Plant Circular RNA Database

Detail information of Os02g0576700_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0576700_circ_g.3
					
						ID in PlantcircBase
						osa_circ_015151
					
						Alias
						Os_ciR7829
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 22153853-22154664  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0576700						
					
						Parent gene annotation
						
							Nucleosome assembly protein (NAP) family protein, H3/H4 histone 
chaperone, Abiotic stress response and adaptation (Os02t0576700-
01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0576700_circ_g.2 Os02g0576700_circ_g.4 						
					
						Support reads
						2/1
					
						Tissues
						root/root
					
						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
						Os02t0576700-01:5

General Information
CircRNA Name	Os02g0576700_circ_g.3
ID in PlantcircBase	osa_circ_015151
Alias	Os_ciR7829
Organism	Oryza sativa
Position	chr2: 22153853-22154664 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0576700
Parent gene annotation	Nucleosome assembly protein (NAP) family protein, H3/H4 histone chaperone, Abiotic stress response and adaptation (Os02t0576700- 01)
Parent gene strand	-
Alternative splicing	Os02g0576700_circ_g.2 Os02g0576700_circ_g.4
Support reads	2/1
Tissues	root/root
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	Os02t0576700-01:5

			
						 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  
						
							TTGTTTGGATAACGTCACTCCTTCGGAGATAGACAGGTCTGCGAATCTCACTGTATTTCTGCTC
GACCTCCAAAACCTTGTCACTAGCTTCCTCATTGACctttcctcaaccaatggtcgcttgctcc
ctttcttcttggcattcccatttgcaatttcctgtatattattattaaagatattagatttgcc
atttctat

						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: 419
Transcript exons: 22153853-22153911,22153991-22154104,22154182-22154253,22
154393-22154443,22154542-22154664
CTTTCCTCAACCAATGGTCGCTTGCTCCCTTTCTTCTTGGCATTCCCATTTGCAATTTCCATTC
CTTCTTTCCACTTAATGCTAGTAGCATTTATTGTGGTTGTTCCGTCATCAGCGAAGGCATATGT
CTTCGTGAGCTCTTTGTCTTCAAAGTACGGGTTCTCGGAGAAGGTAAGAGTTATGGAGTAGCCT
GACTTGACATCTTTAGAATCATCCACGTCGACAGACTCCAGGTACTTGAACATCTTTTGATCCT
CTTCGGTCAAAAGCTCACTAAGTAGAGGATGACTCAGAAACGCTGTCAGCCAGAAGTCGGGGAT
TGTTTGGATAACGTCACTCCTTCGGAGATAGACAGGTCTGCGAATCTCACTGTATTTCTGCTCG
ACCTCCAAAACCTTGTCACTAGCTTCCTCATTGAC
						
						Genomic sequence
						
							CTTTCCTCAACCAATGGTCGCTTGCTCCCTTTCTTCTTGGCATTCCCATTTGCAATTTCCTGTA
TATTATTATTAAAGATATTAGATTTGCCATTTCTATACAAGCACTTAGAAGCAGCTTTTAAAAG
AGCACAATACCATTCCTTCTTTCCACTTAATGCTAGTAGCATTTATTGTGGTTGTTCCGTCATC
AGCGAAGGCATATGTCTTCGTGAGCTCTTTGTCTTCAAAGTACGGGTTCTCGGAGAAGGTCTGC
CAGTTCATATTACGTTCATAAGCACAACTAAAACATGAAACATAAAACTATACATGTGTGCAAT
GATACTTACAAGAGTTATGGAGTAGCCTGACTTGACATCTTTAGAATCATCCACGTCGACAGAC
TCCAGGTACTTGAACATCTGCGATTAAGGCAAAAGAAAAACTTATAAGTTAAATGCATCTAAAA
AATGTGCAAGTATTGTCCAATTGCATTCTGTGGTCATACAAACGTACAAGTATACTAAAGTTAA
TTTTATTAACAACAAAGAACAAAGGTACCTTTTGATCCTCTTCGGTCAAAAGCTCACTAAGTAG
AGGATGACTCAGAAACTGTAATCAGCACATAACAAAAATAGGTAAGATTATAAGAATGTTAGGT
TTCAAAAAAACAGGGGGGCCCGTTATTATGGAATGAGGTGTTCACAAACCGCTGTCAGCCAGAA
GTCGGGGATTGTTTGGATAACGTCACTCCTTCGGAGATAGACAGGTCTGCGAATCTCACTGTAT
TTCTGCTCGACCTCCAAAACCTTGTCACTAGCTTCCTCATTGAC

Sequences
Splice junction sequence	TTGTTTGGATAACGTCACTCCTTCGGAGATAGACAGGTCTGCGAATCTCACTGTATTTCTGCTC GACCTCCAAAACCTTGTCACTAGCTTCCTCATTGACctttcctcaaccaatggtcgcttgctcc ctttcttcttggcattcccatttgcaatttcctgtatattattattaaagatattagatttgcc atttctat
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: 419 Transcript exons: 22153853-22153911,22153991-22154104,22154182-22154253,22 154393-22154443,22154542-22154664 CTTTCCTCAACCAATGGTCGCTTGCTCCCTTTCTTCTTGGCATTCCCATTTGCAATTTCCATTC CTTCTTTCCACTTAATGCTAGTAGCATTTATTGTGGTTGTTCCGTCATCAGCGAAGGCATATGT CTTCGTGAGCTCTTTGTCTTCAAAGTACGGGTTCTCGGAGAAGGTAAGAGTTATGGAGTAGCCT GACTTGACATCTTTAGAATCATCCACGTCGACAGACTCCAGGTACTTGAACATCTTTTGATCCT CTTCGGTCAAAAGCTCACTAAGTAGAGGATGACTCAGAAACGCTGTCAGCCAGAAGTCGGGGAT TGTTTGGATAACGTCACTCCTTCGGAGATAGACAGGTCTGCGAATCTCACTGTATTTCTGCTCG ACCTCCAAAACCTTGTCACTAGCTTCCTCATTGAC
Genomic sequence	CTTTCCTCAACCAATGGTCGCTTGCTCCCTTTCTTCTTGGCATTCCCATTTGCAATTTCCTGTA TATTATTATTAAAGATATTAGATTTGCCATTTCTATACAAGCACTTAGAAGCAGCTTTTAAAAG AGCACAATACCATTCCTTCTTTCCACTTAATGCTAGTAGCATTTATTGTGGTTGTTCCGTCATC AGCGAAGGCATATGTCTTCGTGAGCTCTTTGTCTTCAAAGTACGGGTTCTCGGAGAAGGTCTGC CAGTTCATATTACGTTCATAAGCACAACTAAAACATGAAACATAAAACTATACATGTGTGCAAT GATACTTACAAGAGTTATGGAGTAGCCTGACTTGACATCTTTAGAATCATCCACGTCGACAGAC TCCAGGTACTTGAACATCTGCGATTAAGGCAAAAGAAAAACTTATAAGTTAAATGCATCTAAAA AATGTGCAAGTATTGTCCAATTGCATTCTGTGGTCATACAAACGTACAAGTATACTAAAGTTAA TTTTATTAACAACAAAGAACAAAGGTACCTTTTGATCCTCTTCGGTCAAAAGCTCACTAAGTAG AGGATGACTCAGAAACTGTAATCAGCACATAACAAAAATAGGTAAGATTATAAGAATGTTAGGT TTCAAAAAAACAGGGGGGCCCGTTATTATGGAATGAGGTGTTCACAAACCGCTGTCAGCCAGAA GTCGGGGATTGTTTGGATAACGTCACTCCTTCGGAGATAGACAGGTCTGCGAATCTCACTGTAT TTCTGCTCGACCTCCAAAACCTTGTCACTAGCTTCCTCATTGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_011901 						
					
						PMCS
						0.345106886

Conservation Information
Conserved circRNAs	osi_circ_011901
PMCS	0.345106886

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22154433-22154194(+)
22154255-22154549(-)
22154024-22154659(-)
						
						Potential amino acid sequence
						
							MTQKRCQPEVGDCLDNVTPSEIDRSANLTVFLLDLQNLVTSFLIDLSSTNGRLLPFFLAFPFAI
SIPSFHLMLVAFIVVVPSSAKAYVFVSSLSSKYGFSEKVRVME*(+)
MFKYLESVDVDDSKDVKSGYSITLTFSENPYFEDKELTKTYAFADDGTTTINATSIKWKEGMEI
ANGNAKKKGSKRPLVEERSMRKLVTRFWRSSRNTVRFADLSISEGVTLSKQSPTSG*(-)
MLLALSGKKEWKLQMGMPRRKGASDHWLRKGQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22154433-22154194(+) 22154255-22154549(-) 22154024-22154659(-)
Potential amino acid sequence	MTQKRCQPEVGDCLDNVTPSEIDRSANLTVFLLDLQNLVTSFLIDLSSTNGRLLPFFLAFPFAI SIPSFHLMLVAFIVVVPSSAKAYVFVSSLSSKYGFSEKVRVME(+) MFKYLESVDVDDSKDVKSGYSITLTFSENPYFEDKELTKTYAFADDGTTTINATSIKWKEGMEI ANGNAKKKGSKRPLVEERSMRKLVTRFWRSSRNTVRFADLSISEGVTLSKQSPTSG(-) MLLALSGKKEWKLQMGMPRRKGASDHWLRKGQ*(-)
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 Os02g0576700_circ_g.3

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