Plant Circular RNA Database

Detail information of Os01g0678500_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os01g0678500_circ_g.5
					
						ID in PlantcircBase
						osa_circ_003222
					
						Alias
						Os_ciR4476
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 27913969-27919453  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0678500						
					
						Parent gene annotation
						
							Voltage-gated Ca2+ channel  protein, Elicitor-induced defense re
ponses, Hypersensitive cell death, Activation of MAPK cascade (O
s01t0678500-01);Voltage-gated Ca2+ channel  protein, Elicitor-in
duced defense reponses, Hypersensitive cell death, Activation of
 MAPK cascade (Os01t0678500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0678500_circ_g.3 Os01g0678500_circ_g.4 Os01g0678500_circ_g.6 Os01g0678500_circ_g.7 Os01g0678500_circ_g.8 Os01g0678500_circ_g.9 						
					
						Support reads
						4/3
					
						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
						Os01t0678500-02:10
Os01t0678500-01:10

General Information
CircRNA Name	Os01g0678500_circ_g.5
ID in PlantcircBase	osa_circ_003222
Alias	Os_ciR4476
Organism	Oryza sativa
Position	chr1: 27913969-27919453 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0678500
Parent gene annotation	Voltage-gated Ca2+ channel protein, Elicitor-induced defense re ponses, Hypersensitive cell death, Activation of MAPK cascade (O s01t0678500-01);Voltage-gated Ca2+ channel protein, Elicitor-in duced defense reponses, Hypersensitive cell death, Activation of MAPK cascade (Os01t0678500-02)
Parent gene strand	-
Alternative splicing	Os01g0678500_circ_g.3 Os01g0678500_circ_g.4 Os01g0678500_circ_g.6 Os01g0678500_circ_g.7 Os01g0678500_circ_g.8 Os01g0678500_circ_g.9
Support reads	4/3
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	Os01t0678500-02:10 Os01t0678500-01:10

			
						 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  
						
							ACAGCCAATCCAACCGGAGATACACAAAATAGAATCTCATAGCCCTCTCAAACCTTGTGTCATT
CAAGACATCCTCAGGGATACCCACACCATCTTCTGCcttaaaatcaccactctgatcaagctcg
gcaaaaattaattcaaaatcttcccttgaggttttaggtaacgatctacaaaaggaggcaccat
tctgtgag

						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: 1005
Transcript exons: 27913969-27914041,27915181-27915242,27915665-27915742,27
915866-27915971,27916059-27916225,27916703-27916763,2791
7946-27918055,27918575-27918670,27919096-27919203,279193
10-27919453
CTTAAAATCACCACTCTGATCAAGCTCGGCAAAAATTAATTCAAAATCTTCCCTTGAGGTTTTA
GGTAACGATCTGTATTTGTTGAGCTCATCTAGTAATGATAGGCACTGTTCTTTGTTGAGATAAC
CCTGACCAGTAGCATCAATGATACCAAATGCCTTCTCTAGTATACTTTTCCTTGTACAGTCTGC
CTGAGAAACTTGCTTTGCTAGCTGCTCCTTAAAGCTATCATAAATGACAGCAAGAATTAAATTT
GTTAGGAAGTAAACTCCCAAAAGTACGTAGACAATAAAAAATAGTGAGGACCAACGAGAGCTCT
TATAAGCAGGAACCCATACATCAGGATTATTGGAGGTGGTGAAGAGAATAAACATCTGATATAA
CGTGGTACCATATGACGAGAAAACAGTCTTTCCTTGTGGTGTATCCTCAAATGTTACATAAGCT
AGCCAGCTTGCGAATAAGAGGAACAATAGTGAAAGGGCCAAAACATTAAGGTATGTCCCAACCA
TACCAACCAGTGTAACAGCACACATTCGCAGTTCCCTGATATTCATTATTAGAAACGCAACACG
GATGTAAGGAGCTACTCTGAAAGGTTGGGGACTAAATGCAAACACCAGTATGTCACATGCTAAG
ATGAAGAGAAGAAGAACCTTCAGTTTATTTATTGTGTTCTTCCAGAATAGGTTTAAACCTTCAT
AGGACAGTGGATAGAAGATATCCATTACAAGAATAACAAGTGTGAGCCCCTCATATATGAGAGA
TTCAGTTTTGCTCAAGTATGGCAACTGCCCCAGAAAGTAAAGATCCCTTTGATCACAAGCATGT
TGAGAATATCCCCGGCACCAGAGAGGCTTCTCGAGAAAATTCAAAAGAATCAAAGCAAATAGGT
TAAGTGACCACAGCCAATCCAACCGGAGATACACAAAATAGAATCTCATAGCCCTCTCAAACCT
TGTGTCATTCAAGACATCCTCAGGGATACCCACACCATCTTCTGC
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	ACAGCCAATCCAACCGGAGATACACAAAATAGAATCTCATAGCCCTCTCAAACCTTGTGTCATT CAAGACATCCTCAGGGATACCCACACCATCTTCTGCcttaaaatcaccactctgatcaagctcg gcaaaaattaattcaaaatcttcccttgaggttttaggtaacgatctacaaaaggaggcaccat tctgtgag
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: 1005 Transcript exons: 27913969-27914041,27915181-27915242,27915665-27915742,27 915866-27915971,27916059-27916225,27916703-27916763,2791 7946-27918055,27918575-27918670,27919096-27919203,279193 10-27919453 CTTAAAATCACCACTCTGATCAAGCTCGGCAAAAATTAATTCAAAATCTTCCCTTGAGGTTTTA GGTAACGATCTGTATTTGTTGAGCTCATCTAGTAATGATAGGCACTGTTCTTTGTTGAGATAAC CCTGACCAGTAGCATCAATGATACCAAATGCCTTCTCTAGTATACTTTTCCTTGTACAGTCTGC CTGAGAAACTTGCTTTGCTAGCTGCTCCTTAAAGCTATCATAAATGACAGCAAGAATTAAATTT GTTAGGAAGTAAACTCCCAAAAGTACGTAGACAATAAAAAATAGTGAGGACCAACGAGAGCTCT TATAAGCAGGAACCCATACATCAGGATTATTGGAGGTGGTGAAGAGAATAAACATCTGATATAA CGTGGTACCATATGACGAGAAAACAGTCTTTCCTTGTGGTGTATCCTCAAATGTTACATAAGCT AGCCAGCTTGCGAATAAGAGGAACAATAGTGAAAGGGCCAAAACATTAAGGTATGTCCCAACCA TACCAACCAGTGTAACAGCACACATTCGCAGTTCCCTGATATTCATTATTAGAAACGCAACACG GATGTAAGGAGCTACTCTGAAAGGTTGGGGACTAAATGCAAACACCAGTATGTCACATGCTAAG ATGAAGAGAAGAAGAACCTTCAGTTTATTTATTGTGTTCTTCCAGAATAGGTTTAAACCTTCAT AGGACAGTGGATAGAAGATATCCATTACAAGAATAACAAGTGTGAGCCCCTCATATATGAGAGA TTCAGTTTTGCTCAAGTATGGCAACTGCCCCAGAAAGTAAAGATCCCTTTGATCACAAGCATGT TGAGAATATCCCCGGCACCAGAGAGGCTTCTCGAGAAAATTCAAAAGAATCAAAGCAAATAGGT TAAGTGACCACAGCCAATCCAACCGGAGATACACAAAATAGAATCTCATAGCCCTCTCAAACCT TGTGTCATTCAAGACATCCTCAGGGATACCCACACCATCTTCTGC
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010556 						
					
						PMCS
						0.205024471

Conservation Information
Conserved circRNAs	osi_circ_010556
PMCS	0.205024471

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27919395-27913971(-)
						
						Potential amino acid sequence
						
							MRFYFVYLRLDWLWSLNLFALILLNFLEKPLWCRGYSQHACDQRDLYFLGQLPYLSKTESLIYE
GLTLVILVMDIFYPLSYEGLNLFWKNTINKLKVLLLFILACDILVFAFSPQPFRVAPYIRVAFL
IMNIRELRMCAVTLVGMVGTYLNVLALSLLFLLFASWLAYVTFEDTPQGKTVFSSYGTTLYQMF
ILFTTSNNPDVWVPAYKSSRWSSLFFIVYVLLGVYFLTNLILAVIYDSFKEQLAKQVSQADCTR
KSILEKAFGIIDATGQGYLNKEQCLSLLDELNKYRSLPKTSREDFELIFAELDQSGDFKAEDGV
GIPEDVLNDTRFERAMRFYFVYLRLDWLWSLNLFALILLNFLEKPLWCRGYSQHACDQRDLYFL
GQLPYLSKTESLIYEGLTLVILVMDIFYPLSYEGLNLFWKNTINKLKVLLLFILACDILVFAFS
PQPFRVAPYIRVAFLIMNIRELRMCAVTLVGMVGTYLNVLALSLLFLLFASWLAYVTFEDTPQG
KTVFSSYGTTLYQMFILFTTSNNPDVWVPAYKSSRWSSLFFIVYVLLGVYFLTNLILAVIYDSF
KEQLAKQVSQADCTRKSILEKAFGIIDATGQGYLNKEQCLSLLDELNKYRSLPKTSREDFELIF
AELDQSGDFKAEDGVGIPEDVLNDTRFERAMRFYFVYLRLDWLWSLNLFALILLNFLEKPLWCR
GYSQHACDQRDLYFLGQLPYLSKTESLIYEGLTLVILVMDIFYPLSYEGLNLFWKNTINKLKVL
LLFILACDILVFAFSPQPFRVAPYIRVAFLIMNIRELRMCAVTLVGMVGTYLNVLALSLLFLLF
ASWLAYVTFEDTPQGKTVFSSYGTTLYQMFILFTTSNNPDVWVPAYKSSRWSSLFFIVYVLLGV
YFLTNLILAVIYDSFKEQLAKQVSQADCTRKSILEKAFGIIDATGQGYLNKEQCLSLLDELNKY
RSLPKTSREDFELIFAELDQSGDFKAEDGVGIPEDVLNDTRFERAMRFYFVYLRLDWLWSLNLF
ALILLNFLEKPLWCRGYSQHACDQRDLYFLGQLPYLSKTESLIYEGLTLVILVMDIFYPLSYEG
LNLFWKNTINKLKVLLLFILACDILVFAFSPQPFRVAPYIRVAFLIMNIRELRMCAVTLVGMVG
TYLNVLALSLLFLLFASWLAYVTFEDTPQGKTVFSSYGTTLYQMFILFTTSNNPDVWVPAYKSS
RWSSLFFIVYVLLGVYFLTNLILAVIYDSFKEQLAKQVSQADCTRKSILEKAFGIIDATGQGYL
NKEQCLSLLDELNKYRSLPKTSREDFELIFAELDQSGDFK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27919395-27913971(-)
Potential amino acid sequence	MRFYFVYLRLDWLWSLNLFALILLNFLEKPLWCRGYSQHACDQRDLYFLGQLPYLSKTESLIYE GLTLVILVMDIFYPLSYEGLNLFWKNTINKLKVLLLFILACDILVFAFSPQPFRVAPYIRVAFL IMNIRELRMCAVTLVGMVGTYLNVLALSLLFLLFASWLAYVTFEDTPQGKTVFSSYGTTLYQMF ILFTTSNNPDVWVPAYKSSRWSSLFFIVYVLLGVYFLTNLILAVIYDSFKEQLAKQVSQADCTR KSILEKAFGIIDATGQGYLNKEQCLSLLDELNKYRSLPKTSREDFELIFAELDQSGDFKAEDGV GIPEDVLNDTRFERAMRFYFVYLRLDWLWSLNLFALILLNFLEKPLWCRGYSQHACDQRDLYFL GQLPYLSKTESLIYEGLTLVILVMDIFYPLSYEGLNLFWKNTINKLKVLLLFILACDILVFAFS PQPFRVAPYIRVAFLIMNIRELRMCAVTLVGMVGTYLNVLALSLLFLLFASWLAYVTFEDTPQG KTVFSSYGTTLYQMFILFTTSNNPDVWVPAYKSSRWSSLFFIVYVLLGVYFLTNLILAVIYDSF KEQLAKQVSQADCTRKSILEKAFGIIDATGQGYLNKEQCLSLLDELNKYRSLPKTSREDFELIF AELDQSGDFKAEDGVGIPEDVLNDTRFERAMRFYFVYLRLDWLWSLNLFALILLNFLEKPLWCR GYSQHACDQRDLYFLGQLPYLSKTESLIYEGLTLVILVMDIFYPLSYEGLNLFWKNTINKLKVL LLFILACDILVFAFSPQPFRVAPYIRVAFLIMNIRELRMCAVTLVGMVGTYLNVLALSLLFLLF ASWLAYVTFEDTPQGKTVFSSYGTTLYQMFILFTTSNNPDVWVPAYKSSRWSSLFFIVYVLLGV YFLTNLILAVIYDSFKEQLAKQVSQADCTRKSILEKAFGIIDATGQGYLNKEQCLSLLDELNKY RSLPKTSREDFELIFAELDQSGDFKAEDGVGIPEDVLNDTRFERAMRFYFVYLRLDWLWSLNLF ALILLNFLEKPLWCRGYSQHACDQRDLYFLGQLPYLSKTESLIYEGLTLVILVMDIFYPLSYEG LNLFWKNTINKLKVLLLFILACDILVFAFSPQPFRVAPYIRVAFLIMNIRELRMCAVTLVGMVG TYLNVLALSLLFLLFASWLAYVTFEDTPQGKTVFSSYGTTLYQMFILFTTSNNPDVWVPAYKSS RWSSLFFIVYVLLGVYFLTNLILAVIYDSFKEQLAKQVSQADCTRKSILEKAFGIIDATGQGYL NKEQCLSLLDELNKYRSLPKTSREDFELIFAELDQSGDFK(-)
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 Os01g0678500_circ_g.5

Address

Any questions?

Supported by