAATTTTAATCTATACTCCATCC ATCCCAAAAAAGGACAACTTCTGGGGATGAATCTGACAGTATCCCCAGAAGTTGTTTTTTTTGG GGGGACGGAGGGTGCGAGTTATAGCAGCATTAAAAATTTTAAGCTCCAGTATTTCTGTTTTTCA ATTTCTACAGCAAAAGCCTAAGATATCTGTAATAGGCAAACAGAATATCATATGCAGCTTTCCA ACTTCCAAGAAAAAGGAGGTAAAGCGGAATGGACAAGCAATATATTATTTATTACCTCTATAGC AGTGCCTATTGTTTGAATTATACGGTCAAAAACACCAGTCCTTTCAACTTCAAATGATCTCCAA TGCAGAAGGCATCTGTATATAAGGCAAGCAGCAATGGGCCTCCCACTGGAGAAACCTAGATCTT GTGATACACATTTGATCAGCATATCTTGGTTTTCCTGAAGCATAAAACAAATACAGTATGAAAA ATAACTCACAATAGTCATAACTTCAGGGTCAAATAAACAGAGGTGTGAAATTTGCTTCAGGACA GAAATGTCAAACAAACAGAAAAACACACCTGTTGCTTCTCGTTGAGTGATTTTTGTGGCTTCTC CTCAGTCTCAGGCTCTTTAGGGTTGAGTGAGATAGGGGTGATATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.33999799

Conservation Information
Conserved circRNAs	NA
PMCS	0.33999799

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27377586-27376464(+)
27377639-27376466(-)
27376467-27377633(-)
						
						Potential amino acid sequence
						
							MGLPLEKPRSCDTHLISISWFSCCFSLSDFCGFSSVSGSLGLSEIGVIS*(+)
MLIKCVSQDLGFSSGRPIAACLIYRCLLHWRSFEVERTGVFDRIIQTIGTAIEAQENNDKLAYW
LSNSSTLLLLLQRTLKTTGAAGLTPQRRRSSAASFGRVFSGMRASPQSAGRPFLASRLMGGIGD
LRQVEAKYPALLFKQQLTAFLEKIYGMIRDNLKKEISPLLGLCIQAPRTSRASLIKGSRSQANA
LAQQTLIAHWQSIVKILTNYLNVLKANYDITPISLNPKEPETEEKPQKSLNEKQQENQDMLIKC
VSQDLGFSSGRPIAACLIYRCLLHWRSFEVERTGVFDRIIQTIGTAIEAQENNDKLAYWLSNSS
TLLLLLQRTLKTTGAAGLTPQRRRSSAASFGRVFSGMRASPQSAGRPFLASRLMGGIGDLRQVE
AKYPALLFKQQLTAFLEKIYGMIRDNLKKEISPLLGLCIQAPRTSRASLIKGSRSQANALAQQT
LIAHWQSIVKILTNYLNVLKANYDITPISLNPKEPETEEKPQKSLNEKQQENQDMLIKCVSQDL
GFSSGRPIAACLIYRCLLHWRSFEVERTGVFDRIIQTIGTAIEAQENNDKLAYWLSNSSTLLLL
LQRTLKTTGAAGLTPQRRRSSAASFGRVFSGMRASPQSAGRPFLASRLMGGIGDLRQVEAKYPA
LLFKQQLTAFLEKIYGMIRDNLKKEISPLLGLCIQAPRTSRASLIKGSRSQANALAQQTLIAHW
QSIVKILTNYLNVLKANYDITPISLNPKEPETEEKPQKSLNEKQQENQDMLIKCVSQDLGFSSG
RPIAACLIYRCLLHWRSFEVERTGVFDRIIQTIGTAIEAQENNDKLAYWLSNSSTLLLLLQRTL
KTTGAAGLTPQRRRSSAASFGRVFSGMRASPQSAGRPFLASRLMGGIGDLRQVEAKYPALLFKQ
QLTAFLEKIYGMIRDNLKKEISPLLGLCIQAPRTSRASLIKGSRSQANALAQQTLIAHWQSIVK
ILTNYLNVLKANY(-)
MISPLSHSTLKSLRLRRSHKNHSTRSNRKTKIC*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27377586-27376464(+) 27377639-27376466(-) 27376467-27377633(-)
Potential amino acid sequence	MGLPLEKPRSCDTHLISISWFSCCFSLSDFCGFSSVSGSLGLSEIGVIS(+) MLIKCVSQDLGFSSGRPIAACLIYRCLLHWRSFEVERTGVFDRIIQTIGTAIEAQENNDKLAYW LSNSSTLLLLLQRTLKTTGAAGLTPQRRRSSAASFGRVFSGMRASPQSAGRPFLASRLMGGIGD LRQVEAKYPALLFKQQLTAFLEKIYGMIRDNLKKEISPLLGLCIQAPRTSRASLIKGSRSQANA LAQQTLIAHWQSIVKILTNYLNVLKANYDITPISLNPKEPETEEKPQKSLNEKQQENQDMLIKC VSQDLGFSSGRPIAACLIYRCLLHWRSFEVERTGVFDRIIQTIGTAIEAQENNDKLAYWLSNSS TLLLLLQRTLKTTGAAGLTPQRRRSSAASFGRVFSGMRASPQSAGRPFLASRLMGGIGDLRQVE AKYPALLFKQQLTAFLEKIYGMIRDNLKKEISPLLGLCIQAPRTSRASLIKGSRSQANALAQQT LIAHWQSIVKILTNYLNVLKANYDITPISLNPKEPETEEKPQKSLNEKQQENQDMLIKCVSQDL GFSSGRPIAACLIYRCLLHWRSFEVERTGVFDRIIQTIGTAIEAQENNDKLAYWLSNSSTLLLL LQRTLKTTGAAGLTPQRRRSSAASFGRVFSGMRASPQSAGRPFLASRLMGGIGDLRQVEAKYPA LLFKQQLTAFLEKIYGMIRDNLKKEISPLLGLCIQAPRTSRASLIKGSRSQANALAQQTLIAHW QSIVKILTNYLNVLKANYDITPISLNPKEPETEEKPQKSLNEKQQENQDMLIKCVSQDLGFSSG RPIAACLIYRCLLHWRSFEVERTGVFDRIIQTIGTAIEAQENNDKLAYWLSNSSTLLLLLQRTL KTTGAAGLTPQRRRSSAASFGRVFSGMRASPQSAGRPFLASRLMGGIGDLRQVEAKYPALLFKQ QLTAFLEKIYGMIRDNLKKEISPLLGLCIQAPRTSRASLIKGSRSQANALAQQTLIAHWQSIVK ILTNYLNVLKANY(-) MISPLSHSTLKSLRLRRSHKNHSTRSNRKTKIC(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0686300_circ_g.3

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