Plant Circular RNA Database

Detail information of Os03g0251500_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0251500_circ_g.3
					
						ID in PlantcircBase
						osa_circ_018877
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 7985284-7987199  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0251500						
					
						Parent gene annotation
						
							Similar to T-cell immune regulator 1 transcript variant 3 (Fragm
ent). (Os03t0251500-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0251500_circ_g.2 						
					
						Support reads
						1
					
						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
						Os03t0251500-01:5

General Information
CircRNA Name	Os03g0251500_circ_g.3
ID in PlantcircBase	osa_circ_018877
Alias	NA
Organism	Oryza sativa
Position	chr3: 7985284-7987199 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0251500
Parent gene annotation	Similar to T-cell immune regulator 1 transcript variant 3 (Fragm ent). (Os03t0251500-01)
Parent gene strand	+
Alternative splicing	Os03g0251500_circ_g.2
Support reads	1
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	Os03t0251500-01:5

			
						 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  
						
							TTTCTTATTTGCTGTCATGTTTGGAGATTGGGGACATGGAATTTGCATATTGGTTTCGACACTC
TATCTGATAATCCGAGAGAAGAAATTTGCTTCACAGgttgccaaaaatgcatttgttattttct
actctggggatagagcaaaagccaaaattctgaagatatgtgatgcgttcaacgcaaatcgcta
cccatttc

									
								

					

						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: 657
Transcript exons: 7985284-7985421,7985873-7985980,7986096-7986203,7986316-
7986464,7987046-7987199
GTTGCCAAAAATGCATTTGTTATTTTCTACTCTGGGGATAGAGCAAAAGCCAAAATTCTGAAGA
TATGTGATGCGTTCAACGCAAATCGCTACCCATTTCCAGAAGATGTTGCTAGACAATTACATGC
TGTTCAGGAGGTATCTGCAAAGATATCAGAGTTAAAGGCAACAATTGACATGGGATTAGCACAT
CGTGACAATATATTGAAAAATATCGCGTCTGAGTTTGAGAATTGGAACCGTCTGGCAAATAAGG
AAAAAATAATTTACCACACTTTGAACATGTTGAGTGTTGATGTGACAAAGAAATGCTTAGTTGG
TGAGGGCTGGAGTCCAGTTTTTGCAACAACTCAGATCCAAGATGCGCTCCAGCGAGCTACTCTT
GATAGCAAATCCCAAGTTGGTTCAATTTTTCAAGTTCTCAACACAACAGAATCTCCCCCGACAT
ATTTCCAGACAAATAAGTTCACTTCGGCTTTCCAGGAAATTGTTGATGCATACGGGATAGCCAA
ATATCAAGAAGCAAACCCTGGTGTATTCACTATTGTCACTTTTCCTTTCTTATTTGCTGTCATG
TTTGGAGATTGGGGACATGGAATTTGCATATTGGTTTCGACACTCTATCTGATAATCCGAGAGA
AGAAATTTGCTTCACAG
						
					

						Genomic sequence
						
							GTTGCCAAAAATGCATTTGTTATTTTCTACTCTGGGGATAGAGCAAAAGCCAAAATTCTGAAGA
TATGTGATGCGTTCAACGCAAATCGCTACCCATTTCCAGAAGATGTTGCTAGACAATTACATGC
TGTTCAGGAGGTCAGGTCTTGGAAATGTGATTTGTTAATATTCTTTGATGAAATTCTTTCTAGT
ATTTCGAAATTTAGATATAGTCCTGAATTGCTTTCAGAAGGTAGTGAGGATGCCAACCGTTGAG
AGAATCATCTGCACGAGTTGCCCTTTATGGACATTCTTGTGCTTTGCTTGTGATATGTCCAATG
TTACCATCCCTATTCTGATGTCACTGCTGTCATTTCAATTTCGAATTTGAAAAATGTTAATTAA
TTATTATAGATTTATAATAGCTAGACTTTGTTCTGTGCCTTCCAATCATTACTTTTGCTGTTGG
TGACTAATGAAAATGATTTGCTGCTATTGCATCTTGTTTGCACCATAAGGAGATATGTCATTGG
GAGAAACTTGTTTTGCAGTTGTACTACTATGAATTTCAGTCAATAAACATATAAAGTCTATGCT
TATGAATTTACAGGTATCTGCAAAGATATCAGAGTTAAAGGCAACAATTGACATGGGATTAGCA
CATCGTGACAATATATTGAAAAATATCGCGTCTGAGTTTGAGAATTGGAACCGTCTGGTAAGCT
ATCCTCTTATGTGATAAATTCCATATGTTAGAAAATTCCGAAATCCACCAGTCAGGTCATTATT
TCAGTTCTATATATATGATACTAATTAGCATACAAATGCTCCAGGCAAATAAGGAAAAAATAAT
TTACCACACTTTGAACATGTTGAGTGTTGATGTGACAAAGAAATGCTTAGTTGGTGAGGGCTGG
AGTCCAGTTTTTGCAACAACTCAGGTAATTGATACACCACCCTGGTGCTAACAATTTATTAGCC
TACTGTTTCCATTTGTTTATTTGGGAGATTATTCTTCATGTGATCTCAATGATTTACAACTTTA
TTTTGCAGATCCAAGATGCGCTCCAGCGAGCTACTCTTGATAGCAAATCCCAAGTTGGTTCAAT
TTTTCAAGTTCTCAACACAACAGAATCTCCCCCGACATATTTCCAGACAAATAAGTTCACTTCG
GCTTTCCAGGAAATTGTTGATGCATACGGGTATGTTTCAGAGGGCTCTGAGATGCTACTTTTGG
TTTCTCTTTTGGCTTTGGAACTGAAAATAATATATTTTCTTGTGGGTTGTTCCAAGTTGTTTAT
AGCACCATGGGATATGAGACTTCTATTATTGTCCCCCCGCTTTTGGTTTCATCTCAGAAATGAT
GCTCTTTTCACCATTCTTTTGCTGGACTCACTATTTTCATGTGAAATCGACAAACTTTTGGTTC
GCTTAAAGAAAAGAAAGGAAAATTGCCATAATTCACTGTTCCTCTTCAATAGGCAAAGACATGC
CATCATTCCCTGTTATTTGCTCCTCAATTGTGCATTCTAAGTGAAACATTTCCTTTTTTGTTTC
CCTTTTGTGGACATGTCTACCACGTTGAAATCATTGTGTTCATATTGTCAAAGAAGCACTTAAA
CTTGCAATAGGAATTTCCAGAATTTTTGTGCTTATGGGAAATATATTATTTTATCTGAATAAAA
TTAGCATTGACTCCTGAAAAATCAATAAAGAGCTTGCTGTTTGTTTGGGCCAAATGGTTTAGTT
AGGAACTGCTAACTTTGTATTACATCTGATACAGGATAGCCAAATATCAAGAAGCAAACCCTGG
TGTATTCACTATTGTCACTTTTCCTTTCTTATTTGCTGTCATGTTTGGAGATTGGGGACATGGA
ATTTGCATATTGGTTTCGACACTCTATCTGATAATCCGAGAGAAGAAATTTGCTTCACAG
						
					

			
		

Sequences
Splice junction sequence	TTTCTTATTTGCTGTCATGTTTGGAGATTGGGGACATGGAATTTGCATATTGGTTTCGACACTC TATCTGATAATCCGAGAGAAGAAATTTGCTTCACAGgttgccaaaaatgcatttgttattttct actctggggatagagcaaaagccaaaattctgaagatatgtgatgcgttcaacgcaaatcgcta cccatttc
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: 657 Transcript exons: 7985284-7985421,7985873-7985980,7986096-7986203,7986316- 7986464,7987046-7987199 GTTGCCAAAAATGCATTTGTTATTTTCTACTCTGGGGATAGAGCAAAAGCCAAAATTCTGAAGA TATGTGATGCGTTCAACGCAAATCGCTACCCATTTCCAGAAGATGTTGCTAGACAATTACATGC TGTTCAGGAGGTATCTGCAAAGATATCAGAGTTAAAGGCAACAATTGACATGGGATTAGCACAT CGTGACAATATATTGAAAAATATCGCGTCTGAGTTTGAGAATTGGAACCGTCTGGCAAATAAGG AAAAAATAATTTACCACACTTTGAACATGTTGAGTGTTGATGTGACAAAGAAATGCTTAGTTGG TGAGGGCTGGAGTCCAGTTTTTGCAACAACTCAGATCCAAGATGCGCTCCAGCGAGCTACTCTT GATAGCAAATCCCAAGTTGGTTCAATTTTTCAAGTTCTCAACACAACAGAATCTCCCCCGACAT ATTTCCAGACAAATAAGTTCACTTCGGCTTTCCAGGAAATTGTTGATGCATACGGGATAGCCAA ATATCAAGAAGCAAACCCTGGTGTATTCACTATTGTCACTTTTCCTTTCTTATTTGCTGTCATG TTTGGAGATTGGGGACATGGAATTTGCATATTGGTTTCGACACTCTATCTGATAATCCGAGAGA AGAAATTTGCTTCACAG
Genomic sequence	GTTGCCAAAAATGCATTTGTTATTTTCTACTCTGGGGATAGAGCAAAAGCCAAAATTCTGAAGA TATGTGATGCGTTCAACGCAAATCGCTACCCATTTCCAGAAGATGTTGCTAGACAATTACATGC TGTTCAGGAGGTCAGGTCTTGGAAATGTGATTTGTTAATATTCTTTGATGAAATTCTTTCTAGT ATTTCGAAATTTAGATATAGTCCTGAATTGCTTTCAGAAGGTAGTGAGGATGCCAACCGTTGAG AGAATCATCTGCACGAGTTGCCCTTTATGGACATTCTTGTGCTTTGCTTGTGATATGTCCAATG TTACCATCCCTATTCTGATGTCACTGCTGTCATTTCAATTTCGAATTTGAAAAATGTTAATTAA TTATTATAGATTTATAATAGCTAGACTTTGTTCTGTGCCTTCCAATCATTACTTTTGCTGTTGG TGACTAATGAAAATGATTTGCTGCTATTGCATCTTGTTTGCACCATAAGGAGATATGTCATTGG GAGAAACTTGTTTTGCAGTTGTACTACTATGAATTTCAGTCAATAAACATATAAAGTCTATGCT TATGAATTTACAGGTATCTGCAAAGATATCAGAGTTAAAGGCAACAATTGACATGGGATTAGCA CATCGTGACAATATATTGAAAAATATCGCGTCTGAGTTTGAGAATTGGAACCGTCTGGTAAGCT ATCCTCTTATGTGATAAATTCCATATGTTAGAAAATTCCGAAATCCACCAGTCAGGTCATTATT TCAGTTCTATATATATGATACTAATTAGCATACAAATGCTCCAGGCAAATAAGGAAAAAATAAT TTACCACACTTTGAACATGTTGAGTGTTGATGTGACAAAGAAATGCTTAGTTGGTGAGGGCTGG AGTCCAGTTTTTGCAACAACTCAGGTAATTGATACACCACCCTGGTGCTAACAATTTATTAGCC TACTGTTTCCATTTGTTTATTTGGGAGATTATTCTTCATGTGATCTCAATGATTTACAACTTTA TTTTGCAGATCCAAGATGCGCTCCAGCGAGCTACTCTTGATAGCAAATCCCAAGTTGGTTCAAT TTTTCAAGTTCTCAACACAACAGAATCTCCCCCGACATATTTCCAGACAAATAAGTTCACTTCG GCTTTCCAGGAAATTGTTGATGCATACGGGTATGTTTCAGAGGGCTCTGAGATGCTACTTTTGG TTTCTCTTTTGGCTTTGGAACTGAAAATAATATATTTTCTTGTGGGTTGTTCCAAGTTGTTTAT AGCACCATGGGATATGAGACTTCTATTATTGTCCCCCCGCTTTTGGTTTCATCTCAGAAATGAT GCTCTTTTCACCATTCTTTTGCTGGACTCACTATTTTCATGTGAAATCGACAAACTTTTGGTTC GCTTAAAGAAAAGAAAGGAAAATTGCCATAATTCACTGTTCCTCTTCAATAGGCAAAGACATGC CATCATTCCCTGTTATTTGCTCCTCAATTGTGCATTCTAAGTGAAACATTTCCTTTTTTGTTTC CCTTTTGTGGACATGTCTACCACGTTGAAATCATTGTGTTCATATTGTCAAAGAAGCACTTAAA CTTGCAATAGGAATTTCCAGAATTTTTGTGCTTATGGGAAATATATTATTTTATCTGAATAAAA TTAGCATTGACTCCTGAAAAATCAATAAAGAGCTTGCTGTTTGTTTGGGCCAAATGGTTTAGTT AGGAACTGCTAACTTTGTATTACATCTGATACAGGATAGCCAAATATCAAGAAGCAAACCCTGG TGTATTCACTATTGTCACTTTTCCTTTCTTATTTGCTGTCATGTTTGGAGATTGGGGACATGGA ATTTGCATATTGGTTTCGACACTCTATCTGATAATCCGAGAGAAGAAATTTGCTTCACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004679* osi_circ_014135 						
					
						PMCS
						0.450814403

Conservation Information
Conserved circRNAs	osi_circ_004679* osi_circ_014135
PMCS	0.450814403

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7985913-7987196(+)
7985301-7987116(-)
						
						Potential amino acid sequence
						
							MGLAHRDNILKNIASEFENWNRLANKEKIIYHTLNMLSVDVTKKCLVGEGWSPVFATTQIQDAL
QRATLDSKSQVGSIFQVLNTTESPPTYFQTNKFTSAFQEIVDAYGIAKYQEANPGVFTIVTFPF
LFAVMFGDWGHGICILVSTLYLIIREKKFASQVAKNAFVIFYSGDRAKAKILKICDAFNANRYP
FPEDVARQLHAVQEVSAKISELKATIDMGLAHRDNILKNIASEFENWNRLANKEKIIYHTLNML
SVDVTKKCLVGEGWSPVFATTQIQDALQRATLDSKSQVGSIFQVLNTTESPPTYFQTNKFTSAF
QEIVDAYGIAKYQEANPGVFTIVTFPFLFAVMFGDWGHGICILVSTLYLIIREKKFASQVAKNA
FVIFYSGDRAKAKILKICDAFNANRYPFPEDVARQLHAVQEVSAKISELKATIDMGLAHRDNIL
KNIASEFENWNRLANKEKIIYHTLNMLSVDVTKKCLVGEGWSPVFATTQIQDALQRATLDSKSQ
VGSIFQVLNTTESPPTYFQTNKFTSAFQEIVDAYGIAKYQEANPGVFTIVTFPFLFAVMFGDWG
HGICILVSTLYLIIREKKFASQVAKNAFVIFYSGDRAKAKILKICDAFNANRYPFPEDVARQLH
AVQEVSAKISELKATIDMGLAHRDNILKNIASEFENWNRLANKEKIIYHTLNMLSVDVTKKCLV
GEGWSPVFATTQIQDALQRATLDSKSQVGSIFQVLNTTESPPTYFQTNKFTSAFQEIVDAYGIA
KYQEANPGVFTIVTFPFLFAVMFGDWGHGICILVSTLYLIIREKKFASQ(+)
MHFWQPVKQISSLGLSDRVSKPICKFHVPNLQT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7985913-7987196(+) 7985301-7987116(-)
Potential amino acid sequence	MGLAHRDNILKNIASEFENWNRLANKEKIIYHTLNMLSVDVTKKCLVGEGWSPVFATTQIQDAL QRATLDSKSQVGSIFQVLNTTESPPTYFQTNKFTSAFQEIVDAYGIAKYQEANPGVFTIVTFPF LFAVMFGDWGHGICILVSTLYLIIREKKFASQVAKNAFVIFYSGDRAKAKILKICDAFNANRYP FPEDVARQLHAVQEVSAKISELKATIDMGLAHRDNILKNIASEFENWNRLANKEKIIYHTLNML SVDVTKKCLVGEGWSPVFATTQIQDALQRATLDSKSQVGSIFQVLNTTESPPTYFQTNKFTSAF QEIVDAYGIAKYQEANPGVFTIVTFPFLFAVMFGDWGHGICILVSTLYLIIREKKFASQVAKNA FVIFYSGDRAKAKILKICDAFNANRYPFPEDVARQLHAVQEVSAKISELKATIDMGLAHRDNIL KNIASEFENWNRLANKEKIIYHTLNMLSVDVTKKCLVGEGWSPVFATTQIQDALQRATLDSKSQ VGSIFQVLNTTESPPTYFQTNKFTSAFQEIVDAYGIAKYQEANPGVFTIVTFPFLFAVMFGDWG HGICILVSTLYLIIREKKFASQVAKNAFVIFYSGDRAKAKILKICDAFNANRYPFPEDVARQLH AVQEVSAKISELKATIDMGLAHRDNILKNIASEFENWNRLANKEKIIYHTLNMLSVDVTKKCLV GEGWSPVFATTQIQDALQRATLDSKSQVGSIFQVLNTTESPPTYFQTNKFTSAFQEIVDAYGIA KYQEANPGVFTIVTFPFLFAVMFGDWGHGICILVSTLYLIIREKKFASQ(+) MHFWQPVKQISSLGLSDRVSKPICKFHVPNLQT*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0251500_circ_g.3

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