Plant Circular RNA Database

Detail information of Os05g0405000_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os05g0405000_circ_g.5
					
						ID in PlantcircBase
						osa_circ_027837
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 19720960-19723081  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0405000						
					
						Parent gene annotation
						
							Orthophosphate dikinase precursor (EC 2.7.9.1). (Os05t0405000-01
);Similar to Isoform 2 of Pyruvate, phosphate dikinase 1, chloro
plastic. (Os05t0405000-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0405000_circ_g.6 Os05g0405000_circ_g.7 Os05g0405000_circ_g.8 Os05g0405000_circ_g.9 Os05g0405000_circ_g.10 Os05g0405000_circ_g.11 Os05g0405000_circ_g.12 Os05g0405000_circ_g.13 Os05g0405000_circ_g.14 Os05g0405000_circ_g.15 Os05g0405000_circ_g.16 						
					
						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
						Os05t0405000-01:6
Os05t0405000-02:6

General Information
CircRNA Name	Os05g0405000_circ_g.5
ID in PlantcircBase	osa_circ_027837
Alias	NA
Organism	Oryza sativa
Position	chr5: 19720960-19723081 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0405000
Parent gene annotation	Orthophosphate dikinase precursor (EC 2.7.9.1). (Os05t0405000-01 );Similar to Isoform 2 of Pyruvate, phosphate dikinase 1, chloro plastic. (Os05t0405000-02)
Parent gene strand	-
Alternative splicing	Os05g0405000_circ_g.6 Os05g0405000_circ_g.7 Os05g0405000_circ_g.8 Os05g0405000_circ_g.9 Os05g0405000_circ_g.10 Os05g0405000_circ_g.11 Os05g0405000_circ_g.12 Os05g0405000_circ_g.13 Os05g0405000_circ_g.14 Os05g0405000_circ_g.15 Os05g0405000_circ_g.16
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	Os05t0405000-01:6 Os05t0405000-02:6

			
						 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  
						
							CCATGTCTACAGCAATCTTTACAGCACCTTTTCCTGTGCGCTTTCCTGTTCTGCACTGAAGCAT
CCAAAGCCTATTTTCCTGAACAGTAAATTCAATATCcatccattgcacggaagatgccttcaaa
gtcagacctctgataaggcaaaaggcgatctagtgctttctgcctcagttcaagacttgaagcc
ataatcat

									
								

					

						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: 874
Transcript exons: 19720960-19721098,19721276-19721365,19721505-19721666,19
721801-19721965,19722154-19722291,19722902-19723081
CATCCATTGCACGGAAGATGCCTTCAAAGTCAGACCTCTGATAAGGCAAAAGGCGATCTAGTGC
TTTCTGCCTCAGTTCAAGACTTGAAGCCATAATCATCTGCCTGACAGCCTTAATCCTCTCGTCT
GAAGCGAAGAACATATGTTCAGTCCGGCATAGCCCAATTCCTTCTGCCCCATTCTGTCTGGCTG
TTGTTGCATCCTCGGGGGTATCAGCATTTGCCATAACCTTGAGTTTCCTAACTTCATCCACCCA
AGACATGAAAGTTTCCAAATCACCACTAAGGGCTGGTGGGCAGAGTGGCTGCTTGCCAATGATC
ACTTCACCAGTTGATCCATTCAACGATAGCCACTCACCTTCATGCAGCGCCTTGTCTTCAATCA
CTACAATCTTGGACGCATCATTTACACGGACGCTTGAGCATCCTGACACACAACATTTGCCCCA
TCCGCGCGCAACAACAGCAGCGTGAGAGGTCATACCACCTCTTGCTGTAAGAATTCCAACAGCT
GCATGCATGCCACCAACATCCTCTGGGCTGGTCTCTGTCCTCACCAGAATAACATCTTTCCCTT
GGGCATGCCATGCTTCAGCATCCTCGGCAGTGAATACAATTTGGCCCACAGCAGCCCCAGGTGA
TGCAGGTAAGCCCGTGGCAATAACTTTGTCTTTATACCCTGATGGGTTCTCAAACTGAGGATGA
AGAAGCTGATCCAGGTGACCTGGTTCTACCATCTTAAGTGCTGTGCGGCGCTCAACAAGGCCCT
CGTTAACCATGTCTACAGCAATCTTTACAGCACCTTTTCCTGTGCGCTTTCCTGTTCTGCACTG
AAGCATCCAAAGCCTATTTTCCTGAACAGTAAATTCAATATC
						
					

						Genomic sequence
						
							CATCCATTGCACGGAAGATGCCTTCAAAGTCAGACCTCTGATAAGGCAAAAGGCGATCTAGTGC
TTTCTGCCTCAGTTCAAGACTTGAAGCCATAATCATCTGCCTGACAGCCTTAATCCTCTCGTCT
GAAGCGAAGAACTATGAAGAGAAGAAAAAGAGAAGAGGGCATGAAATTATCTGCATTGACTAGA
AGAGAAGAGTTGCATCCATGAATCTAGCTTCTAAATGTTAAACTCAACTAAAAAGTTCAGGCAC
ATATCATCCTAGCAAAAAAGAGAAAAAAAAAGAGCATTAACAAACAAAGTTAATACACACCATA
TGTTCAGTCCGGCATAGCCCAATTCCTTCTGCCCCATTCTGTCTGGCTGTTGTTGCATCCTCGG
GGGTATCAGCATTTGCCATAACCTAGAACATGGAACATACTCACAATAAGCATTTTTTATTGAT
GCTGGTGCAACAGAACTAGGTAGCCTTGACCTTAGTGAGTAAATAAAACTAATGTCCCTTTTTC
AGCTGACTTCAACTTGAAACATATTTTGCTTACCTTGAGTTTCCTAACTTCATCCACCCAAGAC
ATGAAAGTTTCCAAATCACCACTAAGGGCTGGTGGGCAGAGTGGCTGCTTGCCAATGATCACTT
CACCAGTTGATCCATTCAACGATAGCCACTCACCTTCATGCAGCGCCTTGTCTTCAATCACTAC
AATCTGTAGAGACACAGCAAATTAAGCAACTATCTGCAGTATAAAATGGTAATTGCAAACTCGA
TGTGTGAAAGGCAGCCTTTGTACATAAGAGAACTCTTAAATGTTTGTGTGGTGCAAGAATCTAG
TATAATCACCTTGGACGCATCATTTACACGGACGCTTGAGCATCCTGACACACAACATTTGCCC
CATCCGCGCGCAACAACAGCAGCGTGAGAGGTCATACCACCTCTTGCTGTAAGAATTCCAACAG
CTGCATGCATGCCACCAACATCCTCTGGGCTGGTCTCTGTCCTCACCTTTACATTCATAATGGA
CAGGAAAATGTCAAGATACACCAAATGCAACGATGCAATGTGGAGTTTTCAAGTGCAGCTTGAA
TAAAGCTGTGATAAATCTATTTTTTTTCCTATAAGCAGCTGTTTAATATTCTAACATGGACGAA
ACAAACAAATTTGTCCTAGAAAGACAGATGATCAGGACGTACCAGAATAACATCTTTCCCTTGG
GCATGCCATGCTTCAGCATCCTCGGCAGTGAATACAATTTGGCCCACAGCAGCCCCAGGTGATG
CAGGTAAGCCCGTGGCAATAACTTTGTCTTTATACCCTGATGGGTTCTCAAACTGGTTTTCATA
ACAAAAGATTAAAAGTGAGATATCAATAACTGCCATTAATTTAGTTGTGAACTGAAACTCAAGT
ACGCAATGTCCAAGACCTGTGCAGAAACTAGCAGGCAACAAAATTTTAAAACAACAGTTACCAA
CATCAATACTTGTGTGATTATGTTTGATATTTGTTAGTTATGATAATAGTATTATACTTTACTA
CACAAGACGTAATGAGATAATCTCTGTTGTTTGCTAAAACTCATTCCAAATAATTCAAAATGCT
CAGAGTTCAAGTAACAAACACTCTACCTATTTTGTGGAAAAATATAACATAAAGATTTTGATGT
TCAGAATTAAAGCAGACATGCGTATCAAATTTCACTAATAGATCGCAAACACACATTTAATCTT
TGATTATTCTAGCTTACTATTAAGTATTAACTGATTTATTCTAAGCACGCAATCGATGTGGTAA
CTTCTATGACATCAATACACCAACCCAACAAAATTGTTCTAAAAGAGCAACACGGCATTTTGGG
ATAACAGAGGTATTATGAAATTGTACGTGTCCATTTATGTGGTGCATGAGTTTATAGACCATTA
GAGCCTCTTAGTTATACAATACCTGAGGATGAAGAAGCTGATCCAGGTGACCTGGTTCTACCAT
CTTAAGTGCTGTGCGGCGCTCAACAAGGCCCTCGTTAACCATGTCTACAGCAATCTTTACAGCA
CCTTTTCCTGTGCGCTTTCCTGTTCTGCACTGAAGCATCCAAAGCCTATTTTCCTGAACAGTAA
ATTCAATATC
						
					

			
		

Sequences
Splice junction sequence	CCATGTCTACAGCAATCTTTACAGCACCTTTTCCTGTGCGCTTTCCTGTTCTGCACTGAAGCAT CCAAAGCCTATTTTCCTGAACAGTAAATTCAATATCcatccattgcacggaagatgccttcaaa gtcagacctctgataaggcaaaaggcgatctagtgctttctgcctcagttcaagacttgaagcc ataatcat
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: 874 Transcript exons: 19720960-19721098,19721276-19721365,19721505-19721666,19 721801-19721965,19722154-19722291,19722902-19723081 CATCCATTGCACGGAAGATGCCTTCAAAGTCAGACCTCTGATAAGGCAAAAGGCGATCTAGTGC TTTCTGCCTCAGTTCAAGACTTGAAGCCATAATCATCTGCCTGACAGCCTTAATCCTCTCGTCT GAAGCGAAGAACATATGTTCAGTCCGGCATAGCCCAATTCCTTCTGCCCCATTCTGTCTGGCTG TTGTTGCATCCTCGGGGGTATCAGCATTTGCCATAACCTTGAGTTTCCTAACTTCATCCACCCA AGACATGAAAGTTTCCAAATCACCACTAAGGGCTGGTGGGCAGAGTGGCTGCTTGCCAATGATC ACTTCACCAGTTGATCCATTCAACGATAGCCACTCACCTTCATGCAGCGCCTTGTCTTCAATCA CTACAATCTTGGACGCATCATTTACACGGACGCTTGAGCATCCTGACACACAACATTTGCCCCA TCCGCGCGCAACAACAGCAGCGTGAGAGGTCATACCACCTCTTGCTGTAAGAATTCCAACAGCT GCATGCATGCCACCAACATCCTCTGGGCTGGTCTCTGTCCTCACCAGAATAACATCTTTCCCTT GGGCATGCCATGCTTCAGCATCCTCGGCAGTGAATACAATTTGGCCCACAGCAGCCCCAGGTGA TGCAGGTAAGCCCGTGGCAATAACTTTGTCTTTATACCCTGATGGGTTCTCAAACTGAGGATGA AGAAGCTGATCCAGGTGACCTGGTTCTACCATCTTAAGTGCTGTGCGGCGCTCAACAAGGCCCT CGTTAACCATGTCTACAGCAATCTTTACAGCACCTTTTCCTGTGCGCTTTCCTGTTCTGCACTG AAGCATCCAAAGCCTATTTTCCTGAACAGTAAATTCAATATC
Genomic sequence	CATCCATTGCACGGAAGATGCCTTCAAAGTCAGACCTCTGATAAGGCAAAAGGCGATCTAGTGC TTTCTGCCTCAGTTCAAGACTTGAAGCCATAATCATCTGCCTGACAGCCTTAATCCTCTCGTCT GAAGCGAAGAACTATGAAGAGAAGAAAAAGAGAAGAGGGCATGAAATTATCTGCATTGACTAGA AGAGAAGAGTTGCATCCATGAATCTAGCTTCTAAATGTTAAACTCAACTAAAAAGTTCAGGCAC ATATCATCCTAGCAAAAAAGAGAAAAAAAAAGAGCATTAACAAACAAAGTTAATACACACCATA TGTTCAGTCCGGCATAGCCCAATTCCTTCTGCCCCATTCTGTCTGGCTGTTGTTGCATCCTCGG GGGTATCAGCATTTGCCATAACCTAGAACATGGAACATACTCACAATAAGCATTTTTTATTGAT GCTGGTGCAACAGAACTAGGTAGCCTTGACCTTAGTGAGTAAATAAAACTAATGTCCCTTTTTC AGCTGACTTCAACTTGAAACATATTTTGCTTACCTTGAGTTTCCTAACTTCATCCACCCAAGAC ATGAAAGTTTCCAAATCACCACTAAGGGCTGGTGGGCAGAGTGGCTGCTTGCCAATGATCACTT CACCAGTTGATCCATTCAACGATAGCCACTCACCTTCATGCAGCGCCTTGTCTTCAATCACTAC AATCTGTAGAGACACAGCAAATTAAGCAACTATCTGCAGTATAAAATGGTAATTGCAAACTCGA TGTGTGAAAGGCAGCCTTTGTACATAAGAGAACTCTTAAATGTTTGTGTGGTGCAAGAATCTAG TATAATCACCTTGGACGCATCATTTACACGGACGCTTGAGCATCCTGACACACAACATTTGCCC CATCCGCGCGCAACAACAGCAGCGTGAGAGGTCATACCACCTCTTGCTGTAAGAATTCCAACAG CTGCATGCATGCCACCAACATCCTCTGGGCTGGTCTCTGTCCTCACCTTTACATTCATAATGGA CAGGAAAATGTCAAGATACACCAAATGCAACGATGCAATGTGGAGTTTTCAAGTGCAGCTTGAA TAAAGCTGTGATAAATCTATTTTTTTTCCTATAAGCAGCTGTTTAATATTCTAACATGGACGAA ACAAACAAATTTGTCCTAGAAAGACAGATGATCAGGACGTACCAGAATAACATCTTTCCCTTGG GCATGCCATGCTTCAGCATCCTCGGCAGTGAATACAATTTGGCCCACAGCAGCCCCAGGTGATG CAGGTAAGCCCGTGGCAATAACTTTGTCTTTATACCCTGATGGGTTCTCAAACTGGTTTTCATA ACAAAAGATTAAAAGTGAGATATCAATAACTGCCATTAATTTAGTTGTGAACTGAAACTCAAGT ACGCAATGTCCAAGACCTGTGCAGAAACTAGCAGGCAACAAAATTTTAAAACAACAGTTACCAA CATCAATACTTGTGTGATTATGTTTGATATTTGTTAGTTATGATAATAGTATTATACTTTACTA CACAAGACGTAATGAGATAATCTCTGTTGTTTGCTAAAACTCATTCCAAATAATTCAAAATGCT CAGAGTTCAAGTAACAAACACTCTACCTATTTTGTGGAAAAATATAACATAAAGATTTTGATGT TCAGAATTAAAGCAGACATGCGTATCAAATTTCACTAATAGATCGCAAACACACATTTAATCTT TGATTATTCTAGCTTACTATTAAGTATTAACTGATTTATTCTAAGCACGCAATCGATGTGGTAA CTTCTATGACATCAATACACCAACCCAACAAAATTGTTCTAAAAGAGCAACACGGCATTTTGGG ATAACAGAGGTATTATGAAATTGTACGTGTCCATTTATGTGGTGCATGAGTTTATAGACCATTA GAGCCTCTTAGTTATACAATACCTGAGGATGAAGAAGCTGATCCAGGTGACCTGGTTCTACCAT CTTAAGTGCTGTGCGGCGCTCAACAAGGCCCTCGTTAACCATGTCTACAGCAATCTTTACAGCA CCTTTTCCTGTGCGCTTTCCTGTTCTGCACTGAAGCATCCAAAGCCTATTTTCCTGAACAGTAA ATTCAATATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.233205891

Conservation Information
Conserved circRNAs	NA
PMCS	0.233205891

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19722909-19721052(+)
19723047-19723076(-)
19720964-19723076(-)
						
						Potential amino acid sequence
						
							MKKLIQVTWFYHLKCCAALNKALVNHVYSNLYSTFSCALSCSALKHPKPIFLNSKFNIHPLHGR
CLQSQTSDKAKGDLVLSASVQDLKP*(+)
MLQCRTGKRTGKGAVKIAVDMVNEGLVERRTALKMVEPGHLDQLLHPQFENPSGYKDKVIATGL
PASPGAAVGQIVFTAEDAEAWHAQGKDVILVRTETSPEDVGGMHAAVGILTARGGMTSHAAVVA
RGWGKCCVSGCSSVRVNDASKIVVIEDKALHEGEWLSLNGSTGEVIIGKQPLCPPALSGDLETF
MSWVDEVRKLKVMANADTPEDATTARQNGAEGIGLCRTEHMFFASDERIKAVRQMIMASSLELR
QKALDRLLPYQRSDFEGIFRAMDGY*(-)
MDIEFTVQENRLWMLQCRTGKRTGKGAVKIAVDMVNEGLVERRTALKMVEPGHLDQLLHPQFEN
PSGYKDKVIATGLPASPGAAVGQIVFTAEDAEAWHAQGKDVILVRTETSPEDVGGMHAAVGILT
ARGGMTSHAAVVARGWGKCCVSGCSSVRVNDASKIVVIEDKALHEGEWLSLNGSTGEVIIGKQP
LCPPALSGDLETFMSWVDEVRKLKVMANADTPEDATTARQNGAEGIGLCRTEHMFFASDERIKA
VRQMIMASSLELRQKALDRLLPYQRSDFEGIFRAMDGY*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19722909-19721052(+) 19723047-19723076(-) 19720964-19723076(-)
Potential amino acid sequence	MKKLIQVTWFYHLKCCAALNKALVNHVYSNLYSTFSCALSCSALKHPKPIFLNSKFNIHPLHGR CLQSQTSDKAKGDLVLSASVQDLKP(+) MLQCRTGKRTGKGAVKIAVDMVNEGLVERRTALKMVEPGHLDQLLHPQFENPSGYKDKVIATGL PASPGAAVGQIVFTAEDAEAWHAQGKDVILVRTETSPEDVGGMHAAVGILTARGGMTSHAAVVA RGWGKCCVSGCSSVRVNDASKIVVIEDKALHEGEWLSLNGSTGEVIIGKQPLCPPALSGDLETF MSWVDEVRKLKVMANADTPEDATTARQNGAEGIGLCRTEHMFFASDERIKAVRQMIMASSLELR QKALDRLLPYQRSDFEGIFRAMDGY(-) MDIEFTVQENRLWMLQCRTGKRTGKGAVKIAVDMVNEGLVERRTALKMVEPGHLDQLLHPQFEN PSGYKDKVIATGLPASPGAAVGQIVFTAEDAEAWHAQGKDVILVRTETSPEDVGGMHAAVGILT ARGGMTSHAAVVARGWGKCCVSGCSSVRVNDASKIVVIEDKALHEGEWLSLNGSTGEVIIGKQP LCPPALSGDLETFMSWVDEVRKLKVMANADTPEDATTARQNGAEGIGLCRTEHMFFASDERIKA VRQMIMASSLELRQKALDRLLPYQRSDFEGIFRAMDGY*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0405000_circ_g.5

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