Plant Circular RNA Database

Detail information of Os08g0408200_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os08g0408200_circ_g.4
					
						ID in PlantcircBase
						osa_circ_037036
					
						Alias
						Os_ciR11431
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 19526148-19527493  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os08g0408200						
					
						Parent gene annotation
						
							WD40 subfamily protein, Salt stress (Os08t0408200-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0408200_circ_g.5 Os08g0408200_circ_g.6 						
					
						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  
						
							GT-AG							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
						Os08t0408200-01:5

General Information
CircRNA Name	Os08g0408200_circ_g.4
ID in PlantcircBase	osa_circ_037036
Alias	Os_ciR11431
Organism	Oryza sativa
Position	chr8: 19526148-19527493 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os08g0408200
Parent gene annotation	WD40 subfamily protein, Salt stress (Os08t0408200-01)
Parent gene strand	+
Alternative splicing	Os08g0408200_circ_g.5 Os08g0408200_circ_g.6
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	GT-AG 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	Os08t0408200-01:5

			
						 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  
						
							TAGACGGTTGGTGGCTGCTAACAATGACTGCTCTGTCAGAATTTTTGACATTGAGTACTTTGAT
TTGCTGAAGCACTATGTCTTCCCATGGTCTGTGAATgactgcaagaaagttgaaaaggatagtc
cttactacgatttccagtacaatacaaggcgtgctcgcccatcaattgtacattttcaggtttg
taatcact

									
								

					

						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: 525
Transcript exons: 19526148-19526234,19526792-19526926,19527019-19527123,19
527209-19527300,19527388-19527493
GACTGCAAGAAAGTTGAAAAGGATAGTCCTTACTACGATTTCCAGTACAATACAAGGCGTGCTC
GCCCATCAATTGTACATTTTCAGTTAAGGAATCTGGTCTGGGCAACAACCAAGCATGATGTTTA
CACGGTGCACAACCAATCAGTGACACATTGGTCATCATTGGACCAGACAAGTACTGAGCTAATC
AATGCGGATGACTGCATTATACCAAAACAGAGAGGGCATGGTTCACAGTCCGTTGCAATGGTCC
AGGTCACAACTATGGCTGTAGATGATAGTTTATTGGTAATTGGTGGTTTTCAGGGGGAGCTTAT
ATGCAAGCGCCTGGAAGATGATGGAGTTCTTTTCAGCACAAGAGTTACAGATGATGAGAATGCT
ATTACCAACTCTTTGGAGATATATCAGGATCCCACTGGATCTAGACGGTTGGTGGCTGCTAACA
ATGACTGCTCTGTCAGAATTTTTGACATTGAGTACTTTGATTTGCTGAAGCACTATGTCTTCCC
ATGGTCTGTGAAT
						
					

						Genomic sequence
						
							GACTGCAAGAAAGTTGAAAAGGATAGTCCTTACTACGATTTCCAGTACAATACAAGGCGTGCTC
GCCCATCAATTGTACATTTTCAGGTTTGTAATCACTCTGTTGACATTCCAATATCTGTAGCTCA
GTTATGCTACGGTTGATCTTATTTGAACTTGACCAGCCATGTTGTCCTTTGGTACTACTTGGTC
ATAGCAGTAAATGATAAACCTTTTCAAAATATCTGGCTTGTAGAGATCATATAGGTCCTAATAG
GAATTGATGGAAAAGAAGTTGCAGGTAGTTGTTAAGAGTTACAATATATCTGTGAAAAGTTTTA
CCATCAATATAGTGAACTCCCAATAATTAACATTTTAATAGTTATTTCGGCAAGTGGCATAACT
TTTGCTGAAATGACACACAAGACAAGATATCGAAGGAACAACTTTATTTTACTGTTAAAAGATG
GATGGACTAAGTGTTGAACGTCCAACATGCTAGATGTGATATCATTCTTCTATACATGCATGCA
TCAAAATACATCAATTTGCTACTTTTATGTCATCAAGGAACACTAGATCTACTCATAGATCTCA
ATATAAGACAGAATAGTTCCTGCATAGATAAATGGATGTGGTTTCTAGTTCTGATTTTAAGTTT
TCAGTTAAGGAATCTGGTCTGGGCAACAACCAAGCATGATGTTTACACGGTGCACAACCAATCA
GTGACACATTGGTCATCATTGGACCAGACAAGTACTGAGCTAATCAATGCGGATGACTGCATTA
TACCAAAACAGGTACCTACTCCATCCATAGCCTTAGCTCTCATTGTTGTTGACTCATCATCTCG
TTGGTCCCTAACTTGCAAAATTATCTTCTTTGTGGACAGAGAGGGCATGGTTCACAGTCCGTTG
CAATGGTCCAGGTCACAACTATGGCTGTAGATGATAGTTTATTGGTAATTGGTGGTTTTCAGGG
GGAGCTTATATGCAAGGTATCTTCATAGAAAAACATATACTTAAACTTTGCAATTTCATCTAGT
AACTTGCAAACTGACAAAATTCTTTGGTTTTTAATAGCGCCTGGAAGATGATGGAGTTCTTTTC
AGCACAAGAGTTACAGATGATGAGAATGCTATTACCAACTCTTTGGAGATATATCAGGATCCCA
CGTAAGACTTGTTGCTTTTGGAGTTAGCATGTTTTTACTTCCAGGCCTTGTAACAACTCTTAAC
AAATGTATGTTTTGATATTTTCAGTGGATCTAGACGGTTGGTGGCTGCTAACAATGACTGCTCT
GTCAGAATTTTTGACATTGAGTACTTTGATTTGCTGAAGCACTATGTCTTCCCATGGTCTGTGA
AT
						
					

			
		

Sequences
Splice junction sequence	TAGACGGTTGGTGGCTGCTAACAATGACTGCTCTGTCAGAATTTTTGACATTGAGTACTTTGAT TTGCTGAAGCACTATGTCTTCCCATGGTCTGTGAATgactgcaagaaagttgaaaaggatagtc cttactacgatttccagtacaatacaaggcgtgctcgcccatcaattgtacattttcaggtttg taatcact
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: 525 Transcript exons: 19526148-19526234,19526792-19526926,19527019-19527123,19 527209-19527300,19527388-19527493 GACTGCAAGAAAGTTGAAAAGGATAGTCCTTACTACGATTTCCAGTACAATACAAGGCGTGCTC GCCCATCAATTGTACATTTTCAGTTAAGGAATCTGGTCTGGGCAACAACCAAGCATGATGTTTA CACGGTGCACAACCAATCAGTGACACATTGGTCATCATTGGACCAGACAAGTACTGAGCTAATC AATGCGGATGACTGCATTATACCAAAACAGAGAGGGCATGGTTCACAGTCCGTTGCAATGGTCC AGGTCACAACTATGGCTGTAGATGATAGTTTATTGGTAATTGGTGGTTTTCAGGGGGAGCTTAT ATGCAAGCGCCTGGAAGATGATGGAGTTCTTTTCAGCACAAGAGTTACAGATGATGAGAATGCT ATTACCAACTCTTTGGAGATATATCAGGATCCCACTGGATCTAGACGGTTGGTGGCTGCTAACA ATGACTGCTCTGTCAGAATTTTTGACATTGAGTACTTTGATTTGCTGAAGCACTATGTCTTCCC ATGGTCTGTGAAT
Genomic sequence	GACTGCAAGAAAGTTGAAAAGGATAGTCCTTACTACGATTTCCAGTACAATACAAGGCGTGCTC GCCCATCAATTGTACATTTTCAGGTTTGTAATCACTCTGTTGACATTCCAATATCTGTAGCTCA GTTATGCTACGGTTGATCTTATTTGAACTTGACCAGCCATGTTGTCCTTTGGTACTACTTGGTC ATAGCAGTAAATGATAAACCTTTTCAAAATATCTGGCTTGTAGAGATCATATAGGTCCTAATAG GAATTGATGGAAAAGAAGTTGCAGGTAGTTGTTAAGAGTTACAATATATCTGTGAAAAGTTTTA CCATCAATATAGTGAACTCCCAATAATTAACATTTTAATAGTTATTTCGGCAAGTGGCATAACT TTTGCTGAAATGACACACAAGACAAGATATCGAAGGAACAACTTTATTTTACTGTTAAAAGATG GATGGACTAAGTGTTGAACGTCCAACATGCTAGATGTGATATCATTCTTCTATACATGCATGCA TCAAAATACATCAATTTGCTACTTTTATGTCATCAAGGAACACTAGATCTACTCATAGATCTCA ATATAAGACAGAATAGTTCCTGCATAGATAAATGGATGTGGTTTCTAGTTCTGATTTTAAGTTT TCAGTTAAGGAATCTGGTCTGGGCAACAACCAAGCATGATGTTTACACGGTGCACAACCAATCA GTGACACATTGGTCATCATTGGACCAGACAAGTACTGAGCTAATCAATGCGGATGACTGCATTA TACCAAAACAGGTACCTACTCCATCCATAGCCTTAGCTCTCATTGTTGTTGACTCATCATCTCG TTGGTCCCTAACTTGCAAAATTATCTTCTTTGTGGACAGAGAGGGCATGGTTCACAGTCCGTTG CAATGGTCCAGGTCACAACTATGGCTGTAGATGATAGTTTATTGGTAATTGGTGGTTTTCAGGG GGAGCTTATATGCAAGGTATCTTCATAGAAAAACATATACTTAAACTTTGCAATTTCATCTAGT AACTTGCAAACTGACAAAATTCTTTGGTTTTTAATAGCGCCTGGAAGATGATGGAGTTCTTTTC AGCACAAGAGTTACAGATGATGAGAATGCTATTACCAACTCTTTGGAGATATATCAGGATCCCA CGTAAGACTTGTTGCTTTTGGAGTTAGCATGTTTTTACTTCCAGGCCTTGTAACAACTCTTAAC AAATGTATGTTTTGATATTTTCAGTGGATCTAGACGGTTGGTGGCTGCTAACAATGACTGCTCT GTCAGAATTTTTGACATTGAGTACTTTGATTTGCTGAAGCACTATGTCTTCCCATGGTCTGTGA AT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.273493809

Conservation Information
Conserved circRNAs	NA
PMCS	0.273493809

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19527047-19527490(+)
19527493-19526792(+)
19526872-19527431(-)
						
						Potential amino acid sequence
						
							MVQVTTMAVDDSLLVIGGFQGELICKRLEDDGVLFSTRVTDDENAITNSLEIYQDPTGSRRLVA
ANNDCSVRIFDIEYFDLLKHYVFPWSVNDCKKVEKDSPYYDFQYNTRRARPSIVHFQLRNLVWA
TTKHDVYTVHNQSVTHWSSLDQTSTELINADDCIIPKQRGHGSQSVAMVQVTTMAVDDSLLVIG
GFQGELICKRLEDDGVLFSTRVTDDENAITNSLEIYQDPTGSRRLVAANNDCSVRIFDIEYFDL
LKHYVFPWSVNDCKKVEKDSPYYDFQYNTRRARPSIVHFQLRNLVWATTKHDVYTVHNQSVTHW
SSLDQTSTELINADDCIIPKQRGHGSQSVAMVQVTTMAVDDSLLVIGGFQGELICKRLEDDGVL
FSTRVTDDENAITNSLEIYQDPTGSRRLVAANNDCSVRIFDIEYFDLLKHYVFPWSVNDCKKVE
KDSPYYDFQYNTRRARPSIVHFQLRNLVWATTKHDVYTVHNQSVTHWSSLDQTSTELINADDCI
IPKQRGHGSQSVAMVQVTTMAVDDSLLVIGGFQGELICKRLEDDGVLFSTRVTDDENAITNSLE
IYQDPTGSRRLVAANNDCSVRIFDIEYFDLLKHYVFPWSVN(+)
MTARKLKRIVLTTISSTIQGVLAHQLYIFS*(+)
MMTNVSLIGCAPCKHHAWLLPRPDSLTENVQLMGEHALYCTGNRSKDYPFQLSCSHSQTMGRHS
ASANQSTQCQKF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19527047-19527490(+) 19527493-19526792(+) 19526872-19527431(-)
Potential amino acid sequence	MVQVTTMAVDDSLLVIGGFQGELICKRLEDDGVLFSTRVTDDENAITNSLEIYQDPTGSRRLVA ANNDCSVRIFDIEYFDLLKHYVFPWSVNDCKKVEKDSPYYDFQYNTRRARPSIVHFQLRNLVWA TTKHDVYTVHNQSVTHWSSLDQTSTELINADDCIIPKQRGHGSQSVAMVQVTTMAVDDSLLVIG GFQGELICKRLEDDGVLFSTRVTDDENAITNSLEIYQDPTGSRRLVAANNDCSVRIFDIEYFDL LKHYVFPWSVNDCKKVEKDSPYYDFQYNTRRARPSIVHFQLRNLVWATTKHDVYTVHNQSVTHW SSLDQTSTELINADDCIIPKQRGHGSQSVAMVQVTTMAVDDSLLVIGGFQGELICKRLEDDGVL FSTRVTDDENAITNSLEIYQDPTGSRRLVAANNDCSVRIFDIEYFDLLKHYVFPWSVNDCKKVE KDSPYYDFQYNTRRARPSIVHFQLRNLVWATTKHDVYTVHNQSVTHWSSLDQTSTELINADDCI IPKQRGHGSQSVAMVQVTTMAVDDSLLVIGGFQGELICKRLEDDGVLFSTRVTDDENAITNSLE IYQDPTGSRRLVAANNDCSVRIFDIEYFDLLKHYVFPWSVN(+) MTARKLKRIVLTTISSTIQGVLAHQLYIFS(+) MMTNVSLIGCAPCKHHAWLLPRPDSLTENVQLMGEHALYCTGNRSKDYPFQLSCSHSQTMGRHS ASANQSTQCQKF(-)
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 Os08g0408200_circ_g.4

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