Plant Circular RNA Database

Detail information of Os09g0322200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0322200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_038845
					
						Alias
						Os_ciR2330
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 9381638-9382707  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os09g0322200						
					
						Parent gene annotation
						
							Similar to Nudix hydrolase 24. (Os09t0322200-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0322200_circ_g.1 Os09g0322200_circ_g.3 						
					
						Support reads
						5/1
					
						Tissues
						root/root, 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
						Os09t0322200-01:3

General Information
CircRNA Name	Os09g0322200_circ_g.2
ID in PlantcircBase	osa_circ_038845
Alias	Os_ciR2330
Organism	Oryza sativa
Position	chr9: 9381638-9382707 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	Os09g0322200
Parent gene annotation	Similar to Nudix hydrolase 24. (Os09t0322200-01)
Parent gene strand	-
Alternative splicing	Os09g0322200_circ_g.1 Os09g0322200_circ_g.3
Support reads	5/1
Tissues	root/root, 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	Os09t0322200-01:3

			
						 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  
						
							TAGAGATGAATGGAGAGTCACATGTTCAACATTATTGCTTCCATTGCTGCCCGAGGCAATGGTA
AAAACATCACGGAAGTCTCTTAGATGTTCAACAAAAcaggccacctgcaacaagatgatcaagc
attcctggaaaggtctgcttcgtatcacttctcttagcaatccaaagaaatttctggccctcct
tctcaaca

						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: 380
Transcript exons: 9381638-9381763,9382232-9382304,9382527-9382707
CAGGCCACCTGCAACAAGATGATCAAGCATTCCTGGAAAGGTCTGCTTCGTATCACTTCTCTTA
GCAATCCAAAGAAATTTCTGGCCCTCCTTCTCAACATACCCATTCATATGAACTCCATAAGCCA
AAGTAGGGGGCAGCAGCACGTTCCAGAGAGAAGTACACAGGCATGCCATAAGATGATGTTATTG
GATAGAGCTCATTTCGAATACCTGGAATCAGATCTCCTAGACTTCTTATGACACTTCCAACAGC
ATTTGTTCGTTCATCTGGAGTCCTTAGAGATGAATGGAGAGTCACATGTTCAACATTATTGCTT
CCATTGCTGCCCGAGGCAATGGTAAAAACATCACGGAAGTCTCTTAGATGTTCAACAAAA
						
						Genomic sequence
						
							CAGGCCACCTGCAACAAGATGATCAAGCATTCCTGGAAAGGTCTGCTTCGTATCACTTCTCTTA
GCAATCCAAAGAAATTTCTGGCCCTCCTTCTCAACATACCCATTCATATGAACTCCATAAGCCT
GACAATATACATAACATCTCATCGATAAGGATTGAACACTTGGACCATATCAATTACCAAAAAA
AGAAAGCCAGTAAATAGCCACATGGCAGATATGATTAGCAGTAAGCAGCTATTTTGGATGTAGA
ACACTTCCCTATAATTCACTAACATATGTATATAGGTGACACTATTGGCATAGAATATACTACC
TCCGTTTTTTAATAGATGACGCCGTTGACTTTTTCTCACATGTTTGACCATTCGTCTTATTCAA
AAATTTTATGCAAATGTATAAGATATAAACCACACTTAAAGTACTATGAGTGATAAAACAACCC
ATAACAAAATAAATTATAATTACGTAAATTTTTTGAATAAGACGAATGGTCAAACATATGAGAA
AAAGTCAACGGCGTCATCTATTAAAAAACGGAGGGAGTATTTCCTTTTAAAAATAAGGAAGCAT
GACAGAGAACCTTTATACCAAAGTAGGGGGCAGCAGCACGTTCCAGAGAGAAGTACACAGGCAT
GCCATAAGATGATGTTATTGGATAGAGCTGTTAGATTGAGCATATTATTAGAACGAGATTATAG
AGAGAAAATGTGAAATCTCCAATAAGGCCTAATAAAACAAGAAGAATATTTAAAAAAACTACTG
TGGCAATTCTACTGAAAAATGTAGGATCCAACATTCAGCAAATCAATAAATGCATCAGAATTTA
AAATCAAGCTTGTTCATTAAAGAATCAATGACTTGGATACTGAATTGTGGTGAGTACCTCATTT
CGAATACCTGGAATCAGATCTCCTAGACTTCTTATGACACTTCCAACAGCATTTGTTCGTTCAT
CTGGAGTCCTTAGAGATGAATGGAGAGTCACATGTTCAACATTATTGCTTCCATTGCTGCCCGA
GGCAATGGTAAAAACATCACGGAAGTCTCTTAGATGTTCAACAAAA

Sequences
Splice junction sequence	TAGAGATGAATGGAGAGTCACATGTTCAACATTATTGCTTCCATTGCTGCCCGAGGCAATGGTA AAAACATCACGGAAGTCTCTTAGATGTTCAACAAAAcaggccacctgcaacaagatgatcaagc attcctggaaaggtctgcttcgtatcacttctcttagcaatccaaagaaatttctggccctcct tctcaaca
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: 380 Transcript exons: 9381638-9381763,9382232-9382304,9382527-9382707 CAGGCCACCTGCAACAAGATGATCAAGCATTCCTGGAAAGGTCTGCTTCGTATCACTTCTCTTA GCAATCCAAAGAAATTTCTGGCCCTCCTTCTCAACATACCCATTCATATGAACTCCATAAGCCA AAGTAGGGGGCAGCAGCACGTTCCAGAGAGAAGTACACAGGCATGCCATAAGATGATGTTATTG GATAGAGCTCATTTCGAATACCTGGAATCAGATCTCCTAGACTTCTTATGACACTTCCAACAGC ATTTGTTCGTTCATCTGGAGTCCTTAGAGATGAATGGAGAGTCACATGTTCAACATTATTGCTT CCATTGCTGCCCGAGGCAATGGTAAAAACATCACGGAAGTCTCTTAGATGTTCAACAAAA
Genomic sequence	CAGGCCACCTGCAACAAGATGATCAAGCATTCCTGGAAAGGTCTGCTTCGTATCACTTCTCTTA GCAATCCAAAGAAATTTCTGGCCCTCCTTCTCAACATACCCATTCATATGAACTCCATAAGCCT GACAATATACATAACATCTCATCGATAAGGATTGAACACTTGGACCATATCAATTACCAAAAAA AGAAAGCCAGTAAATAGCCACATGGCAGATATGATTAGCAGTAAGCAGCTATTTTGGATGTAGA ACACTTCCCTATAATTCACTAACATATGTATATAGGTGACACTATTGGCATAGAATATACTACC TCCGTTTTTTAATAGATGACGCCGTTGACTTTTTCTCACATGTTTGACCATTCGTCTTATTCAA AAATTTTATGCAAATGTATAAGATATAAACCACACTTAAAGTACTATGAGTGATAAAACAACCC ATAACAAAATAAATTATAATTACGTAAATTTTTTGAATAAGACGAATGGTCAAACATATGAGAA AAAGTCAACGGCGTCATCTATTAAAAAACGGAGGGAGTATTTCCTTTTAAAAATAAGGAAGCAT GACAGAGAACCTTTATACCAAAGTAGGGGGCAGCAGCACGTTCCAGAGAGAAGTACACAGGCAT GCCATAAGATGATGTTATTGGATAGAGCTGTTAGATTGAGCATATTATTAGAACGAGATTATAG AGAGAAAATGTGAAATCTCCAATAAGGCCTAATAAAACAAGAAGAATATTTAAAAAAACTACTG TGGCAATTCTACTGAAAAATGTAGGATCCAACATTCAGCAAATCAATAAATGCATCAGAATTTA AAATCAAGCTTGTTCATTAAAGAATCAATGACTTGGATACTGAATTGTGGTGAGTACCTCATTT CGAATACCTGGAATCAGATCTCCTAGACTTCTTATGACACTTCCAACAGCATTTGTTCGTTCAT CTGGAGTCCTTAGAGATGAATGGAGAGTCACATGTTCAACATTATTGCTTCCATTGCTGCCCGA GGCAATGGTAAAAACATCACGGAAGTCTCTTAGATGTTCAACAAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.470881084

Conservation Information
Conserved circRNAs	NA
PMCS	0.470881084

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9382696-9381699(+)
9382568-9382567(+)
9381746-9381734(-)
9382284-9382701(-)
						
						Potential amino acid sequence
						
							MFNKTGHLQQDDQAFLERSASYHFS*(+)
MTLPTAFVRSSGVLRDEWRVTCSTLLLPLLPEAMVKTSRKSLRCSTKQATCNKMIKHSWKGLLR
ITSLSNPKKFLALLLNIPIHMNSISQSRGQQHVPERSTQACHKMMLLDRAHFEYLESDLLDFL*
(+)
MGMLRRRARNFFGLLREVIRSRPFQECLIILLQVACFVEHLRDFRDVFTIASGSNGSNNVEHVT
LHSSLRTPDERTNAVGSVIRSLGDLIPGIRNELYPITSSYGMPVYFSLERAAAPYFGLWSSYEW
VC*(-)
MACLCTSLWNVLLPPTLAYGVHMNGYVEKEGQKFLWIAKRSDTKQTFPGMLDHLVAGGLFC*(-
)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9382696-9381699(+) 9382568-9382567(+) 9381746-9381734(-) 9382284-9382701(-)
Potential amino acid sequence	MFNKTGHLQQDDQAFLERSASYHFS(+) MTLPTAFVRSSGVLRDEWRVTCSTLLLPLLPEAMVKTSRKSLRCSTKQATCNKMIKHSWKGLLR ITSLSNPKKFLALLLNIPIHMNSISQSRGQQHVPERSTQACHKMMLLDRAHFEYLESDLLDFL (+) MGMLRRRARNFFGLLREVIRSRPFQECLIILLQVACFVEHLRDFRDVFTIASGSNGSNNVEHVT LHSSLRTPDERTNAVGSVIRSLGDLIPGIRNELYPITSSYGMPVYFSLERAAAPYFGLWSSYEW VC(-) MACLCTSLWNVLLPPTLAYGVHMNGYVEKEGQKFLWIAKRSDTKQTFPGMLDHLVAGGLFC(- )
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os09g0322200_circ_g.2

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