Plant Circular RNA Database

Detail information of Os01g0678500_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os01g0678500_circ_g.3
					
						ID in PlantcircBase
						osa_circ_003220
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 27913049-27919453  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						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.4 Os01g0678500_circ_g.5 Os01g0678500_circ_g.6 Os01g0678500_circ_g.7 Os01g0678500_circ_g.8 Os01g0678500_circ_g.9 						
					
						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
						Os01t0678500-01:11
Os01t0678500-02:11

General Information
CircRNA Name	Os01g0678500_circ_g.3
ID in PlantcircBase	osa_circ_003220
Alias	NA
Organism	Oryza sativa
Position	chr1: 27913049-27919453 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
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.4 Os01g0678500_circ_g.5 Os01g0678500_circ_g.6 Os01g0678500_circ_g.7 Os01g0678500_circ_g.8 Os01g0678500_circ_g.9
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	Os01t0678500-01:11 Os01t0678500-02:11

			
						 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
CAAGACATCCTCAGGGATACCCACACCATCTTCTGCaggtggttctttctggaattttattgca
atggtattgcacagtgtagcaaattcttcagaggtaacctggacaaggataaataagtgagata
aaaaaaca

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					
						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 CAAGACATCCTCAGGGATACCCACACCATCTTCTGCaggtggttctttctggaattttattgca atggtattgcacagtgtagcaaattcttcagaggtaacctggacaaggataaataagtgagata aaaaaaca
Assembled circRNA sequence	NA 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	NA
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
						
							NA						
					
						PMCS
						0.099306599

Conservation Information
Conserved circRNAs	NA
PMCS	0.099306599

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							27919395-27913051(-)
						
					

						Potential amino acid sequence
						
							MRFYFVYLRLDWLWSLNLFALILLNFLEKPLWCRGYSQHACDQRDLYFLGQLPYLSKTESLIYE
GLTLVILVMDIFYPLSYEGLNLFWKNTINKLKVLLLFILACDILVFAFSPQPFRVAPYIRVAFL
IMNIRELRMCAVTLVGMVGTYLNVLALSLLFLLFASWLAYVTFEDTPQGKTVFSSYGTTLYQMF
ILFTTSNNPDVWVPAYKSSRWSSLFFIVYVLLGVYFLTNLILAVIYDSFKEQLAKQVSQADCTR
KSILEKAFGIIDATGQGYLNKEQCLSLLDELNKYRSLPKTSREDFELIFAELDQSGDFKVTSEE
FATLCNTIAIKFQKEPPAEDGVGIPEDVLNDTRFERAMRFYFVYLRLDWLWSLNLFALILLNFL
EKPLWCRGYSQHACDQRDLYFLGQLPYLSKTESLIYEGLTLVILVMDIFYPLSYEGLNLFWKNT
INKLKVLLLFILACDILVFAFSPQPFRVAPYIRVAFLIMNIRELRMCAVTLVGMVGTYLNVLAL
SLLFLLFASWLAYVTFEDTPQGKTVFSSYGTTLYQMFILFTTSNNPDVWVPAYKSSRWSSLFFI
VYVLLGVYFLTNLILAVIYDSFKEQLAKQVSQADCTRKSILEKAFGIIDATGQGYLNKEQCLSL
LDELNKYRSLPKTSREDFELIFAELDQSGDFKVTSEEFATLCNTIAIKFQKEPPAEDGVGIPED
VLNDTRFERAMRFYFVYLRLDWLWSLNLFALILLNFLEKPLWCRGYSQHACDQRDLYFLGQLPY
LSKTESLIYEGLTLVILVMDIFYPLSYEGLNLFWKNTINKLKVLLLFILACDILVFAFSPQPFR
VAPYIRVAFLIMNIRELRMCAVTLVGMVGTYLNVLALSLLFLLFASWLAYVTFEDTPQGKTVFS
SYGTTLYQMFILFTTSNNPDVWVPAYKSSRWSSLFFIVYVLLGVYFLTNLILAVIYDSFKEQLA
KQVSQADCTRKSILEKAFGIIDATGQGYLNKEQCLSLLDELNKYRSLPKTSREDFELIFAELDQ
SGDFKVTSEEFATLCNTIAIKFQKEPPAEDGVGIPEDVLNDTRFERAMRFYFVYLRLDWLWSLN
LFALILLNFLEKPLWCRGYSQHACDQRDLYFLGQLPYLSKTESLIYEGLTLVILVMDIFYPLSY
EGLNLFWKNTINKLKVLLLFILACDILVFAFSPQPFRVAPYIRVAFLIMNIRELRMCAVTLVGM
VGTYLNVLALSLLFLLFASWLAYVTFEDTPQGKTVFSSYGTTLYQMFILFTTSNNPDVWVPAYK
SSRWSSLFFIVYVLLGVYFLTNLILAVIYDSFKEQLAKQVSQADCTRKSILEKAFGIIDATGQG
YLNKEQCLSLLDELNKYRSLPKTSREDFELIFAELDQSGDFKVTSEEFATLCNTIAIKFQKEPP
(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	27919395-27913051(-)
Potential amino acid sequence	MRFYFVYLRLDWLWSLNLFALILLNFLEKPLWCRGYSQHACDQRDLYFLGQLPYLSKTESLIYE GLTLVILVMDIFYPLSYEGLNLFWKNTINKLKVLLLFILACDILVFAFSPQPFRVAPYIRVAFL IMNIRELRMCAVTLVGMVGTYLNVLALSLLFLLFASWLAYVTFEDTPQGKTVFSSYGTTLYQMF ILFTTSNNPDVWVPAYKSSRWSSLFFIVYVLLGVYFLTNLILAVIYDSFKEQLAKQVSQADCTR KSILEKAFGIIDATGQGYLNKEQCLSLLDELNKYRSLPKTSREDFELIFAELDQSGDFKVTSEE FATLCNTIAIKFQKEPPAEDGVGIPEDVLNDTRFERAMRFYFVYLRLDWLWSLNLFALILLNFL EKPLWCRGYSQHACDQRDLYFLGQLPYLSKTESLIYEGLTLVILVMDIFYPLSYEGLNLFWKNT INKLKVLLLFILACDILVFAFSPQPFRVAPYIRVAFLIMNIRELRMCAVTLVGMVGTYLNVLAL SLLFLLFASWLAYVTFEDTPQGKTVFSSYGTTLYQMFILFTTSNNPDVWVPAYKSSRWSSLFFI VYVLLGVYFLTNLILAVIYDSFKEQLAKQVSQADCTRKSILEKAFGIIDATGQGYLNKEQCLSL LDELNKYRSLPKTSREDFELIFAELDQSGDFKVTSEEFATLCNTIAIKFQKEPPAEDGVGIPED VLNDTRFERAMRFYFVYLRLDWLWSLNLFALILLNFLEKPLWCRGYSQHACDQRDLYFLGQLPY LSKTESLIYEGLTLVILVMDIFYPLSYEGLNLFWKNTINKLKVLLLFILACDILVFAFSPQPFR VAPYIRVAFLIMNIRELRMCAVTLVGMVGTYLNVLALSLLFLLFASWLAYVTFEDTPQGKTVFS SYGTTLYQMFILFTTSNNPDVWVPAYKSSRWSSLFFIVYVLLGVYFLTNLILAVIYDSFKEQLA KQVSQADCTRKSILEKAFGIIDATGQGYLNKEQCLSLLDELNKYRSLPKTSREDFELIFAELDQ SGDFKVTSEEFATLCNTIAIKFQKEPPAEDGVGIPEDVLNDTRFERAMRFYFVYLRLDWLWSLN LFALILLNFLEKPLWCRGYSQHACDQRDLYFLGQLPYLSKTESLIYEGLTLVILVMDIFYPLSY EGLNLFWKNTINKLKVLLLFILACDILVFAFSPQPFRVAPYIRVAFLIMNIRELRMCAVTLVGM VGTYLNVLALSLLFLLFASWLAYVTFEDTPQGKTVFSSYGTTLYQMFILFTTSNNPDVWVPAYK SSRWSSLFFIVYVLLGVYFLTNLILAVIYDSFKEQLAKQVSQADCTRKSILEKAFGIIDATGQG YLNKEQCLSLLDELNKYRSLPKTSREDFELIFAELDQSGDFKVTSEEFATLCNTIAIKFQKEPP (-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0678500_circ_g.3

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