Plant Circular RNA Database

Detail information of Os01g0549200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0549200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_002116
					
						Alias
						Os_ciR1902
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 20491061-20497300  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0549200						
					
						Parent gene annotation
						
							Hypothetical conserved gene. (Os01t0549200-01);ATPase-like, ATP-
binding domain domain containing protein. (Os01t0549200-02);Hypo
thetical conserved gene. (Os01t0549200-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0549200_circ_g.1 Os01g0549200_circ_g.3 Os01g0549200_circ_g.4 Os01g0549200_circ_g.5 						
					
						Support reads
						5/4
					
						Tissues
						root/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  
						
							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
						Os01t0549200-02:10
Os01t0549200-03:9
Os01t0549200-01:5

General Information
CircRNA Name	Os01g0549200_circ_g.2
ID in PlantcircBase	osa_circ_002116
Alias	Os_ciR1902
Organism	Oryza sativa
Position	chr1: 20491061-20497300 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0549200
Parent gene annotation	Hypothetical conserved gene. (Os01t0549200-01);ATPase-like, ATP- binding domain domain containing protein. (Os01t0549200-02);Hypo thetical conserved gene. (Os01t0549200-03)
Parent gene strand	-
Alternative splicing	Os01g0549200_circ_g.1 Os01g0549200_circ_g.3 Os01g0549200_circ_g.4 Os01g0549200_circ_g.5
Support reads	5/4
Tissues	root/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	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	Os01t0549200-02:10 Os01t0549200-03:9 Os01t0549200-01:5

			
						 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  
						
							TAAGAGAATAACGGAGTCGAGTTGAAACGTAGTTCTGTGTTGCGACCTTATCTGCCTTGTTGGT
ATTCACCTTCCTGTGTGCCCCAGTAATGAGGATATCcttcagagcaagttgttttgctgactcc
tcgtattgcaagcatctgagaaaaaaaatgcaagttaaacaacaaaatatgcaagcagaatttg
cagctttg

						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: 873
Transcript exons: 20491061-20491103,20492238-20492302,20492986-20493053,20
493156-20493346,20494577-20494688,20494782-20494833,2049
5874-20495966,20496955-20497101,20497199-20497300
CTTCAGAGCAAGTTGTTTTGCTGACTCCTCGTATTGCAAGCATTTATCATTCTCTAGTGTCAAA
GTCCTGTATTCGTTAAACCGTCTCCGTTGAGAAACGTCCAAGTGAGATCCATCTTGGTCAGCAC
TGTCTGTCTTGGATCCAAGGGCATCAATATTTCTCTTCAATCCCATCTGTTTTTGCCTTAATGC
AGGGGCCATAAATGTAGGGACAGCACAGCTGCTTGTCGGAATATCAGCAGCCAATAGCTGACGT
GGAACAATTGGCGGGGAACTGCCAGCATTCATCTGATTAGCACGATTAAGTGCACGGGAAGATT
TAGGTAATTTTTTGTTGTCATAACCAATACGATGGCAATGCAGGTCCCAGTATTCATATGTCAT
TTCTTTCAAGCGGCTCTCCAGCCTTTGATAAAGGACCGACTTTTCAAAATCTTGCTTGTCATGG
GTAGGTTTGATGAAGTTTGCCTCCAGAATGCCCACAACTCCTCGCCCTTTGCCATATGAGTTGT
TCGCAACTTTCCAAAATGGCGCTATTAAACGATTCTTGTGGTACACATTAAAGCCTTGTACATC
AATTTCTGGGGCGCCTTTGACAAATCCAATGGTGGTTATTGCAGATAGCTCTGCAAGCCCAGCA
ATTTGTGGTTTATACAACACGCATTCAGGATACATCAAATCATTTATTACATTATGTGATTCCA
CATCATGTCCACGCAAGACTATTCTGAAATTATCAGGAATGTGAAGGTACAAGACAGATGTGTA
TGCTCTAAGAGAATAACGGAGTCGAGTTGAAACGTAGTTCTGTGTTGCGACCTTATCTGCCTTG
TTGGTATTCACCTTCCTGTGTGCCCCAGTAATGAGGATATC
						
						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	TAAGAGAATAACGGAGTCGAGTTGAAACGTAGTTCTGTGTTGCGACCTTATCTGCCTTGTTGGT ATTCACCTTCCTGTGTGCCCCAGTAATGAGGATATCcttcagagcaagttgttttgctgactcc tcgtattgcaagcatctgagaaaaaaaatgcaagttaaacaacaaaatatgcaagcagaatttg cagctttg
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: 873 Transcript exons: 20491061-20491103,20492238-20492302,20492986-20493053,20 493156-20493346,20494577-20494688,20494782-20494833,2049 5874-20495966,20496955-20497101,20497199-20497300 CTTCAGAGCAAGTTGTTTTGCTGACTCCTCGTATTGCAAGCATTTATCATTCTCTAGTGTCAAA GTCCTGTATTCGTTAAACCGTCTCCGTTGAGAAACGTCCAAGTGAGATCCATCTTGGTCAGCAC TGTCTGTCTTGGATCCAAGGGCATCAATATTTCTCTTCAATCCCATCTGTTTTTGCCTTAATGC AGGGGCCATAAATGTAGGGACAGCACAGCTGCTTGTCGGAATATCAGCAGCCAATAGCTGACGT GGAACAATTGGCGGGGAACTGCCAGCATTCATCTGATTAGCACGATTAAGTGCACGGGAAGATT TAGGTAATTTTTTGTTGTCATAACCAATACGATGGCAATGCAGGTCCCAGTATTCATATGTCAT TTCTTTCAAGCGGCTCTCCAGCCTTTGATAAAGGACCGACTTTTCAAAATCTTGCTTGTCATGG GTAGGTTTGATGAAGTTTGCCTCCAGAATGCCCACAACTCCTCGCCCTTTGCCATATGAGTTGT TCGCAACTTTCCAAAATGGCGCTATTAAACGATTCTTGTGGTACACATTAAAGCCTTGTACATC AATTTCTGGGGCGCCTTTGACAAATCCAATGGTGGTTATTGCAGATAGCTCTGCAAGCCCAGCA ATTTGTGGTTTATACAACACGCATTCAGGATACATCAAATCATTTATTACATTATGTGATTCCA CATCATGTCCACGCAAGACTATTCTGAAATTATCAGGAATGTGAAGGTACAAGACAGATGTGTA TGCTCTAAGAGAATAACGGAGTCGAGTTGAAACGTAGTTCTGTGTTGCGACCTTATCTGCCTTG TTGGTATTCACCTTCCTGTGTGCCCCAGTAATGAGGATATC
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
						
							osi_circ_010067 						
					
						PMCS
						0.201413293

Conservation Information
Conserved circRNAs	osi_circ_010067
PMCS	0.201413293

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20497291-20492285(+)
20497007-20491063(-)
20491105-20497250(-)
						
						Potential amino acid sequence
						
							MRISFRASCFADSSYCKHLSFSSVKVLYSLNRLR*(+)
MYPECVLYKPQIAGLAELSAITTIGFVKGAPEIDVQGFNVYHKNRLIAPFWKVANNSYGKGRGV
VGILEANFIKPTHDKQDFEKSVLYQRLESRLKEMTYEYWDLHCHRIGYDNKKLPKSSRALNRAN
QMNAGSSPPIVPRQLLAADIPTSSCAVPTFMAPALRQKQMGLKRNIDALGSKTDSADQDGSHLD
VSQRRRFNEYRTLTLENDKCLQYEESAKQLALKDILITGAHRKVNTNKADKVATQNYVSTRLRY
SLRAYTSVLYLHIPDNFRIVLRGHDVESHNVINDLMYPECVLYKPQIAGLAELSAITTIGFVKG
APEIDVQGFNVYHKNRLIAPFWKVANNSYGKGRGVVGILEANFIKPTHDKQDFEKSVLYQRLES
RLKEMTYEYWDLHCHRIGYDNKKLPKSSRALNRANQMNAGSSPPIVPRQLLAADIPTSSCAVPT
FMAPALRQKQMGLKRNIDALGSKTDSADQDGSHLDVSQRRRFNEYRTLTLENDKCLQYEESAKQ
LALKDILITGAHRKVNTNKADKVATQNYVSTRLRYSLRAYTSVLYLHIPDNFRIVLRGHDVESH
NVINDLMYPECVLYKPQIAGLAELSAITTIGFVKGAPEIDVQGFNVYHKNRLIAPFWKVANNSY
GKGRGVVGILEANFIKPTHDKQDFEKSVLYQRLESRLKEMTYEYWDLHCHRIGYDNKKLPKSSR
ALNRANQMNAGSSPPIVPRQLLAADIPTSSCAVPTFMAPALRQKQMGLKRNIDALGSKTDSADQ
DGSHLDVSQRRRFNEYRTLTLENDKCLQYEESAKQLALKDILITGAHRKVNTNKADKVATQNYV
STRLRYSLRAYTSVLYLHIPDNFRIVLRGHDVESHNVINDLMYPECVLYKPQIAGLAELSAITT
IGFVKGAPEIDVQGFNVYHKNRLIAPFWKVANNSYGKGRGVVGILEANFIKPTHDKQDFEKSVL
YQRLESRLKEMTYEYWDLHCHRIGYDNKKLPKSSRALNRANQMNAGSSPPIVPRQLLAADIPTS
SCAVPTFMAPALRQKQMGLKRNIDALGSKTDSADQDGSHLDVSQRRRFNEYRTLTLENDKCLQY
EESAKQLALK(-)
MLAIRGVSKTTCSEGYPHYWGTQEGEYQQGR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20497291-20492285(+) 20497007-20491063(-) 20491105-20497250(-)
Potential amino acid sequence	MRISFRASCFADSSYCKHLSFSSVKVLYSLNRLR(+) MYPECVLYKPQIAGLAELSAITTIGFVKGAPEIDVQGFNVYHKNRLIAPFWKVANNSYGKGRGV VGILEANFIKPTHDKQDFEKSVLYQRLESRLKEMTYEYWDLHCHRIGYDNKKLPKSSRALNRAN QMNAGSSPPIVPRQLLAADIPTSSCAVPTFMAPALRQKQMGLKRNIDALGSKTDSADQDGSHLD VSQRRRFNEYRTLTLENDKCLQYEESAKQLALKDILITGAHRKVNTNKADKVATQNYVSTRLRY SLRAYTSVLYLHIPDNFRIVLRGHDVESHNVINDLMYPECVLYKPQIAGLAELSAITTIGFVKG APEIDVQGFNVYHKNRLIAPFWKVANNSYGKGRGVVGILEANFIKPTHDKQDFEKSVLYQRLES RLKEMTYEYWDLHCHRIGYDNKKLPKSSRALNRANQMNAGSSPPIVPRQLLAADIPTSSCAVPT FMAPALRQKQMGLKRNIDALGSKTDSADQDGSHLDVSQRRRFNEYRTLTLENDKCLQYEESAKQ LALKDILITGAHRKVNTNKADKVATQNYVSTRLRYSLRAYTSVLYLHIPDNFRIVLRGHDVESH NVINDLMYPECVLYKPQIAGLAELSAITTIGFVKGAPEIDVQGFNVYHKNRLIAPFWKVANNSY GKGRGVVGILEANFIKPTHDKQDFEKSVLYQRLESRLKEMTYEYWDLHCHRIGYDNKKLPKSSR ALNRANQMNAGSSPPIVPRQLLAADIPTSSCAVPTFMAPALRQKQMGLKRNIDALGSKTDSADQ DGSHLDVSQRRRFNEYRTLTLENDKCLQYEESAKQLALKDILITGAHRKVNTNKADKVATQNYV STRLRYSLRAYTSVLYLHIPDNFRIVLRGHDVESHNVINDLMYPECVLYKPQIAGLAELSAITT IGFVKGAPEIDVQGFNVYHKNRLIAPFWKVANNSYGKGRGVVGILEANFIKPTHDKQDFEKSVL YQRLESRLKEMTYEYWDLHCHRIGYDNKKLPKSSRALNRANQMNAGSSPPIVPRQLLAADIPTS SCAVPTFMAPALRQKQMGLKRNIDALGSKTDSADQDGSHLDVSQRRRFNEYRTLTLENDKCLQY EESAKQLALK(-) MLAIRGVSKTTCSEGYPHYWGTQEGEYQQGR(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os01g0549200_circ_g.2

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