Plant Circular RNA Database

Detail information of Os05g0490200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0490200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_028312
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 24082292-24083786  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							Os05g0490200						
					
						Parent gene annotation
						
							Protein of unknown function DUF1692 domain containing protein. (
Os05t0490200-01);Similar to serologically defined breast cancer 
antigen NY-BR-84. (Os05t0490200-02);Similar to cDNA clone:J03307
2O04, full insert sequence. (Os05t0490200-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0490200_circ_g.1 Os05g0490200_circ_g.3 Os05g0490200_circ_g.4 Os05g0490200_circ_g.5 Os05g0490200_circ_g.6 						
					
						Support reads
						2
					
						Tissues
						seed
					
						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
						Os05t0490200-02:5
Os05t0490200-01:5

General Information
CircRNA Name	Os05g0490200_circ_g.2
ID in PlantcircBase	osa_circ_028312
Alias	NA
Organism	Oryza sativa
Position	chr5: 24082292-24083786 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	Os05g0490200
Parent gene annotation	Protein of unknown function DUF1692 domain containing protein. ( Os05t0490200-01);Similar to serologically defined breast cancer antigen NY-BR-84. (Os05t0490200-02);Similar to cDNA clone:J03307 2O04, full insert sequence. (Os05t0490200-03)
Parent gene strand	+
Alternative splicing	Os05g0490200_circ_g.1 Os05g0490200_circ_g.3 Os05g0490200_circ_g.4 Os05g0490200_circ_g.5 Os05g0490200_circ_g.6
Support reads	2
Tissues	seed
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	Os05t0490200-02:5 Os05t0490200-01:5

			
						 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  
						
							ACTTCAGTCGGATGAACAATGCTGTAATTCTTGTGAAGAAGTTAGGGAAGCATATAAGAAGAAA
GGATGGGCCCTTACAAATCCTGATCTGATTGACCAGggtcatatttttattcagcaacagagac
taagctagtggttgacacatcaagaggggaaaggctacgagttaatgttagtatttatttgatt
gttaaact

									
								

					

						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: 413
Transcript exons: 24082292-24082365,24082529-24082612,24082693-24082773,24
083495-24083575,24083694-24083786
GGTCATATTTTTATTCAGCAACAGAGACTAAGCTAGTGGTTGACACATCAAGAGGGGAAAGGCT
ACGAGTTAATTTTGACGTAACTTTTCCGAGTGTTCCCTGCACCCTTCTCAGTGTTGATACCATG
GATATTAGTGGAGAGCAGCATCATGACATTAGGCATGATATAGAAAAGAGGCGATTAGACGCAC
ATGGTAATGTCATTGAGGCTAGAAAAGAAGGCATTGGTGGAGCAAAGATAGAGAGTCCATTGCA
AAAACATGGAGGAAGACTCAGCAAAGGTGAAGAATACTGTGGCACGTGTTATGGTGCTGAGGAG
TCGGATGAACAATGCTGTAATTCTTGTGAAGAAGTTAGGGAAGCATATAAGAAGAAAGGATGGG
CCCTTACAAATCCTGATCTGATTGACCAG
						
					

						Genomic sequence
						
							GGTCATATTTTTATTCAGCAACAGAGACTAAGCTAGTGGTTGACACATCAAGAGGGGAAAGGCT
ACGAGTTAATGTTAGTATTTATTTGATTGTTAAACTAGATTCATGTCATATGTTGTACTTCTAT
TGTTTCTAGTATAAAATGCATACTCTTTTGTATGCTATTCACTTACAATCTGTTGGGAACTAGG
TGTGAATATTTCCTGTTAACTTCTAATGCTAAAACTGTTTTGCAGTTTGACGTAACTTTTCCGA
GTGTTCCCTGCACCCTTCTCAGTGTTGATACCATGGATATTAGTGGAGAGCAGCATCATGACAT
TGTACGCACTTATGCTATATCATCTTCTAATTCTTAGTATGTGTTGATTTGTCCATCTTATTAT
TCCATTGTTTGTTGTAGAGGCATGATATAGAAAAGAGGCGATTAGACGCACATGGTAATGTCAT
TGAGGCTAGAAAAGAAGGCATTGGTGGAGCAAAGGTTGGTGATCACTGCTTTAGTTACACTTTG
AGGTTGAGCTCATTAATAAACTAAGTGATTCCCCGCGCTTTGCTGCGGGAATTACCAAACAATT
CTCAATATATATTTTTCGACAATCAAGATAGCAGTAAAAAGGAAAAAAATAATGAAACATCAGG
GTTTATCGGTACTTATCATGAAACAAACAAATGATATCCGCGCTTTAATGTGAAACATATAACA
TATTATAAAAATGATAGATAGATTTGTTAAACTATTGTGCAAATGATGTGAGGGGTGGTGATTA
GATATGCTTGCATGTTGATTTGTAGAATTAAATAAATTGCAGATGATGTTGTATGCTTGCATGT
CTTAAATATGTAATAATTGCTAGTGGGTGATGATGTGACATTGTTGCATGTTGAGCTTTAGACT
TAGTGAGCTATAACTTTATAGAAAGTATAGATTTAAAATATCGAACTAGAGTCGTCTGTACAAA
TTATTCTTGGTGACCTAGTATATTTCCCTACGATGTACAGCATTGTAGTTGTTGGAAAACAAGT
GGAAATTTAAGTACTTAAATATTTTTATTGTCAATACCTTATTTTTTACATGAGGACATAACGT
GAGCATAGCATGTATAATATTACAGATTAGAATATAACCGTTTGTGGACTGTCCATATGCTGAA
AACATACTCCAGTATCCACTTAAAACATTTCCTTCTTGCTGCCTTGTATAGATAGAGAGTCCAT
TGCAAAAACATGGAGGAAGACTCAGCAAAGGTGAAGAATACTGTGGCACGTGTTATGGTGCTGA
GGAGGTATGCACAATCTTTTCTAATGGGAATGTATTTTGTTTATACCTCTTATTATTTCAGCTT
TCTGAACTTACCTTGTTCTTTGTTACATTCTAACTCCGGATGGCTTTCTGGACTTCAGTCGGAT
GAACAATGCTGTAATTCTTGTGAAGAAGTTAGGGAAGCATATAAGAAGAAAGGATGGGCCCTTA
CAAATCCTGATCTGATTGACCAG
						
					

			
		

Sequences
Splice junction sequence	ACTTCAGTCGGATGAACAATGCTGTAATTCTTGTGAAGAAGTTAGGGAAGCATATAAGAAGAAA GGATGGGCCCTTACAAATCCTGATCTGATTGACCAGggtcatatttttattcagcaacagagac taagctagtggttgacacatcaagaggggaaaggctacgagttaatgttagtatttatttgatt gttaaact
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: 413 Transcript exons: 24082292-24082365,24082529-24082612,24082693-24082773,24 083495-24083575,24083694-24083786 GGTCATATTTTTATTCAGCAACAGAGACTAAGCTAGTGGTTGACACATCAAGAGGGGAAAGGCT ACGAGTTAATTTTGACGTAACTTTTCCGAGTGTTCCCTGCACCCTTCTCAGTGTTGATACCATG GATATTAGTGGAGAGCAGCATCATGACATTAGGCATGATATAGAAAAGAGGCGATTAGACGCAC ATGGTAATGTCATTGAGGCTAGAAAAGAAGGCATTGGTGGAGCAAAGATAGAGAGTCCATTGCA AAAACATGGAGGAAGACTCAGCAAAGGTGAAGAATACTGTGGCACGTGTTATGGTGCTGAGGAG TCGGATGAACAATGCTGTAATTCTTGTGAAGAAGTTAGGGAAGCATATAAGAAGAAAGGATGGG CCCTTACAAATCCTGATCTGATTGACCAG
Genomic sequence	GGTCATATTTTTATTCAGCAACAGAGACTAAGCTAGTGGTTGACACATCAAGAGGGGAAAGGCT ACGAGTTAATGTTAGTATTTATTTGATTGTTAAACTAGATTCATGTCATATGTTGTACTTCTAT TGTTTCTAGTATAAAATGCATACTCTTTTGTATGCTATTCACTTACAATCTGTTGGGAACTAGG TGTGAATATTTCCTGTTAACTTCTAATGCTAAAACTGTTTTGCAGTTTGACGTAACTTTTCCGA GTGTTCCCTGCACCCTTCTCAGTGTTGATACCATGGATATTAGTGGAGAGCAGCATCATGACAT TGTACGCACTTATGCTATATCATCTTCTAATTCTTAGTATGTGTTGATTTGTCCATCTTATTAT TCCATTGTTTGTTGTAGAGGCATGATATAGAAAAGAGGCGATTAGACGCACATGGTAATGTCAT TGAGGCTAGAAAAGAAGGCATTGGTGGAGCAAAGGTTGGTGATCACTGCTTTAGTTACACTTTG AGGTTGAGCTCATTAATAAACTAAGTGATTCCCCGCGCTTTGCTGCGGGAATTACCAAACAATT CTCAATATATATTTTTCGACAATCAAGATAGCAGTAAAAAGGAAAAAAATAATGAAACATCAGG GTTTATCGGTACTTATCATGAAACAAACAAATGATATCCGCGCTTTAATGTGAAACATATAACA TATTATAAAAATGATAGATAGATTTGTTAAACTATTGTGCAAATGATGTGAGGGGTGGTGATTA GATATGCTTGCATGTTGATTTGTAGAATTAAATAAATTGCAGATGATGTTGTATGCTTGCATGT CTTAAATATGTAATAATTGCTAGTGGGTGATGATGTGACATTGTTGCATGTTGAGCTTTAGACT TAGTGAGCTATAACTTTATAGAAAGTATAGATTTAAAATATCGAACTAGAGTCGTCTGTACAAA TTATTCTTGGTGACCTAGTATATTTCCCTACGATGTACAGCATTGTAGTTGTTGGAAAACAAGT GGAAATTTAAGTACTTAAATATTTTTATTGTCAATACCTTATTTTTTACATGAGGACATAACGT GAGCATAGCATGTATAATATTACAGATTAGAATATAACCGTTTGTGGACTGTCCATATGCTGAA AACATACTCCAGTATCCACTTAAAACATTTCCTTCTTGCTGCCTTGTATAGATAGAGAGTCCAT TGCAAAAACATGGAGGAAGACTCAGCAAAGGTGAAGAATACTGTGGCACGTGTTATGGTGCTGA GGAGGTATGCACAATCTTTTCTAATGGGAATGTATTTTGTTTATACCTCTTATTATTTCAGCTT TCTGAACTTACCTTGTTCTTTGTTACATTCTAACTCCGGATGGCTTTCTGGACTTCAGTCGGAT GAACAATGCTGTAATTCTTGTGAAGAAGTTAGGGAAGCATATAAGAAGAAAGGATGGGCCCTTA CAAATCCTGATCTGATTGACCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.137146388

Conservation Information
Conserved circRNAs	NA
PMCS	0.137146388

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24082581-24082324(+)
24082299-24082719(-)
						
						Potential amino acid sequence
						
							MDISGEQHHDIRHDIEKRRLDAHGNVIEARKEGIGGAKIESPLQKHGGRLSKGEEYCGTCYGAE
ESDEQCCNSCEEVREAYKKKGWALTNPDLIDQGHIFIQQQRLS*(+)
MTLVNQIRICKGPSFLLICFPNFFTRITALFIRLLSTITRATVFFTFAESSSMFLQWTLYLCST
NAFFSSLNDITMCV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24082581-24082324(+) 24082299-24082719(-)
Potential amino acid sequence	MDISGEQHHDIRHDIEKRRLDAHGNVIEARKEGIGGAKIESPLQKHGGRLSKGEEYCGTCYGAE ESDEQCCNSCEEVREAYKKKGWALTNPDLIDQGHIFIQQQRLS(+) MTLVNQIRICKGPSFLLICFPNFFTRITALFIRLLSTITRATVFFTFAESSSMFLQWTLYLCST NAFFSSLNDITMCV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0490200_circ_g.2

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