Plant Circular RNA Database

Detail information of Os02g0744700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0744700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_016536
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 31235174-31237240  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0744700						
					
						Parent gene annotation
						
							Similar to Starch synthase isoform zSTSII-2 (EC 2.4.1.21). (Os02
t0744700-01);Similar to Soluble starch synthase 2-2, chloroplast
ic/amyloplastic. (Os02t0744700-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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
						Os02t0744700-02:3
Os02t0744700-01:6

General Information
CircRNA Name	Os02g0744700_circ_g.1
ID in PlantcircBase	osa_circ_016536
Alias	NA
Organism	Oryza sativa
Position	chr2: 31235174-31237240 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0744700
Parent gene annotation	Similar to Starch synthase isoform zSTSII-2 (EC 2.4.1.21). (Os02 t0744700-01);Similar to Soluble starch synthase 2-2, chloroplast ic/amyloplastic. (Os02t0744700-02)
Parent gene strand	-
Alternative splicing	NA
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	Os02t0744700-02:3 Os02t0744700-01:6

			
						 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  
						
							CATCAGATTTGGTAGCTCTGCTCACAACCTCTCCATTTTGCTTCGCAACGGCAGGTTTCACGTA
TTTGGGTGATGAAACTGAATCCTCAACATGATCAGCctgatgagcaatgttgtgtatcacaaga
acagagcgagtatactgcatcaagccattatctcggtaatatgccttcaaatatacgggtaaaa
gtgcagta

									
								

					

						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: 849
Transcript exons: 31235174-31235347,31235827-31235871,31235970-31236080,31
236176-31236253,31236677-31236741,31236865-31237240
CTGATGAGCAATGTTGTGTATCACAAGAACAGAGCGAGTATACTGCATCAAGCCATTATCTCGG
TAATATGCCTTCAAATATACGGGTAAAAGTGCAGTATGCCAATCATTTGCAATGAAGACTAAAT
TGCCATCACCGTAGATGGAACCACCACATGGAGCAAACCAAGGAACCTCAACAGCAGCTTTGCA
GAACAAAATCATACGCTTCAAAACATCAAATCTTTCTCCTCCATAAATATCATTGTGCCGGTGT
CGAAAGGGAGGGGCCTCTAGAAACACAAAATCAACACCATCGATAAAAGCATGAAAATAACTCA
CTTCTGAATCCTGTCCAGCTACCCTGTAACGTTTGCGGACACCTAGATCCTTGGCTTCTGCATA
TTCTCCGTATCTTGGTATCACAACCATAACACGATGTCCTCTTCTTGCCAGAGCCTTAGGCAAA
GCACCCACAACATCTCCAAGACCACCTGTTTTACAGAAAGGAGAACATTCAGAAGCCACCACAA
TGACATTCATCACATTTGGCCCTGCCAATGGACCAGATTCCTTGTTCTCACTATCATCTGCAGA
GCTTACTGCACCTGCATCTCCACCAGCATCAGCCTTAGCTTCCAACGGTTCAGCAACACCGACG
TCTTCCTTCTTGTCCAGTGCAGCCTTCGATTCCACAGCTTGTGCATTACCATCAGCTTCAGCCT
TGGAAGCAGGAACTGACGGGTCAACTTTGGGTTTAGACACTGGTGCATCAGATTTGGTAGCTCT
GCTCACAACCTCTCCATTTTGCTTCGCAACGGCAGGTTTCACGTATTTGGGTGATGAAACTGAA
TCCTCAACATGATCAGC
						
					

						Genomic sequence
						
							CTGATGAGCAATGTTGTGTATCACAAGAACAGAGCGAGTATACTGCATCAAGCCATTATCTCGG
TAATATGCCTTCAAATATACGGGTAAAAGTGCAGTATGCCAATCATTTGCAATGAAGACTAAAT
TGCCATCACCGTAGATGGAACCACCACATGGAGCAAACCAAGGAACCTGCAAATGTTTCATCAG
ATGAATGAATTGTACTTATTCGAGAACATAACATCAGGCTCATTCACCTCATAAACTAAAACAA
ACATGAAAATCTTATCATTAATTGTTCTTGTGTTTTCTACAAAGTAGTCAATGGCACACAAACA
GCTTGCTGCAAGACACTCAGATATATATCGACTGACTAGATGGTGTACTAAATTCTAATTGTCA
AACATCAAAATTTTAGTATTAACTGTTTGCTACGAAGTAGTGAAAGGTGCATAAACAGCTTGCT
GCAAGAAACTTGGATATGCATCGACTGACCAGCTGGTGTACGAAATTCTAATTGTGGACTGTAG
TAAGAAATTATTGTGTTTAGTCCCACTGGAAATTGATGGTGGTGAGACCTGGGTGGCCCACTCG
TGGTGGAGTGAGCTGCGAATCTAACAGAACTGTAAGGAGTACATTTATAGACTAGTAGCAATAA
AATGGGAAGTTACCTCAACAGCAGCTTTGCAGAACAAAATCATACGCTTCAAAACATCCTGCCA
TCAAATGATAAAATTGTGCAAAAAATATTTACAGAAGATTTAAAAGGAACTTATTTGTAAGTCA
ATTAAGCTATAGAAAAATTGGGACTTACAAATCTTTCTCCTCCATAAATATCATTGTGCCGGTG
TCGAAAGGGAGGGGCCTCTAGAAACACAAAATCAACACCATCGATAAAAGCATGAAAATAACTC
ACTTCTGAATCCTGAAAACCACACACACAGAAAAAAAAAGATTCTATCATGAACCTTTAAACTT
TTCATTTCACATTGCACAATAACTGTTTCAATGTTTTCTTACCTGTCCAGCTACCCTGTAACGT
TTGCGGACACCTAGATCCTTGGCTTCTGCATATTCTCCGTATCTTGGTATCACAACCTAAAATT
GAAATAGCCACTTATATTTGGATCACTTAAAACTAAGCCACTGAACTCAATCGGTGCATATCCT
ACTACATTTCAATTTAAGATGCTATCTTAAGAATTGTCATCCATCTCAAGCATGCTAAATCATA
CAGCTCAAAAATTGTTATCTAACAAGAATACAAGATAGATTTCCACACTTCTCTCCTAAATATG
TGAAACAACATTTAATAGCTGACAGAGACAACAGGGTAACAATTTGAGGATTGTTTTCCATGAT
GCACGCAAATCAAAAGAATGAGACTTAAGAGTTTCAGATATAACAATCAAAATACCACCTCTTA
GTCTCTTACGTTGTGGATTGCACATATACTAGTACTACAGATTGTTAATCTCTTCCGAGACAAT
CAAACAAAGACAAATGTGAAGGAGTACGTACCATAACACGATGTCCTCTTCTTGCCAGAGCCTT
AGGCAAAGCACCCACAACATCTCCAAGACCACCTTCACATGATAGCAGTTATTAGAAGGAACAT
TGCCTAAGCTTAAAAGTAAAAGCCTGATTGGTCATGCTCAAAAAGGGGAAATGATGGGGTCAGG
CCCAATTTCCAGTTTAGATATGCATACCTGTTTTACAGAAAGGAGAACATTCAGAAGCCACCAC
AATGACATTCATCACATTTGGCCCTGCCAATGGACCAGATTCCTTGTTCTCACTATCATCTGCA
GAGCTTACTGCACCTGCATCTCCACCAGCATCAGCCTTAGCTTCCAACGGTTCAGCAACACCGA
CGTCTTCCTTCTTGTCCAGTGCAGCCTTCGATTCCACAGCTTGTGCATTACCATCAGCTTCAGC
CTTGGAAGCAGGAACTGACGGGTCAACTTTGGGTTTAGACACTGGTGCATCAGATTTGGTAGCT
CTGCTCACAACCTCTCCATTTTGCTTCGCAACGGCAGGTTTCACGTATTTGGGTGATGAAACTG
AATCCTCAACATGATCAGC
						
					

			
		

Sequences
Splice junction sequence	CATCAGATTTGGTAGCTCTGCTCACAACCTCTCCATTTTGCTTCGCAACGGCAGGTTTCACGTA TTTGGGTGATGAAACTGAATCCTCAACATGATCAGCctgatgagcaatgttgtgtatcacaaga acagagcgagtatactgcatcaagccattatctcggtaatatgccttcaaatatacgggtaaaa gtgcagta
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: 849 Transcript exons: 31235174-31235347,31235827-31235871,31235970-31236080,31 236176-31236253,31236677-31236741,31236865-31237240 CTGATGAGCAATGTTGTGTATCACAAGAACAGAGCGAGTATACTGCATCAAGCCATTATCTCGG TAATATGCCTTCAAATATACGGGTAAAAGTGCAGTATGCCAATCATTTGCAATGAAGACTAAAT TGCCATCACCGTAGATGGAACCACCACATGGAGCAAACCAAGGAACCTCAACAGCAGCTTTGCA GAACAAAATCATACGCTTCAAAACATCAAATCTTTCTCCTCCATAAATATCATTGTGCCGGTGT CGAAAGGGAGGGGCCTCTAGAAACACAAAATCAACACCATCGATAAAAGCATGAAAATAACTCA CTTCTGAATCCTGTCCAGCTACCCTGTAACGTTTGCGGACACCTAGATCCTTGGCTTCTGCATA TTCTCCGTATCTTGGTATCACAACCATAACACGATGTCCTCTTCTTGCCAGAGCCTTAGGCAAA GCACCCACAACATCTCCAAGACCACCTGTTTTACAGAAAGGAGAACATTCAGAAGCCACCACAA TGACATTCATCACATTTGGCCCTGCCAATGGACCAGATTCCTTGTTCTCACTATCATCTGCAGA GCTTACTGCACCTGCATCTCCACCAGCATCAGCCTTAGCTTCCAACGGTTCAGCAACACCGACG TCTTCCTTCTTGTCCAGTGCAGCCTTCGATTCCACAGCTTGTGCATTACCATCAGCTTCAGCCT TGGAAGCAGGAACTGACGGGTCAACTTTGGGTTTAGACACTGGTGCATCAGATTTGGTAGCTCT GCTCACAACCTCTCCATTTTGCTTCGCAACGGCAGGTTTCACGTATTTGGGTGATGAAACTGAA TCCTCAACATGATCAGC
Genomic sequence	CTGATGAGCAATGTTGTGTATCACAAGAACAGAGCGAGTATACTGCATCAAGCCATTATCTCGG TAATATGCCTTCAAATATACGGGTAAAAGTGCAGTATGCCAATCATTTGCAATGAAGACTAAAT TGCCATCACCGTAGATGGAACCACCACATGGAGCAAACCAAGGAACCTGCAAATGTTTCATCAG ATGAATGAATTGTACTTATTCGAGAACATAACATCAGGCTCATTCACCTCATAAACTAAAACAA ACATGAAAATCTTATCATTAATTGTTCTTGTGTTTTCTACAAAGTAGTCAATGGCACACAAACA GCTTGCTGCAAGACACTCAGATATATATCGACTGACTAGATGGTGTACTAAATTCTAATTGTCA AACATCAAAATTTTAGTATTAACTGTTTGCTACGAAGTAGTGAAAGGTGCATAAACAGCTTGCT GCAAGAAACTTGGATATGCATCGACTGACCAGCTGGTGTACGAAATTCTAATTGTGGACTGTAG TAAGAAATTATTGTGTTTAGTCCCACTGGAAATTGATGGTGGTGAGACCTGGGTGGCCCACTCG TGGTGGAGTGAGCTGCGAATCTAACAGAACTGTAAGGAGTACATTTATAGACTAGTAGCAATAA AATGGGAAGTTACCTCAACAGCAGCTTTGCAGAACAAAATCATACGCTTCAAAACATCCTGCCA TCAAATGATAAAATTGTGCAAAAAATATTTACAGAAGATTTAAAAGGAACTTATTTGTAAGTCA ATTAAGCTATAGAAAAATTGGGACTTACAAATCTTTCTCCTCCATAAATATCATTGTGCCGGTG TCGAAAGGGAGGGGCCTCTAGAAACACAAAATCAACACCATCGATAAAAGCATGAAAATAACTC ACTTCTGAATCCTGAAAACCACACACACAGAAAAAAAAAGATTCTATCATGAACCTTTAAACTT TTCATTTCACATTGCACAATAACTGTTTCAATGTTTTCTTACCTGTCCAGCTACCCTGTAACGT TTGCGGACACCTAGATCCTTGGCTTCTGCATATTCTCCGTATCTTGGTATCACAACCTAAAATT GAAATAGCCACTTATATTTGGATCACTTAAAACTAAGCCACTGAACTCAATCGGTGCATATCCT ACTACATTTCAATTTAAGATGCTATCTTAAGAATTGTCATCCATCTCAAGCATGCTAAATCATA CAGCTCAAAAATTGTTATCTAACAAGAATACAAGATAGATTTCCACACTTCTCTCCTAAATATG TGAAACAACATTTAATAGCTGACAGAGACAACAGGGTAACAATTTGAGGATTGTTTTCCATGAT GCACGCAAATCAAAAGAATGAGACTTAAGAGTTTCAGATATAACAATCAAAATACCACCTCTTA GTCTCTTACGTTGTGGATTGCACATATACTAGTACTACAGATTGTTAATCTCTTCCGAGACAAT CAAACAAAGACAAATGTGAAGGAGTACGTACCATAACACGATGTCCTCTTCTTGCCAGAGCCTT AGGCAAAGCACCCACAACATCTCCAAGACCACCTTCACATGATAGCAGTTATTAGAAGGAACAT TGCCTAAGCTTAAAAGTAAAAGCCTGATTGGTCATGCTCAAAAAGGGGAAATGATGGGGTCAGG CCCAATTTCCAGTTTAGATATGCATACCTGTTTTACAGAAAGGAGAACATTCAGAAGCCACCAC AATGACATTCATCACATTTGGCCCTGCCAATGGACCAGATTCCTTGTTCTCACTATCATCTGCA GAGCTTACTGCACCTGCATCTCCACCAGCATCAGCCTTAGCTTCCAACGGTTCAGCAACACCGA CGTCTTCCTTCTTGTCCAGTGCAGCCTTCGATTCCACAGCTTGTGCATTACCATCAGCTTCAGC CTTGGAAGCAGGAACTGACGGGTCAACTTTGGGTTTAGACACTGGTGCATCAGATTTGGTAGCT CTGCTCACAACCTCTCCATTTTGCTTCGCAACGGCAGGTTTCACGTATTTGGGTGATGAAACTG AATCCTCAACATGATCAGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.23076253

Conservation Information
Conserved circRNAs	NA
PMCS	0.23076253

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							31237233-31235260(+)
31237214-31235289(+)
31236915-31235176(-)
						
						Potential amino acid sequence
						
							MISLMSNVVYHKNRASILHQAIISVICLQIYG*(+)
MKLNPQHDQPDEQCCVSQEQSEYTASSHYLGNMPSNIRVKVQYANHLQ*(+)
MNVIVVASECSPFCKTGGLGDVVGALPKALARRGHRVMVVIPRYGEYAEAKDLGVRKRYRVAGQ
DSEVSYFHAFIDGVDFVFLEAPPFRHRHNDIYGGERFDVLKRMILFCKAAVEVPWFAPCGGSIY
GDGNLVFIANDWHTALLPVYLKAYYRDNGLMQYTRSVLVIHNIAHQADHVEDSVSSPKYVKPAV
AKQNGEVVSRATKSDAPVSKPKVDPSVPASKAEADGNAQAVESKAALDKKEDVGVAEPLEAKAD
AGGDAGAVSSADDSENKESGPLAGPNVMNVIVVASECSPFCKTGGLGDVVGALPKALARRGHRV
MVVIPRYGEYAEAKDLGVRKRYRVAGQDSEVSYFHAFIDGVDFVFLEAPPFRHRHNDIYGGERF
DVLKRMILFCKAAVEVPWFAPCGGSIYGDGNLVFIANDWHTALLPVYLKAYYRDNGLMQYTRSV
LVIHNIAHQADHVEDSVSSPKYVKPAVAKQNGEVVSRATKSDAPVSKPKVDPSVPASKAEADGN
AQAVESKAALDKKEDVGVAEPLEAKADAGGDAGAVSSADDSENKESGPLAGPNVMNVIVVASEC
SPFCKTGGLGDVVGALPKALARRGHRVMVVIPRYGEYAEAKDLGVRKRYRVAGQDSEVSYFHAF
IDGVDFVFLEAPPFRHRHNDIYGGERFDVLKRMILFCKAAVEVPWFAPCGGSIYGDGNLVFIAN
DWHTALLPVYLKAYYRDNGLMQYTRSVLVIHNIAHQADHVEDSVSSPKYVKPAVAKQNGEVVSR
ATKSDAPVSKPKVDPSVPASKAEADGNAQAVESKAALDKKEDVGVAEPLEAKADAGGDAGAVSS
ADDSENKESGPLAGPNVMNVIVVASECSPFCKTGGLGDVVGALPKALARRGHRVMVVIPRYGEY
AEAKDLGVRKRYRVAGQDSEVSYFHAFIDGVDFVFLEAPPFRHRHNDIYGGERFDVLKRMILFC
KAAVEVPWFAPCGGSIYGDGNLVFIANDWHTALLPVYLKAYYRDNGLMQYTRSVLVIHNIAHQ(
-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	31237233-31235260(+) 31237214-31235289(+) 31236915-31235176(-)
Potential amino acid sequence	MISLMSNVVYHKNRASILHQAIISVICLQIYG(+) MKLNPQHDQPDEQCCVSQEQSEYTASSHYLGNMPSNIRVKVQYANHLQ(+) MNVIVVASECSPFCKTGGLGDVVGALPKALARRGHRVMVVIPRYGEYAEAKDLGVRKRYRVAGQ DSEVSYFHAFIDGVDFVFLEAPPFRHRHNDIYGGERFDVLKRMILFCKAAVEVPWFAPCGGSIY GDGNLVFIANDWHTALLPVYLKAYYRDNGLMQYTRSVLVIHNIAHQADHVEDSVSSPKYVKPAV AKQNGEVVSRATKSDAPVSKPKVDPSVPASKAEADGNAQAVESKAALDKKEDVGVAEPLEAKAD AGGDAGAVSSADDSENKESGPLAGPNVMNVIVVASECSPFCKTGGLGDVVGALPKALARRGHRV MVVIPRYGEYAEAKDLGVRKRYRVAGQDSEVSYFHAFIDGVDFVFLEAPPFRHRHNDIYGGERF DVLKRMILFCKAAVEVPWFAPCGGSIYGDGNLVFIANDWHTALLPVYLKAYYRDNGLMQYTRSV LVIHNIAHQADHVEDSVSSPKYVKPAVAKQNGEVVSRATKSDAPVSKPKVDPSVPASKAEADGN AQAVESKAALDKKEDVGVAEPLEAKADAGGDAGAVSSADDSENKESGPLAGPNVMNVIVVASEC SPFCKTGGLGDVVGALPKALARRGHRVMVVIPRYGEYAEAKDLGVRKRYRVAGQDSEVSYFHAF IDGVDFVFLEAPPFRHRHNDIYGGERFDVLKRMILFCKAAVEVPWFAPCGGSIYGDGNLVFIAN DWHTALLPVYLKAYYRDNGLMQYTRSVLVIHNIAHQADHVEDSVSSPKYVKPAVAKQNGEVVSR ATKSDAPVSKPKVDPSVPASKAEADGNAQAVESKAALDKKEDVGVAEPLEAKADAGGDAGAVSS ADDSENKESGPLAGPNVMNVIVVASECSPFCKTGGLGDVVGALPKALARRGHRVMVVIPRYGEY AEAKDLGVRKRYRVAGQDSEVSYFHAFIDGVDFVFLEAPPFRHRHNDIYGGERFDVLKRMILFC KAAVEVPWFAPCGGSIYGDGNLVFIANDWHTALLPVYLKAYYRDNGLMQYTRSVLVIHNIAHQ( -)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0744700_circ_g.1

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