Plant Circular RNA Database

Detail information of Os02g0554000_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os02g0554000_circ_g.4
					
						ID in PlantcircBase
						osa_circ_015001
					
						Alias
						Os_ciR7805
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 20904487-20905956  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os02g0554000						
					
						Parent gene annotation
						
							SET domain domain containing protein. (Os02t0554000-01);Conserve
d hypothetical protein. (Os02t0554000-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						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
						Os02t0554000-02:2
Os02t0554000-01:4

General Information
CircRNA Name	Os02g0554000_circ_g.4
ID in PlantcircBase	osa_circ_015001
Alias	Os_ciR7805
Organism	Oryza sativa
Position	chr2: 20904487-20905956 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os02g0554000
Parent gene annotation	SET domain domain containing protein. (Os02t0554000-01);Conserve d hypothetical protein. (Os02t0554000-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	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	Os02t0554000-02:2 Os02t0554000-01:4

			
						 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  
						
							AGGGTTACATATGACTGTTAATGATCGCTACCTGACATGCACAGTTGAAGGAAGATTGAACAGC
TTGCTTGATGTAAATGGAGGTATTAGCAAACGAAAAgtgatagatgcttgtactaaaggaaact
tgggccggttcatcaatcatagctgcagtcctaattgccgtacagagaaggtaaaaccgtttta
tttgatct

						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
						
							GTGATAGATGCTTGTACTAAAGGAAACTTGGGCCGGTTCATCAATCATAGCTGCAGTCCTAATT
GCCGTACAGAGAAGGTAAAACCGTTTTATTTGATCTTTATATTTGAATAGCTGACCAGATCCCT
TGCCTTTGTTACTTAAAATATCCTGATAATGTCCAATACAAGTCATATGTTATATTTACAAATA
AATAAATAAATAATGATTGGTGCATAAAATTGTGTAATTAGTTATATTCTTATTTTGAGTCCAT
TAAATTACTTTTTCCTTGTGAGCAGTGGATGGTCAATGGTGAAGTCTGCATTGGAATATTTGCT
ATGAGGAACATCAAGAAGGTAAGGCTAGAAACTTGAAATCATCAATGAACATGATGCAGGTCCT
GAGAAACTGAGAGTTTGCTTTATACTAGCTAAATTTAAATACCAACTTAAAATGTTGTATATTT
TTTTGGGAAAAACATATTAATTTGCAAAAAAAAGTCATATAAAATAGCCTAGCCACATGCAAAA
GACCCCAATTCAAGTGGTTATCTGATACACTGACTACCACCACCACCTTTCTTATTGTAGAGAT
AATTTGTGCAAATGAAACGTATCCTTCAGTATAACCTATATCTGTATTATATGTGCTGCACTTA
ATGGATATTTATTTCCTCACAGGGTGAAGAATTGACGTTTGATTACAACTATGTTCGTGTATCT
GGTGCTGCTCCTCAGAAATGCTTTTGCGGTACTGCCAAATGCCGGGGTTACATCGGTGGTGACA
TATCAGGTGCTGATATGATTACTCAAGATGATGCTGAAGCAGGGACTTTCGAACCTATGGCTGT
TCAGGAGGATGCTGAGGAAGTACTTGGTGCAAATGGTTTGTCCTCTCATGGCACACATCTAGAT
ATTGTCGACCATGAAGCTTCCACTAAAACAGAAGATTCAAATGATTGCCCATCTGTGAACCCAC
CAGAGTTAGAATCTGAGCAACAAACTTCAGGAACCTTATTTGACACAAGTGAGCCAGAAAATTC
CTTAGAAGCATTGAGCCCACAGGATGATGAAGATGTCGTCCGCACACCTGTCCATGTGTCCCGG
ACAGTTGAGAGTACGTCGCGGCAGTTTCCAGAATATGGTACTCGGTCATCAGAAATTTTGCAAA
GGGCTCCATGCACACTGGATGGACCAAAGGTTCCAAGCACAACAAATGGAATTCCGCCTAGTTC
CGATTTGGGGAGCCACTGGGTACCAGGTTTCCACGCTAATAAGAAAACCAATGTAAAACATCAT
TTGATTCTGAATCCATCATCAGCTCCTATTGACAGTGAGCACATTTTGGGAGGTAATACTGTTC
TTCCAAGTGTATCTCTCTTTCTGTCTAGGGTTACATATGACTGTTAATGATCGCTACCTGACAT
GCACAGTTGAAGGAAGATTGAACAGCTTGCTTGATGTAAATGGAGGTATTAGCAAACGAAAA

Sequences
Splice junction sequence	AGGGTTACATATGACTGTTAATGATCGCTACCTGACATGCACAGTTGAAGGAAGATTGAACAGC TTGCTTGATGTAAATGGAGGTATTAGCAAACGAAAAgtgatagatgcttgtactaaaggaaact tgggccggttcatcaatcatagctgcagtcctaattgccgtacagagaaggtaaaaccgtttta tttgatct
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	GTGATAGATGCTTGTACTAAAGGAAACTTGGGCCGGTTCATCAATCATAGCTGCAGTCCTAATT GCCGTACAGAGAAGGTAAAACCGTTTTATTTGATCTTTATATTTGAATAGCTGACCAGATCCCT TGCCTTTGTTACTTAAAATATCCTGATAATGTCCAATACAAGTCATATGTTATATTTACAAATA AATAAATAAATAATGATTGGTGCATAAAATTGTGTAATTAGTTATATTCTTATTTTGAGTCCAT TAAATTACTTTTTCCTTGTGAGCAGTGGATGGTCAATGGTGAAGTCTGCATTGGAATATTTGCT ATGAGGAACATCAAGAAGGTAAGGCTAGAAACTTGAAATCATCAATGAACATGATGCAGGTCCT GAGAAACTGAGAGTTTGCTTTATACTAGCTAAATTTAAATACCAACTTAAAATGTTGTATATTT TTTTGGGAAAAACATATTAATTTGCAAAAAAAAGTCATATAAAATAGCCTAGCCACATGCAAAA GACCCCAATTCAAGTGGTTATCTGATACACTGACTACCACCACCACCTTTCTTATTGTAGAGAT AATTTGTGCAAATGAAACGTATCCTTCAGTATAACCTATATCTGTATTATATGTGCTGCACTTA ATGGATATTTATTTCCTCACAGGGTGAAGAATTGACGTTTGATTACAACTATGTTCGTGTATCT GGTGCTGCTCCTCAGAAATGCTTTTGCGGTACTGCCAAATGCCGGGGTTACATCGGTGGTGACA TATCAGGTGCTGATATGATTACTCAAGATGATGCTGAAGCAGGGACTTTCGAACCTATGGCTGT TCAGGAGGATGCTGAGGAAGTACTTGGTGCAAATGGTTTGTCCTCTCATGGCACACATCTAGAT ATTGTCGACCATGAAGCTTCCACTAAAACAGAAGATTCAAATGATTGCCCATCTGTGAACCCAC CAGAGTTAGAATCTGAGCAACAAACTTCAGGAACCTTATTTGACACAAGTGAGCCAGAAAATTC CTTAGAAGCATTGAGCCCACAGGATGATGAAGATGTCGTCCGCACACCTGTCCATGTGTCCCGG ACAGTTGAGAGTACGTCGCGGCAGTTTCCAGAATATGGTACTCGGTCATCAGAAATTTTGCAAA GGGCTCCATGCACACTGGATGGACCAAAGGTTCCAAGCACAACAAATGGAATTCCGCCTAGTTC CGATTTGGGGAGCCACTGGGTACCAGGTTTCCACGCTAATAAGAAAACCAATGTAAAACATCAT TTGATTCTGAATCCATCATCAGCTCCTATTGACAGTGAGCACATTTTGGGAGGTAATACTGTTC TTCCAAGTGTATCTCTCTTTCTGTCTAGGGTTACATATGACTGTTAATGATCGCTACCTGACAT GCACAGTTGAAGGAAGATTGAACAGCTTGCTTGATGTAAATGGAGGTATTAGCAAACGAAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.121532971

Conservation Information
Conserved circRNAs	NA
PMCS	0.121532971

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20904772-20905953(+)
20904536-20905787(-)
20904529-20905765(-)
						
						Potential amino acid sequence
						
							MVNGEVCIGIFAMRNIKKGEELTFDYNYVRVSGAAPQKCFCGTAKCRGYIGGDISGADMITQDD
AEAGTFEPMAVQEDAEEVLGANGLSSHGTHLDIVDHEASTKTEDSNDCPSVNPPELESEQQTSG
TLFDTSEPENSLEALSPQDDEDVVRTPVHVSRTVESTSRQFPEYGTRSSEILQRAPCTLDGPKV
PSTTNGIPPSSDLGSHWVPGFHANKKTNVKHHLILNPSSAPIDSEHILGVEGRLNSLLDVNGGI
SKRKVIDACTKGNLGRFINHSCSPNCRTEKWMVNGEVCIGIFAMRNIKKGEELTFDYNYVRVSG
AAPQKCFCGTAKCRGYIGGDISGADMITQDDAEAGTFEPMAVQEDAEEVLGANGLSSHGTHLDI
VDHEASTKTEDSNDCPSVNPPELESEQQTSGTLFDTSEPENSLEALSPQDDEDVVRTPVHVSRT
VESTSRQFPEYGTRSSEILQRAPCTLDGPKVPSTTNGIPPSSDLGSHWVPGFHANKKTNVKHHL
ILNPSSAPIDSEHILGVEGRLNSLLDVNGGISKRKVIDACTKGNLGRFINHSCSPNCRTEKWMV
NGEVCIGIFAMRNIKKGEELTFDYNYVRVSGAAPQKCFCGTAKCRGYIGGDISGADMITQDDAE
AGTFEPMAVQEDAEEVLGANGLSSHGTHLDIVDHEASTKTEDSNDCPSVNPPELESEQQTSGTL
FDTSEPENSLEALSPQDDEDVVRTPVHVSRTVESTSRQFPEYGTRSSEILQRAPCTLDGPKVPS
TTNGIPPSSDLGSHWVPGFHANKKTNVKHHLILNPSSAPIDSEHILGVEGRLNSLLDVNGGISK
RKVIDACTKGNLGRFINHSCSPNCRTEKWMVNGEVCIGIFAMRNIKKGEELTFDYNYVRVSGAA
PQKCFCGTAKCRGYIGGDISGADMITQDDAEAGTFEPMAVQEDAEEVLGANGLSSHGTHLDIVD
HEASTKTEDSNDCPSVNPPELESEQQTSGTLFDTSEPENSLEALSPQDDEDVVRTPVHVSRTVE
STSRQFPEYGTRSSEILQRAPCTLDGPKVPSTTNGIPPSSDLGSHWVPGFHANKKTNVKHHLIL
NPSSAPIDSEHILGVEGRLNSLLDVNGGISKRK(+)
MIDEPAQVSFSTSIYHFSFANTSIYIKQAVQSSFNSQNVLTVNRS*(-)
MNRPKFPLVQASITFRLLIPPFTSSKLFNLPSTPKMCSLSIGADDGFRIK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20904772-20905953(+) 20904536-20905787(-) 20904529-20905765(-)
Potential amino acid sequence	MVNGEVCIGIFAMRNIKKGEELTFDYNYVRVSGAAPQKCFCGTAKCRGYIGGDISGADMITQDD AEAGTFEPMAVQEDAEEVLGANGLSSHGTHLDIVDHEASTKTEDSNDCPSVNPPELESEQQTSG TLFDTSEPENSLEALSPQDDEDVVRTPVHVSRTVESTSRQFPEYGTRSSEILQRAPCTLDGPKV PSTTNGIPPSSDLGSHWVPGFHANKKTNVKHHLILNPSSAPIDSEHILGVEGRLNSLLDVNGGI SKRKVIDACTKGNLGRFINHSCSPNCRTEKWMVNGEVCIGIFAMRNIKKGEELTFDYNYVRVSG AAPQKCFCGTAKCRGYIGGDISGADMITQDDAEAGTFEPMAVQEDAEEVLGANGLSSHGTHLDI VDHEASTKTEDSNDCPSVNPPELESEQQTSGTLFDTSEPENSLEALSPQDDEDVVRTPVHVSRT VESTSRQFPEYGTRSSEILQRAPCTLDGPKVPSTTNGIPPSSDLGSHWVPGFHANKKTNVKHHL ILNPSSAPIDSEHILGVEGRLNSLLDVNGGISKRKVIDACTKGNLGRFINHSCSPNCRTEKWMV NGEVCIGIFAMRNIKKGEELTFDYNYVRVSGAAPQKCFCGTAKCRGYIGGDISGADMITQDDAE AGTFEPMAVQEDAEEVLGANGLSSHGTHLDIVDHEASTKTEDSNDCPSVNPPELESEQQTSGTL FDTSEPENSLEALSPQDDEDVVRTPVHVSRTVESTSRQFPEYGTRSSEILQRAPCTLDGPKVPS TTNGIPPSSDLGSHWVPGFHANKKTNVKHHLILNPSSAPIDSEHILGVEGRLNSLLDVNGGISK RKVIDACTKGNLGRFINHSCSPNCRTEKWMVNGEVCIGIFAMRNIKKGEELTFDYNYVRVSGAA PQKCFCGTAKCRGYIGGDISGADMITQDDAEAGTFEPMAVQEDAEEVLGANGLSSHGTHLDIVD HEASTKTEDSNDCPSVNPPELESEQQTSGTLFDTSEPENSLEALSPQDDEDVVRTPVHVSRTVE STSRQFPEYGTRSSEILQRAPCTLDGPKVPSTTNGIPPSSDLGSHWVPGFHANKKTNVKHHLIL NPSSAPIDSEHILGVEGRLNSLLDVNGGISKRK(+) MIDEPAQVSFSTSIYHFSFANTSIYIKQAVQSSFNSQNVLTVNRS(-) MNRPKFPLVQASITFRLLIPPFTSSKLFNLPSTPKMCSLSIGADDGFRIK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os02g0554000_circ_g.4

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