Plant Circular RNA Database

Detail information of Os09g0415800_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os09g0415800_circ_g.5
					
						ID in PlantcircBase
						osa_circ_039210
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 14873616-14875803  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							Os09g0415800						
					
						Parent gene annotation
						
							Phosphofructokinase family protein. (Os09t0415800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0415800_circ_g.1 Os09g0415800_circ_g.2 Os09g0415800_circ_g.3 Os09g0415800_circ_g.4 Os09g0415800_circ_g.6 						
					
						Support reads
						1
					
						Tissues
						seed
					
						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
						Os09t0415800-01:7

General Information
CircRNA Name	Os09g0415800_circ_g.5
ID in PlantcircBase	osa_circ_039210
Alias	NA
Organism	Oryza sativa
Position	chr9: 14873616-14875803 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	Os09g0415800
Parent gene annotation	Phosphofructokinase family protein. (Os09t0415800-01)
Parent gene strand	-
Alternative splicing	Os09g0415800_circ_g.1 Os09g0415800_circ_g.2 Os09g0415800_circ_g.3 Os09g0415800_circ_g.4 Os09g0415800_circ_g.6
Support reads	1
Tissues	seed
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	Os09t0415800-01:7

			
						 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  
						
							CCTGGTTGAATGCAACCAGTGTTGCTGGGATGTAGAAGAGTGTGTGCTTGCTTTTAAAGCAATG
TCCATCCCAGAAAAGGTCATATGTGGACCCACTAATctcctcatggatagcattagctcctgca
tggctaccgtttccaccaattacaaaaagcatatcaattcttctggcctacaagcataagttga
tcaggtta

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CTCCTCATGGATAGCATTAGCTCCTGCATGGCTACCGTTTCCACCAATTACAAAAAGCATATCA
ATTCTTCTGGCCTACAAGCATAAGTTGATCAGGTTAAACAATACCAGCTACAAAAGCAGCAAGC
CAGCAAGACTAACATCAAAGGCTTTCATTTCAGATCACTTACTTGTATACTATCGACGATCTCA
CTAGTTTTAGCTCCTCCACGAGACACACCTAGGAAACTTCCACCAGAAAGATTTATGTTTTCCA
CCACTTTACGTGAAAGCTGAAGGTTGTCATCAAATTGTAACTCCACAATTGAATCAAGCACCCT
AGAGCATCTGAGGATATGGAAAAGCATACTTACAGGCATTTCTTTTAAGCCTTTCTCAAAAAAT
CCACGATAACCAAACTGAATTCCAACAATGTTCTTAACCCCATAGATCTCCAATGTAAATACTA
TCTGAAAATATAGGAAAGCTTGGTTATTCAACAGGCAAAATGATGGCCAGAATTTACTGAATAT
CTGTCAACATTAAATAAAAGCATGTAATGAACTCCACCTGCAAAGGTCTTCGAAGCAGGGAGTT
CTGCTTCGGGATAATGAAATATCCTAAAGTATAGCTTTGAAGTTATAATGTTATATAAGGTTTA
TTCAGAAATTAGCTGCCACCAGCACCAAAGAATGTCCACAAGATTGATACATAAGCATTACAAT
AAGATCCAATAGATTATAATCTGCCTCTGCGTTTTGTGGCATCTGATTAAATATTCATTAAATA
ACTCGTACATGTTCCTTCTCAACAAATGAATGCCATGATATTTTTAGAGTTTCAACACAACAGC
GCAGTTTTGAAGACACAAGATGGCTTGAACAACCATATTACCTGTCTAATGACATCATTTAAAC
CAGGGCAGAGGCCTCCACAGGTAACAATAGCAGCTTTTACTTCTGCAGGCTCATAGTATATCTC
CTTACGAGGCCCTGCACGATGAATCCTATTGAAAGAAATTATGATTGCTCTACCCTTTGTGGCT
TTGTCCATTCTTAAGTATAAAAACGTTTGAAATATGAGAACGTAAACATTATCAAGTGTTTATT
TACTGGTCATACTCATATAAGCTAACGTTTCACCAAGCATCTTAGGGAAAACAACTTTCATAAT
AAAAAAGCGCAAATTAACTAATGTGCTGCATCAGAACATACCAATGTTCAACCCAACTGCAGTC
AGGATCTACGCACTCAGCTCCAGCAGAAGTAGGGGAGGCATACTTTATCACCTGAAGAAACAAA
ATATGTTAAGTGCAAAATTTAGCTACAAAAAGAAGATTGTTTACTTGAATATTTACAGTTCTAC
TGAAGCATCTACTGATATGTGTTTGTATTATTGGTTCTATCTATAGTAATGTTCTGCGCTATGA
AGCCTAGAAATTAACAGGAACAATTAATCCACCATGAAGCCAGCATATTGAATTCCAATATGTT
GCCTTCAAGATTATCTGGTTATGCCTGCCAAGAAGTGATCAGGTGGCCAAATGAATAGCTAAAA
GTTGGAGCAATGGTACAATGTACTGCCGCCTCCCTCCAAATAGGTCATTTATACAATAATTTGC
ACAAAGGTCTTGAGAGTGATTTTTTTACGTATGCATTTACAAATACTGAAAAATACTTTACATT
ATATGTGCTCAGCATTGACCTTCAGAAGTGCACGGTCATCCTTATTTACATAGCCATTCCACTT
ATCTGCTGATAAACTACCACCATCAGTCCTGTCATAGTAACAGATACTCTTTTTAAAATGAGGA
ACCTGTTACGGTTTCATCTCTTCAGAATAAGAACAAGTTCAAGAAGTATAGAGGTGAGCACGGA
TAAACCTGTTTTTCTTCAGAGAGAATGTAGTTAGCCTTGGCTTCAAATCATATATATCTGTAAT
ATGCGGCAAACTGAAACGCCTATTCCAGTCTTCTTGATACTTTTCCTTCCAAGAAGGATCACTG
AAATCTAAGTCTGATTTCCCAGAAACAGCTCTTACAGACAGTACCATAGGACTTCTCTTTCTTC
CATTCAAGTGAGTGGAACCCAAACCATATTGACACCGGTACCTGGTTGAATGCAACCAGTGTTG
CTGGGATGTAGAAGAGTGTGTGCTTGCTTTTAAAGCAATGTCCATCCCAGAAAAGGTCATATGT
GGACCCACTAAT
						
					

			
		

Sequences
Splice junction sequence	CCTGGTTGAATGCAACCAGTGTTGCTGGGATGTAGAAGAGTGTGTGCTTGCTTTTAAAGCAATG TCCATCCCAGAAAAGGTCATATGTGGACCCACTAATctcctcatggatagcattagctcctgca tggctaccgtttccaccaattacaaaaagcatatcaattcttctggcctacaagcataagttga tcaggtta
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CTCCTCATGGATAGCATTAGCTCCTGCATGGCTACCGTTTCCACCAATTACAAAAAGCATATCA ATTCTTCTGGCCTACAAGCATAAGTTGATCAGGTTAAACAATACCAGCTACAAAAGCAGCAAGC CAGCAAGACTAACATCAAAGGCTTTCATTTCAGATCACTTACTTGTATACTATCGACGATCTCA CTAGTTTTAGCTCCTCCACGAGACACACCTAGGAAACTTCCACCAGAAAGATTTATGTTTTCCA CCACTTTACGTGAAAGCTGAAGGTTGTCATCAAATTGTAACTCCACAATTGAATCAAGCACCCT AGAGCATCTGAGGATATGGAAAAGCATACTTACAGGCATTTCTTTTAAGCCTTTCTCAAAAAAT CCACGATAACCAAACTGAATTCCAACAATGTTCTTAACCCCATAGATCTCCAATGTAAATACTA TCTGAAAATATAGGAAAGCTTGGTTATTCAACAGGCAAAATGATGGCCAGAATTTACTGAATAT CTGTCAACATTAAATAAAAGCATGTAATGAACTCCACCTGCAAAGGTCTTCGAAGCAGGGAGTT CTGCTTCGGGATAATGAAATATCCTAAAGTATAGCTTTGAAGTTATAATGTTATATAAGGTTTA TTCAGAAATTAGCTGCCACCAGCACCAAAGAATGTCCACAAGATTGATACATAAGCATTACAAT AAGATCCAATAGATTATAATCTGCCTCTGCGTTTTGTGGCATCTGATTAAATATTCATTAAATA ACTCGTACATGTTCCTTCTCAACAAATGAATGCCATGATATTTTTAGAGTTTCAACACAACAGC GCAGTTTTGAAGACACAAGATGGCTTGAACAACCATATTACCTGTCTAATGACATCATTTAAAC CAGGGCAGAGGCCTCCACAGGTAACAATAGCAGCTTTTACTTCTGCAGGCTCATAGTATATCTC CTTACGAGGCCCTGCACGATGAATCCTATTGAAAGAAATTATGATTGCTCTACCCTTTGTGGCT TTGTCCATTCTTAAGTATAAAAACGTTTGAAATATGAGAACGTAAACATTATCAAGTGTTTATT TACTGGTCATACTCATATAAGCTAACGTTTCACCAAGCATCTTAGGGAAAACAACTTTCATAAT AAAAAAGCGCAAATTAACTAATGTGCTGCATCAGAACATACCAATGTTCAACCCAACTGCAGTC AGGATCTACGCACTCAGCTCCAGCAGAAGTAGGGGAGGCATACTTTATCACCTGAAGAAACAAA ATATGTTAAGTGCAAAATTTAGCTACAAAAAGAAGATTGTTTACTTGAATATTTACAGTTCTAC TGAAGCATCTACTGATATGTGTTTGTATTATTGGTTCTATCTATAGTAATGTTCTGCGCTATGA AGCCTAGAAATTAACAGGAACAATTAATCCACCATGAAGCCAGCATATTGAATTCCAATATGTT GCCTTCAAGATTATCTGGTTATGCCTGCCAAGAAGTGATCAGGTGGCCAAATGAATAGCTAAAA GTTGGAGCAATGGTACAATGTACTGCCGCCTCCCTCCAAATAGGTCATTTATACAATAATTTGC ACAAAGGTCTTGAGAGTGATTTTTTTACGTATGCATTTACAAATACTGAAAAATACTTTACATT ATATGTGCTCAGCATTGACCTTCAGAAGTGCACGGTCATCCTTATTTACATAGCCATTCCACTT ATCTGCTGATAAACTACCACCATCAGTCCTGTCATAGTAACAGATACTCTTTTTAAAATGAGGA ACCTGTTACGGTTTCATCTCTTCAGAATAAGAACAAGTTCAAGAAGTATAGAGGTGAGCACGGA TAAACCTGTTTTTCTTCAGAGAGAATGTAGTTAGCCTTGGCTTCAAATCATATATATCTGTAAT ATGCGGCAAACTGAAACGCCTATTCCAGTCTTCTTGATACTTTTCCTTCCAAGAAGGATCACTG AAATCTAAGTCTGATTTCCCAGAAACAGCTCTTACAGACAGTACCATAGGACTTCTCTTTCTTC CATTCAAGTGAGTGGAACCCAAACCATATTGACACCGGTACCTGGTTGAATGCAACCAGTGTTG CTGGGATGTAGAAGAGTGTGTGCTTGCTTTTAAAGCAATGTCCATCCCAGAAAAGGTCATATGT GGACCCACTAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.127612028

Conservation Information
Conserved circRNAs	NA
PMCS	0.127612028

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14875766-14873836(+)
14875789-14875596(-)
14873646-14875596(-)
						
						Potential amino acid sequence
						
							MSIPEKVICGPTNLLMDSISSCMATVSTNYKKHINSSGLYTIDDLTSFSSSTRHT*(+)
MTFSGMDIALKASTHSSTSQQHWLHSTRYRCQYGLGSTHLNGRKRSPMVLSVRAVSGKSDLDFS
DPSWKEKYQEDWNRRFSLPHITDIYDLKPRLTTFSLKKNRTDGGSLSADKWNGYVNKDDRALLK
VIKYASPTSAGAECVDPDCSWVEHWIHRAGPRKEIYYEPAEVKAAIVTCGGLCPGLNDVIRQIV
FTLEIYGVKNIVGIQFGYRGFFEKGLKEMPLSRKVVENINLSGGSFLGVSRGGAKTSEIVDSIQ
ARRIDMLFVIGGNGSHAGANAIHEEISGSTYDLFWDGHCFKSKHTLFYIPATLVAFNQVPVSIW
FGFHSLEWKKEKSYGTVCKSCFWEIRLRFQ*(-)
MQELMLSMRRLVGPHMTFSGMDIALKASTHSSTSQQHWLHSTRYRCQYGLGSTHLNGRKRSPMV
LSVRAVSGKSDLDFSDPSWKEKYQEDWNRRFSLPHITDIYDLKPRLTTFSLKKNRTDGGSLSAD
KWNGYVNKDDRALLKVIKYASPTSAGAECVDPDCSWVEHWIHRAGPRKEIYYEPAEVKAAIVTC
GGLCPGLNDVIRQIVFTLEIYGVKNIVGIQFGYRGFFEKGLKEMPLSRKVVENINLSGGSFLGV
SRGGAKTSEIVDSIQARRIDMLFVIGGNGSHAGANAIHEEISGSTYDLFWDGHCFKSKHTLFYI
PATLVAFNQVPVSIWFGFHSLEWKKEKSYGTVCKSCFWEIRLRFQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14875766-14873836(+) 14875789-14875596(-) 14873646-14875596(-)
Potential amino acid sequence	MSIPEKVICGPTNLLMDSISSCMATVSTNYKKHINSSGLYTIDDLTSFSSSTRHT(+) MTFSGMDIALKASTHSSTSQQHWLHSTRYRCQYGLGSTHLNGRKRSPMVLSVRAVSGKSDLDFS DPSWKEKYQEDWNRRFSLPHITDIYDLKPRLTTFSLKKNRTDGGSLSADKWNGYVNKDDRALLK VIKYASPTSAGAECVDPDCSWVEHWIHRAGPRKEIYYEPAEVKAAIVTCGGLCPGLNDVIRQIV FTLEIYGVKNIVGIQFGYRGFFEKGLKEMPLSRKVVENINLSGGSFLGVSRGGAKTSEIVDSIQ ARRIDMLFVIGGNGSHAGANAIHEEISGSTYDLFWDGHCFKSKHTLFYIPATLVAFNQVPVSIW FGFHSLEWKKEKSYGTVCKSCFWEIRLRFQ(-) MQELMLSMRRLVGPHMTFSGMDIALKASTHSSTSQQHWLHSTRYRCQYGLGSTHLNGRKRSPMV LSVRAVSGKSDLDFSDPSWKEKYQEDWNRRFSLPHITDIYDLKPRLTTFSLKKNRTDGGSLSAD KWNGYVNKDDRALLKVIKYASPTSAGAECVDPDCSWVEHWIHRAGPRKEIYYEPAEVKAAIVTC GGLCPGLNDVIRQIVFTLEIYGVKNIVGIQFGYRGFFEKGLKEMPLSRKVVENINLSGGSFLGV SRGGAKTSEIVDSIQARRIDMLFVIGGNGSHAGANAIHEEISGSTYDLFWDGHCFKSKHTLFYI PATLVAFNQVPVSIWFGFHSLEWKKEKSYGTVCKSCFWEIRLRFQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0415800_circ_g.5

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