Plant Circular RNA Database

Detail information of Os05g0460600_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0460600_circ_g.2
					
						ID in PlantcircBase
						osa_circ_028161
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 22626851-22627974  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0460600						
					
						Parent gene annotation
						
							Similar to GTP cyclohydrolase II/3,4-dihydroxy-2-butanone-4-phos
phate synthase- like protein (Fragment). (Os05t0460600-01);Simil
ar to riboflavin biosynthesis protein ribAB. (Os05t0460600-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0460600_circ_g.3 						
					
						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
						Os05t0460600-02:2
Os05t0460600-01:3

General Information
CircRNA Name	Os05g0460600_circ_g.2
ID in PlantcircBase	osa_circ_028161
Alias	NA
Organism	Oryza sativa
Position	chr5: 22626851-22627974 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0460600
Parent gene annotation	Similar to GTP cyclohydrolase II/3,4-dihydroxy-2-butanone-4-phos phate synthase- like protein (Fragment). (Os05t0460600-01);Simil ar to riboflavin biosynthesis protein ribAB. (Os05t0460600-02)
Parent gene strand	-
Alternative splicing	Os05g0460600_circ_g.3
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	Os05t0460600-02:2 Os05t0460600-01:3

			
						 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  
						
							TCCTGATCATGAATGCAATAGATTCTGGGTCTGCCAGCGTAGCTGCCATGACAAGATCCCCTTC
ATTATCACCGCTTTCATCATCTACAGCAATAACAAActttgcaacagcaatgtgctcggttcca
tcaagcttggattggtagcagtaagctcggaaaaggccccatttcgtcggcaaacgagatacag
caatcagt

									
								

					

						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: 678
Transcript exons: 22626851-22626980,22627311-22627636,22627753-22627974
CTTTGCAACAGCAATGTGCTCGGTTCCATCAAGCTTGGATTGGTAGCAGTAAGCTCGGAAAAGG
CCCCATTTCGTCGGCAAACGAGATACAGCAATCAGTTCCACCAGCTTCTCCCTCTTCCTTCTAT
ACCGGATGAGATCAGCGATTGAAACAATTGGGATATCATGCTCCAAAGCCATCTGTTTCAGCAC
TGGCATTCCTGCCATTGAACCATCCACTGGGTTGATGACGGTTGACAGGACAGACACAGGGCGC
AAGCCAGCCAACGCGACAAGATCGACGGATGCCTCAGTATGTCCAGCTCTTTTTAGCACACCAC
CGTTTCGGTATTTTAGAGGGAATATATGGCCTGGTCTTCTGAGGTCAGTTGGCTTAGAATCAGG
GGAGGCTAGAGTAAAAATCGTTTTTGCCCTATCTGCAGCCGAGACGCCGGTTGATATGCCCACT
CTGGCATCCACTGTTACTGTGGAAGCAGCAGCTGAAATATCCTCAATTTCTGCAATTGGAGACA
TCATAGGAATCATCAATCTTGTTAAGTCCTCTTCCTTCATGCCCACTGAGATGATCCCAGAACC
ATTCCTGATCATGAATGCAATAGATTCTGGGTCTGCCAGCGTAGCTGCCATGACAAGATCCCCT
TCATTATCACCGCTTTCATCATCTACAGCAATAACAAA
						
					

						Genomic sequence
						
							CTTTGCAACAGCAATGTGCTCGGTTCCATCAAGCTTGGATTGGTAGCAGTAAGCTCGGAAAAGG
CCCCATTTCGTCGGCAAACGAGATACAGCAATCAGTTCCACCAGCTTCTCCCTCTTCCTTCTAT
ACCTGAATCAGACCAAAAGAATGAGATGAGATTTCACAAAAGATGTTTGCATATCTGAAAAATC
CTAACATATACTGTCCTAGTTCCATGACCAATGGCATCTCATTTCTGGTTCGAGCATCTTAGCT
TCAAATTCACACGGTTATTTTCCATGATTAAAAATACCTAGTTCCTCCTAGGTAATTCCCATTT
TTCTTATTTCAGGTTCCACCTTGGAGAGTAGTTTCAGCAGTGCATTCTAAAGAAGAACAATTCT
GGCTATGAAGTTTCACCGAAAGAAAGAAGAAAACAAGCTATAAGTTCACAAAGGGTTCACCTTA
AGGTATACTAACCGGATGAGATCAGCGATTGAAACAATTGGGATATCATGCTCCAAAGCCATCT
GTTTCAGCACTGGCATTCCTGCCATTGAACCATCCACTGGGTTGATGACGGTTGACAGGACAGA
CACAGGGCGCAAGCCAGCCAACGCGACAAGATCGACGGATGCCTCAGTATGTCCAGCTCTTTTT
AGCACACCACCGTTTCGGTATTTTAGAGGGAATATATGGCCTGGTCTTCTGAGGTCAGTTGGCT
TAGAATCAGGGGAGGCTAGAGTAAAAATCGTTTTTGCCCTATCTGCAGCCGAGACGCCGGTTGA
TATGCCCACTCTGGCATCCTGGACAGATTGTAAACAGTGCTTGAGTTAGTGTCACAACTGAGGA
CCATGAATCAGTTTGGATCCTGGATGGATCATTTGGTGTCTGCAAAATCTACTAAACAACAAAT
ATTTACCACTGTTACTGTGGAAGCAGCAGCTGAAATATCCTCAATTTCTGCAATTGGAGACATC
ATAGGAATCATCAATCTTGTTAAGTCCTCTTCCTTCATGCCCACTGAGATGATCCCAGAACCAT
TCCTGATCATGAATGCAATAGATTCTGGGTCTGCCAGCGTAGCTGCCATGACAAGATCCCCTTC
ATTATCACCGCTTTCATCATCTACAGCAATAACAAA
						
					

			
		

Sequences
Splice junction sequence	TCCTGATCATGAATGCAATAGATTCTGGGTCTGCCAGCGTAGCTGCCATGACAAGATCCCCTTC ATTATCACCGCTTTCATCATCTACAGCAATAACAAActttgcaacagcaatgtgctcggttcca tcaagcttggattggtagcagtaagctcggaaaaggccccatttcgtcggcaaacgagatacag caatcagt
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: 678 Transcript exons: 22626851-22626980,22627311-22627636,22627753-22627974 CTTTGCAACAGCAATGTGCTCGGTTCCATCAAGCTTGGATTGGTAGCAGTAAGCTCGGAAAAGG CCCCATTTCGTCGGCAAACGAGATACAGCAATCAGTTCCACCAGCTTCTCCCTCTTCCTTCTAT ACCGGATGAGATCAGCGATTGAAACAATTGGGATATCATGCTCCAAAGCCATCTGTTTCAGCAC TGGCATTCCTGCCATTGAACCATCCACTGGGTTGATGACGGTTGACAGGACAGACACAGGGCGC AAGCCAGCCAACGCGACAAGATCGACGGATGCCTCAGTATGTCCAGCTCTTTTTAGCACACCAC CGTTTCGGTATTTTAGAGGGAATATATGGCCTGGTCTTCTGAGGTCAGTTGGCTTAGAATCAGG GGAGGCTAGAGTAAAAATCGTTTTTGCCCTATCTGCAGCCGAGACGCCGGTTGATATGCCCACT CTGGCATCCACTGTTACTGTGGAAGCAGCAGCTGAAATATCCTCAATTTCTGCAATTGGAGACA TCATAGGAATCATCAATCTTGTTAAGTCCTCTTCCTTCATGCCCACTGAGATGATCCCAGAACC ATTCCTGATCATGAATGCAATAGATTCTGGGTCTGCCAGCGTAGCTGCCATGACAAGATCCCCT TCATTATCACCGCTTTCATCATCTACAGCAATAACAAA
Genomic sequence	CTTTGCAACAGCAATGTGCTCGGTTCCATCAAGCTTGGATTGGTAGCAGTAAGCTCGGAAAAGG CCCCATTTCGTCGGCAAACGAGATACAGCAATCAGTTCCACCAGCTTCTCCCTCTTCCTTCTAT ACCTGAATCAGACCAAAAGAATGAGATGAGATTTCACAAAAGATGTTTGCATATCTGAAAAATC CTAACATATACTGTCCTAGTTCCATGACCAATGGCATCTCATTTCTGGTTCGAGCATCTTAGCT TCAAATTCACACGGTTATTTTCCATGATTAAAAATACCTAGTTCCTCCTAGGTAATTCCCATTT TTCTTATTTCAGGTTCCACCTTGGAGAGTAGTTTCAGCAGTGCATTCTAAAGAAGAACAATTCT GGCTATGAAGTTTCACCGAAAGAAAGAAGAAAACAAGCTATAAGTTCACAAAGGGTTCACCTTA AGGTATACTAACCGGATGAGATCAGCGATTGAAACAATTGGGATATCATGCTCCAAAGCCATCT GTTTCAGCACTGGCATTCCTGCCATTGAACCATCCACTGGGTTGATGACGGTTGACAGGACAGA CACAGGGCGCAAGCCAGCCAACGCGACAAGATCGACGGATGCCTCAGTATGTCCAGCTCTTTTT AGCACACCACCGTTTCGGTATTTTAGAGGGAATATATGGCCTGGTCTTCTGAGGTCAGTTGGCT TAGAATCAGGGGAGGCTAGAGTAAAAATCGTTTTTGCCCTATCTGCAGCCGAGACGCCGGTTGA TATGCCCACTCTGGCATCCTGGACAGATTGTAAACAGTGCTTGAGTTAGTGTCACAACTGAGGA CCATGAATCAGTTTGGATCCTGGATGGATCATTTGGTGTCTGCAAAATCTACTAAACAACAAAT ATTTACCACTGTTACTGTGGAAGCAGCAGCTGAAATATCCTCAATTTCTGCAATTGGAGACATC ATAGGAATCATCAATCTTGTTAAGTCCTCTTCCTTCATGCCCACTGAGATGATCCCAGAACCAT TCCTGATCATGAATGCAATAGATTCTGGGTCTGCCAGCGTAGCTGCCATGACAAGATCCCCTTC ATTATCACCGCTTTCATCATCTACAGCAATAACAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.286163797

Conservation Information
Conserved circRNAs	NA
PMCS	0.286163797

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22627315-22626893(+)
22627925-22626853(-)
						
						Potential amino acid sequence
						
							MRSAIETIGISCSKAICFSTGIPAIEPSTGLMTVDRTDTGRKPANATRSTDASVCPALFSTPPF
RYFRGNIWPGLLRSVGLESGEARVKIVFALSAAETPVDMPTLASTVTVEAAAEISSISAIGDII
GIINLVKSSSFMPTEMIPEPFLIMNAIDSGSASVAAMTRSPSLSPLSSSTAITNFATAMCSVPS
SLDW*(+)
MAATLADPESIAFMIRNGSGIISVGMKEEDLTRLMIPMMSPIAEIEDISAAASTVTVDARVGIS
TGVSAADRAKTIFTLASPDSKPTDLRRPGHIFPLKYRNGGVLKRAGHTEASVDLVALAGLRPVS
VLSTVINPVDGSMAGMPVLKQMALEHDIPIVSIADLIRYRRKREKLVELIAVSRLPTKWGLFRA
YCYQSKLDGTEHIAVAKFVIAVDDESGDNEGDLVMAATLADPESIAFMIRNGSGIISVGMKEED
LTRLMIPMMSPIAEIEDISAAASTVTVDARVGISTGVSAADRAKTIFTLASPDSKPTDLRRPGH
IFPLKYRNGGVLKRAGHTEASVDLVALAGLRPVSVLSTVINPVDGSMAGMPVLKQMALEHDIPI
VSIADLIRYRRKREKLVELIAVSRLPTKWGLFRAYCYQSKLDGTEHIAVAKFVIAVDDESGDNE
GDLVMAATLADPESIAFMIRNGSGIISVGMKEEDLTRLMIPMMSPIAEIEDISAAASTVTVDAR
VGISTGVSAADRAKTIFTLASPDSKPTDLRRPGHIFPLKYRNGGVLKRAGHTEASVDLVALAGL
RPVSVLSTVINPVDGSMAGMPVLKQMALEHDIPIVSIADLIRYRRKREKLVELIAVSRLPTKWG
LFRAYCYQSKLDGTEHIAVAKFVIAVDDESGDNEGDLVMAATLADPESIAFMIRNGSGIISVGM
KEEDLTRLMIPMMSPIAEIEDISAAASTVTVDARVGISTGVSAADRAKTIFTLASPDSKPTDLR
RPGHIFPLKYRNGGVLKRAGHTEASVDLVALAGLRPVSVLSTVINPVDGSMAGMPVLKQMALEH
DIPIVSIADLIRYRRKREKLVELIAVSRLPTKWGLFRAYCYQSKLDGTEHIAVAK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22627315-22626893(+) 22627925-22626853(-)
Potential amino acid sequence	MRSAIETIGISCSKAICFSTGIPAIEPSTGLMTVDRTDTGRKPANATRSTDASVCPALFSTPPF RYFRGNIWPGLLRSVGLESGEARVKIVFALSAAETPVDMPTLASTVTVEAAAEISSISAIGDII GIINLVKSSSFMPTEMIPEPFLIMNAIDSGSASVAAMTRSPSLSPLSSSTAITNFATAMCSVPS SLDW*(+) MAATLADPESIAFMIRNGSGIISVGMKEEDLTRLMIPMMSPIAEIEDISAAASTVTVDARVGIS TGVSAADRAKTIFTLASPDSKPTDLRRPGHIFPLKYRNGGVLKRAGHTEASVDLVALAGLRPVS VLSTVINPVDGSMAGMPVLKQMALEHDIPIVSIADLIRYRRKREKLVELIAVSRLPTKWGLFRA YCYQSKLDGTEHIAVAKFVIAVDDESGDNEGDLVMAATLADPESIAFMIRNGSGIISVGMKEED LTRLMIPMMSPIAEIEDISAAASTVTVDARVGISTGVSAADRAKTIFTLASPDSKPTDLRRPGH IFPLKYRNGGVLKRAGHTEASVDLVALAGLRPVSVLSTVINPVDGSMAGMPVLKQMALEHDIPI VSIADLIRYRRKREKLVELIAVSRLPTKWGLFRAYCYQSKLDGTEHIAVAKFVIAVDDESGDNE GDLVMAATLADPESIAFMIRNGSGIISVGMKEEDLTRLMIPMMSPIAEIEDISAAASTVTVDAR VGISTGVSAADRAKTIFTLASPDSKPTDLRRPGHIFPLKYRNGGVLKRAGHTEASVDLVALAGL RPVSVLSTVINPVDGSMAGMPVLKQMALEHDIPIVSIADLIRYRRKREKLVELIAVSRLPTKWG LFRAYCYQSKLDGTEHIAVAKFVIAVDDESGDNEGDLVMAATLADPESIAFMIRNGSGIISVGM KEEDLTRLMIPMMSPIAEIEDISAAASTVTVDARVGISTGVSAADRAKTIFTLASPDSKPTDLR RPGHIFPLKYRNGGVLKRAGHTEASVDLVALAGLRPVSVLSTVINPVDGSMAGMPVLKQMALEH DIPIVSIADLIRYRRKREKLVELIAVSRLPTKWGLFRAYCYQSKLDGTEHIAVAK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0460600_circ_g.2

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