Plant Circular RNA Database

Detail information of Os03g0333100_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os03g0333100_circ_g.4
					
						ID in PlantcircBase
						osa_circ_019651
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 12300184-12302189  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0333100						
					
						Parent gene annotation
						
							Protein of unknown function DUF663 domain containing protein. (O
s03t0333100-01);Hypothetical conserved gene. (Os03t0333100-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0333100_circ_g.3 Os03g0333100_circ_g.5 						
					
						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
						Os03t0333100-01:3
Os03t0333100-02:3

General Information
CircRNA Name	Os03g0333100_circ_g.4
ID in PlantcircBase	osa_circ_019651
Alias	NA
Organism	Oryza sativa
Position	chr3: 12300184-12302189 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0333100
Parent gene annotation	Protein of unknown function DUF663 domain containing protein. (O s03t0333100-01);Hypothetical conserved gene. (Os03t0333100-02)
Parent gene strand	+
Alternative splicing	Os03g0333100_circ_g.3 Os03g0333100_circ_g.5
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	Os03t0333100-01:3 Os03t0333100-02:3

			
						 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  
						
							TTGTAGGGTGCGGAAGAAGATGACGTTGACAGTGAAAATTCTGGTGATGACCAGTTATCTGAAG
GTTCCGCAGATGACAGTGAAGAATCACTTGATTCAGgtacatatcacaggggcaggtgatttta
gcttgtctggggtaacaagtttggcagatccttgcccattgccatcagctgcaaagaagagagg
actacgtg

									
								

					

						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: 718
Transcript exons: 12300184-12300421,12301056-12301441,12302096-12302189
GTACATATCACAGGGGCAGGTGATTTTAGCTTGTCTGGGGTAACAAGTTTGGCAGATCCTTGCC
CATTGCCATCAGCTGCAAAGAAGAGAGGACTACGTGACAAGGAAAAGCTGTTCTACGCGCCAAT
GTCTGGCCTTGGTGATCTACTGTATGACACAGATGCAGTTTATATAAACATCAATCCTCATCTT
GTTCAGTTCTCAAAGACTGGTGAGAATGATGCATCTAAAAAGCAAGGGAAAGGACAGGATGTTG
GTGTAACCCTAGTAAAAACACTTCAGAACCCCAGATATTCCCTTAATGAAAAGTTGGATCAGAG
TTTTATAAATTTATTTGGTAGAAAGCCTGCTGCTCAGTCCGAAGACATCTCTGGCAACCAGAAT
GATCAGGGAGATGCTAATATTTTGGAAGAAGCAGATGGTAATAACATATGCAACGCAAACACAT
TGGAGAGCAATGATCATTCTTATTCTGAGTGCTCCAGCGATAGTGAACATGATAATGATGAAGC
AACTCAGCAAAATGACCATGAAGTTGGCTTGAGAGAAGAGGTGGAATTTTGCAATGGAAGGATG
AGGAGAAAAGCTGTATCAGCTAATTTTAAAGATGATGACGATGATGAGGGTGCGGAAGAAGATG
ACGTTGACAGTGAAAATTCTGGTGATGACCAGTTATCTGAAGGTTCCGCAGATGACAGTGAAGA
ATCACTTGATTCAG
						
					

						Genomic sequence
						
							GTACATATCACAGGGGCAGGTGATTTTAGCTTGTCTGGGGTAACAAGTTTGGCAGATCCTTGCC
CATTGCCATCAGCTGCAAAGAAGAGAGGACTACGTGACAAGGAAAAGCTGTTCTACGCGCCAAT
GTCTGGCCTTGGTGATCTACTGTATGACACAGATGCAGTTTATATAAACATCAATCCTCATCTT
GTTCAGTTCTCAAAGACTGGTGAGAATGATGCATCTAAAAAGCAAGGTATGTTTAAAGTATAAA
CCATTCATAATGATACTAGGCACCTCATTCCTTCATCCTCTTTGCATTTGAAGTTTCTTGAAGT
ATGTTGTTTAGGACGATAAGGTCCTGAGGACTGTGCAATGCACAAACATACTTTAATAGACAAG
ACCCATCAAGTTGAAAACTCACTTTACTTATGTTTTCTTGTCTATTTATTTCTTTGGTAGAGTG
GTGTGCAACCTGAAAGAATGTTTTGGCGTTGAAAGTTTTTCAGTGTTTTCTGAGCTTGGATTGC
AAAGCAAGGCACACACTGTTACTGTTACACCTGTTCCTTGTGCCTGGAAGAGATTTTAGCAAAT
AAAAGAAAATCTAAGAGTTAGATCTTTAACAGATTATTTGTCTATTTACCTTTATAGTATCTGT
CCGGTTTCATATATTCACATTTATCATGCAATTTTAGCTTGCCATCAAAACACAAGTAGGAATA
TGTATCAGATCTATCATAGAAGAACTTCCTACAATAGATGCACGCTTGTGCTTGAATGGAAGTA
ATTTTAGTTTTGTTGGCTAGAATCCTGCTCTAGCTTTTTTTTTGTCTTCTTTATGTATGGCCAT
CCTTTGTTGTTTGCTAGATTACTGACTTATCATCATACAGGGAAAGGACAGGATGTTGGTGTAA
CCCTAGTAAAAACACTTCAGAACCCCAGATATTCCCTTAATGAAAAGTTGGATCAGAGTTTTAT
AAATTTATTTGGTAGAAAGCCTGCTGCTCAGTCCGAAGACATCTCTGGCAACCAGAATGATCAG
GGAGATGCTAATATTTTGGAAGAAGCAGATGGTAATAACATATGCAACGCAAACACATTGGAGA
GCAATGATCATTCTTATTCTGAGTGCTCCAGCGATAGTGAACATGATAATGATGAAGCAACTCA
GCAAAATGACCATGAAGTTGGCTTGAGAGAAGAGGTGGAATTTTGCAATGGAAGGATGAGGAGA
AAAGCTGTATCAGCTAATTTTAAAGATGATGACGATGATGAGGTTTTTACCATTTTCCTTTGTT
CTTATTAATTAATAGTTCTCTTGCTCTCACATTCTTTTTTTTTTCTTGCTCTCTTACTCTTAAG
TTCCCTGTTTAGTTTTGTTTTGCCCGATGTAATCCATCCAGGAAACACATGGCTTTGCATCACT
ACTCCAGACCAAGAAATTTGACATAAAACACTATGCAGCTGAATAACATTATGTTAGCACAGCT
ATTGGCCATTCCTAAGTCACCAGTTGTAGTTCATGTCTCAACATCATTTGAAGTGTAGAACAAT
GATATTTTTTGAATACTTATCATACATAAATATTAATGTTAAATATTTACGTTAATATTTAACA
CTAAATATTTACTTACAATATCTAGTTTGTTTTAGCACCGTATTAACATAAATATTTGCAATGT
GTACTTTGATTTCTAGTACAACTCACTAATATTACTTACAGATACATATTTGGAATAGTTAGAA
GAACACGTTTTATTGTAACCCTTGACTTCTAGCACAGCTTCTATTCGCCTGGTATACTTCCAAA
TTACCTCATTGCGATGAACCATGAACCATGATGTGGTACTTTGCTTTTAATTCTTTTACATGTC
TACAGATTTTCAATTTCAAGCTTTTAAAGGTATTTCAACCTTGGTCTACCTTGTAGGGTGCGGA
AGAAGATGACGTTGACAGTGAAAATTCTGGTGATGACCAGTTATCTGAAGGTTCCGCAGATGAC
AGTGAAGAATCACTTGATTCAG
						
					

			
		

Sequences
Splice junction sequence	TTGTAGGGTGCGGAAGAAGATGACGTTGACAGTGAAAATTCTGGTGATGACCAGTTATCTGAAG GTTCCGCAGATGACAGTGAAGAATCACTTGATTCAGgtacatatcacaggggcaggtgatttta gcttgtctggggtaacaagtttggcagatccttgcccattgccatcagctgcaaagaagagagg actacgtg
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: 718 Transcript exons: 12300184-12300421,12301056-12301441,12302096-12302189 GTACATATCACAGGGGCAGGTGATTTTAGCTTGTCTGGGGTAACAAGTTTGGCAGATCCTTGCC CATTGCCATCAGCTGCAAAGAAGAGAGGACTACGTGACAAGGAAAAGCTGTTCTACGCGCCAAT GTCTGGCCTTGGTGATCTACTGTATGACACAGATGCAGTTTATATAAACATCAATCCTCATCTT GTTCAGTTCTCAAAGACTGGTGAGAATGATGCATCTAAAAAGCAAGGGAAAGGACAGGATGTTG GTGTAACCCTAGTAAAAACACTTCAGAACCCCAGATATTCCCTTAATGAAAAGTTGGATCAGAG TTTTATAAATTTATTTGGTAGAAAGCCTGCTGCTCAGTCCGAAGACATCTCTGGCAACCAGAAT GATCAGGGAGATGCTAATATTTTGGAAGAAGCAGATGGTAATAACATATGCAACGCAAACACAT TGGAGAGCAATGATCATTCTTATTCTGAGTGCTCCAGCGATAGTGAACATGATAATGATGAAGC AACTCAGCAAAATGACCATGAAGTTGGCTTGAGAGAAGAGGTGGAATTTTGCAATGGAAGGATG AGGAGAAAAGCTGTATCAGCTAATTTTAAAGATGATGACGATGATGAGGGTGCGGAAGAAGATG ACGTTGACAGTGAAAATTCTGGTGATGACCAGTTATCTGAAGGTTCCGCAGATGACAGTGAAGA ATCACTTGATTCAG
Genomic sequence	GTACATATCACAGGGGCAGGTGATTTTAGCTTGTCTGGGGTAACAAGTTTGGCAGATCCTTGCC CATTGCCATCAGCTGCAAAGAAGAGAGGACTACGTGACAAGGAAAAGCTGTTCTACGCGCCAAT GTCTGGCCTTGGTGATCTACTGTATGACACAGATGCAGTTTATATAAACATCAATCCTCATCTT GTTCAGTTCTCAAAGACTGGTGAGAATGATGCATCTAAAAAGCAAGGTATGTTTAAAGTATAAA CCATTCATAATGATACTAGGCACCTCATTCCTTCATCCTCTTTGCATTTGAAGTTTCTTGAAGT ATGTTGTTTAGGACGATAAGGTCCTGAGGACTGTGCAATGCACAAACATACTTTAATAGACAAG ACCCATCAAGTTGAAAACTCACTTTACTTATGTTTTCTTGTCTATTTATTTCTTTGGTAGAGTG GTGTGCAACCTGAAAGAATGTTTTGGCGTTGAAAGTTTTTCAGTGTTTTCTGAGCTTGGATTGC AAAGCAAGGCACACACTGTTACTGTTACACCTGTTCCTTGTGCCTGGAAGAGATTTTAGCAAAT AAAAGAAAATCTAAGAGTTAGATCTTTAACAGATTATTTGTCTATTTACCTTTATAGTATCTGT CCGGTTTCATATATTCACATTTATCATGCAATTTTAGCTTGCCATCAAAACACAAGTAGGAATA TGTATCAGATCTATCATAGAAGAACTTCCTACAATAGATGCACGCTTGTGCTTGAATGGAAGTA ATTTTAGTTTTGTTGGCTAGAATCCTGCTCTAGCTTTTTTTTTGTCTTCTTTATGTATGGCCAT CCTTTGTTGTTTGCTAGATTACTGACTTATCATCATACAGGGAAAGGACAGGATGTTGGTGTAA CCCTAGTAAAAACACTTCAGAACCCCAGATATTCCCTTAATGAAAAGTTGGATCAGAGTTTTAT AAATTTATTTGGTAGAAAGCCTGCTGCTCAGTCCGAAGACATCTCTGGCAACCAGAATGATCAG GGAGATGCTAATATTTTGGAAGAAGCAGATGGTAATAACATATGCAACGCAAACACATTGGAGA GCAATGATCATTCTTATTCTGAGTGCTCCAGCGATAGTGAACATGATAATGATGAAGCAACTCA GCAAAATGACCATGAAGTTGGCTTGAGAGAAGAGGTGGAATTTTGCAATGGAAGGATGAGGAGA AAAGCTGTATCAGCTAATTTTAAAGATGATGACGATGATGAGGTTTTTACCATTTTCCTTTGTT CTTATTAATTAATAGTTCTCTTGCTCTCACATTCTTTTTTTTTTCTTGCTCTCTTACTCTTAAG TTCCCTGTTTAGTTTTGTTTTGCCCGATGTAATCCATCCAGGAAACACATGGCTTTGCATCACT ACTCCAGACCAAGAAATTTGACATAAAACACTATGCAGCTGAATAACATTATGTTAGCACAGCT ATTGGCCATTCCTAAGTCACCAGTTGTAGTTCATGTCTCAACATCATTTGAAGTGTAGAACAAT GATATTTTTTGAATACTTATCATACATAAATATTAATGTTAAATATTTACGTTAATATTTAACA CTAAATATTTACTTACAATATCTAGTTTGTTTTAGCACCGTATTAACATAAATATTTGCAATGT GTACTTTGATTTCTAGTACAACTCACTAATATTACTTACAGATACATATTTGGAATAGTTAGAA GAACACGTTTTATTGTAACCCTTGACTTCTAGCACAGCTTCTATTCGCCTGGTATACTTCCAAA TTACCTCATTGCGATGAACCATGAACCATGATGTGGTACTTTGCTTTTAATTCTTTTACATGTC TACAGATTTTCAATTTCAAGCTTTTAAAGGTATTTCAACCTTGGTCTACCTTGTAGGGTGCGGA AGAAGATGACGTTGACAGTGAAAATTCTGGTGATGACCAGTTATCTGAAGGTTCCGCAGATGAC AGTGAAGAATCACTTGATTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.223828909

Conservation Information
Conserved circRNAs	NA
PMCS	0.223828909

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12300311-12300203(+)
12301426-12300203(+)
12300191-12301421(-)
						
						Potential amino acid sequence
						
							MSGLGDLLYDTDAVYININPHLVQFSKTGENDASKKQGKGQDVGVTLVKTLQNPRYSLNEKLDQ
SFINLFGRKPAAQSEDISGNQNDQGDANILEEADGNNICNANTLESNDHSYSECSSDSEHDNDE
ATQQNDHEVGLREEVEFCNGRMRRKAVSANFKDDDDDEGAEEDDVDSENSGDDQLSEGSADDSE
ESLDSGTYHRGR*(+)
MMTMMRVRKKMTLTVKILVMTSYLKVPQMTVKNHLIQVHITGAGDFSLSGVTSLADPCPLPSAA
KKRGLRDKEKLFYAPMSGLGDLLYDTDAVYININPHLVQFSKTGENDASKKQGKGQDVGVTLVK
TLQNPRYSLNEKLDQSFINLFGRKPAAQSEDISGNQNDQGDANILEEADGNNICNANTLESNDH
SYSECSSDSEHDNDEATQQNDHEVGLREEVEFCNGRMRRKAVSANFKDDDDDEGAEEDDVDSEN
SGDDQLSEGSADDSEESLDSGTYHRGR*(+)
MYLNQVILHCHLRNLQITGHHQNFHCQRHLLPHPHHRHHL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12300311-12300203(+) 12301426-12300203(+) 12300191-12301421(-)
Potential amino acid sequence	MSGLGDLLYDTDAVYININPHLVQFSKTGENDASKKQGKGQDVGVTLVKTLQNPRYSLNEKLDQ SFINLFGRKPAAQSEDISGNQNDQGDANILEEADGNNICNANTLESNDHSYSECSSDSEHDNDE ATQQNDHEVGLREEVEFCNGRMRRKAVSANFKDDDDDEGAEEDDVDSENSGDDQLSEGSADDSE ESLDSGTYHRGR(+) MMTMMRVRKKMTLTVKILVMTSYLKVPQMTVKNHLIQVHITGAGDFSLSGVTSLADPCPLPSAA KKRGLRDKEKLFYAPMSGLGDLLYDTDAVYININPHLVQFSKTGENDASKKQGKGQDVGVTLVK TLQNPRYSLNEKLDQSFINLFGRKPAAQSEDISGNQNDQGDANILEEADGNNICNANTLESNDH SYSECSSDSEHDNDEATQQNDHEVGLREEVEFCNGRMRRKAVSANFKDDDDDEGAEEDDVDSEN SGDDQLSEGSADDSEESLDSGTYHRGR(+) MYLNQVILHCHLRNLQITGHHQNFHCQRHLLPHPHHRHHL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0333100_circ_g.4

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