Plant Circular RNA Database

Detail information of Os03g0253800_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0253800_circ_g.1
					
						ID in PlantcircBase
						osa_circ_018897
					
						Alias
						Os_ciR9179
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 8112358-8115861  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os03g0253800						
					
						Parent gene annotation
						
							Mitochondrial import inner membrane translocase, subunit Tim21 d
omain containing protein. (Os03t0253800-01);Conserved hypothetic
al protein. (Os03t0253800-02);Mitochondrial inner membrane trans
locase complex, subunit Tim21 domain containing protein. (Os03t0
253800-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0253800_circ_g.2 Os03g0253800_circ_g.3 						
					
						Support reads
						2
					
						Tissues
						root
					
						Exon boundary  
						
							No-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
						Os03t0253800-03:5
Os03t0253800-02:4
Os03t0253800-01:5

General Information
CircRNA Name	Os03g0253800_circ_g.1
ID in PlantcircBase	osa_circ_018897
Alias	Os_ciR9179
Organism	Oryza sativa
Position	chr3: 8112358-8115861 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Os03g0253800
Parent gene annotation	Mitochondrial import inner membrane translocase, subunit Tim21 d omain containing protein. (Os03t0253800-01);Conserved hypothetic al protein. (Os03t0253800-02);Mitochondrial inner membrane trans locase complex, subunit Tim21 domain containing protein. (Os03t0 253800-03)
Parent gene strand	-
Alternative splicing	Os03g0253800_circ_g.2 Os03g0253800_circ_g.3
Support reads	2
Tissues	root
Exon boundary	No-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	Os03t0253800-03:5 Os03t0253800-02:4 Os03t0253800-01:5

			
						 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  
						
							ACTAAATGAGTAGATACTTTGTGGCTTTCACGCTGTGTTGTGAGAGGACTTGAAGGGTTTGACT
TGATCATGTACCACCTTGATTTTTTTAAAGATGAGGcttacaacaattctgccactgctaactg
cttgtttcttgcatccttatgctggtacgtaagattctaacattagttgtacacgatgcggaga
cacaatct

									
								

					

						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
						
							CTTACAACAATTCTGCCACTGCTAACTGCTTGTTTCTTGCATCCTTATGCTGGTACGTAAGATT
CTAACATTAGTTGTACACGATGCGGAGACACAATCTCAACAATAAGGTATGTGAACTTCCAACT
CCTGTCATTGTTATCTTTGAACATCTCTGAATACACCTTTCCAGCTCCATGTGGTCCTCGGATA
TAGAAGTTTACCTAAATAAGATGAGTGTGTTTCGAGTGATCAATCAAATTCAACCGTGTGCATA
ACCATGCAAACTATATGTCTTAATATCAAAACCCGTCCTAATGCCCCCTTTCCCAATAAACAAA
GAATTGTATCTTCACAGAATACATGGGACAACTGAGAACATGTTTGCATTAAGCAAGGATAGAC
CATAAAGATTACACCCGACGATCTAGTTGTAACCAAACAACAGTCAAGTGCAAGAGCATACGAA
GACTATTACACAAAGAGCAAAGTATCATCGAGAAGGCCATTACACGATGATATCTACTTCTAAG
TATTATTATTGGCATTGACTCAAACAGTCTTTCTAGTCAAGAAGCTTGTGTGCTCATTTCTCAT
TTCCTCTTGCTATGTTATCATTCACAATCTCCCCTCAGTTAAATGAAGCCATTAGCCCATGCCA
TATAAATATAATAAAATGTCAAGGAGCATGTGTCCATGTCACGCCCAGAAAAACATTTAATTCT
CCCATTATTCCACTTGATTAAATTGATTTATCTTTTATTTAATTTCTAGAAAATGCATTATTAA
ATGTTTTTTTTTTAATCCCGAACGAAAATCGGGGCGTTACAGTCCACACTAAACTTGAGTGGCA
AATAAATCAACATACTTAAAAGAGACAGAACAACAGAGGCAAGAATATATGCTACCTCCACATG
TTCAACACCGTCCTCATCTGTCCAAACCTTGTTAGGAATGCGCTGCCGAGCTGCACGATTTCTA
CTTTCATTGCCATATCCAGTAACAGGATACCCAATTTTTGCTGTAACCTGACAAAACGTGTGAA
AACATGAAGTTGTACCAAGGGGAAAATATGATATGTATGAAGGAAGTGGAATAGCACTAATGTC
CACAAACCTGACTGTCATTCTGTACTCTTGCTAGCGCTTTTCCAAAAATCTTGTACCTGTAGAA
TGGTAACAGCAGTGCAAGCTCTTTCAAATTGCATATAATAATATATGCATTTAACATAAGAAAA
AGATTCGAAGCACAAAAAGAACTTTCACTAGGAAGTAACAAGAACACCCATGCCAACTTGCTAA
GTGACTTGCATAGGATCAAATCAGAAATGTGCCATGGCACTCTGCTGCAGCATACAAGAAAAAA
AATCCATAGCTTACTGATTGTTTCTTTAAAGTTTGGCACCGTAAGTGGCTACATGTGAGGGTCA
TAAACAAACCTAGAAACATCTGGATTAATAAATGTGTGTGTGATATTAGTTTTTTAAAAAATAA
ATAAAAAGGAACTATTTCCATATTATACAAAATATTAACGCTACAATGTGAAGAAAGACCATTG
CACAGTGCATATTTGTAGGACTTACCAAATTATCATAACTGGTTAGACTTGAATGTATTTTACT
GTCATAAGCCATACAATTATGCGAGCAACTATATTATTAAAGTACCTTTGATTTCATTCAAAAT
GGAGGCTTCCTGAGGAACTGGTTCATCGTGGAATCTTAAGCCATGTGAAAAATAGGAGAGGCAG
GGGTTGGATAAAAACTGAAATGGAAGAAAGTGGTAAAAAGACCACTGAAGGCATGGAGTGCATC
CAAAGATTTGGGTTTGGATAGGAGTACGAGGAAGTTGGCGATCCAACATCCAAGTGCCAGAACT
ACATAAGAATTTACATAATTCTTTCACCGGTATCATTCCTAGTAGTATTAGGAATATGTGGAAG
TTAGAGATCCAACATTTTGGTTCTCCTGGCTATACTTGGGTTTCACCTCTAGTCCACCCAGCTT
CCTGGGACTAAAGATTGTAGTACTTGTTGTTGAGCTAAGTGCCTAAGTCAAAAGAATTAACAAT
TAATGCAGAAAACTTACTCTTTTGGTTCAAATATAAGTTCTTTGAAAACAGCATATCCAGCCAC
TGCTGCAATTCCAAGTCCCGCAACTATTACAAGACTGTAGGAAGCCCCTTCAGCAAATGTCACT
GGCTTCTCAGGTATGTTGTAGGTAGGGGAATCAAATGGATCTTCAACAGTTTTCAGGTCTTTTG
TACCCTGAGGATGAAGACATCAGTCTTTTATAAGCAATAAAATAAGAAATAGAAAACAACAAAT
CAGGGGGGAATGTCTGATAAAAATTACAGTTCGGAGCAATGTATATGTTGAGATTACAAGGCGA
CAAATATGTGTCAGGTGATTAGTTTGTTGATGGGAATTATGATTTAATTATTCTCCAGCAATAC
GTTGCCAACTGAAAACCTAAGACCATAGACAAGACTGCCCTGCCAGTAAGGAGGTATGGGGCAT
AGAGCAAACCTGTCTCTTCTACCTCTATTCCCTTCCTCTCTGCCTGGGAGCTGCCCTTCCTCTC
TCTTATAACTCCAGCCAGCAAAGATTGAGGACCACATTCAGTAGCCAATGCCAGGAGGGTGGAG
GTGAGAGGAGCAGTGAACGTCTTGCCATCCAGTTGGTTGCCCAGCCTAACAAGAAGCCTACCCA
GACTGCCATGCCTTGCTCTGACTTGGACTGCCTTTGGCTAATTATGCAGCCTCCCAGCTTAGAT
TGCTGAGCATGGGCCGCTCAGGGTGACTAGGTGCTACTGAGTTTCTTAGGTGACACCTAGGCTT
TGTGGTCATCTTCTTTGGAATTCCCTTTTTGTATGAGGTAGTACTATAGTCTACTCTTCTGGCT
TAAGTAAAATTACGGAGCATATTTGGGTAGACTGAGATTATGAACACCAGAGCACCTAGCAGTT
AACTATGTTGATATAACGAAAAAACATTATATTTCCGACATATACGGAATCACCCCTATCTCAT
AGCAATTGAATAACTCTTAACTTTTTTTTCTAACAAGATTATTCACCACCACATTACTGAGATG
ATGCCCATACATTAGTCAACAATTGATCCAGCAGTTCCCTGAGGCAAGATTCCTGACAGTTTTG
ATTGTATGACATGAAAAGAAGCCTACTCAAGATTACACATGTATGCATACAAATGCTCACTGAG
GTGGCATGCTTAATAGTGTCATGTATTGTACTTGATAATCCGCAGTAACATGGCCAACAACATT
GATGAAAATTGTACTCACAGAGGATAAAAAAAAGCAGGAACAAAATATTGAACAATTTAAATAG
CAAAACAGACAAGCTGTTGCTTACCTCTTTTGGGTTCTGCTCTGAAGCTTGTGTGGAGTAGGAT
GCAGAAGGCCTAACTAAATGAGTAGATACTTTGTGGCTTTCACGCTGTGTTGTGAGAGGACTTG
AAGGGTTTGACTTGATCATGTACCACCTTGATTTTTTTAAAGATGAGG
						
					

			
		

Sequences
Splice junction sequence	ACTAAATGAGTAGATACTTTGTGGCTTTCACGCTGTGTTGTGAGAGGACTTGAAGGGTTTGACT TGATCATGTACCACCTTGATTTTTTTAAAGATGAGGcttacaacaattctgccactgctaactg cttgtttcttgcatccttatgctggtacgtaagattctaacattagttgtacacgatgcggaga cacaatct
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	CTTACAACAATTCTGCCACTGCTAACTGCTTGTTTCTTGCATCCTTATGCTGGTACGTAAGATT CTAACATTAGTTGTACACGATGCGGAGACACAATCTCAACAATAAGGTATGTGAACTTCCAACT CCTGTCATTGTTATCTTTGAACATCTCTGAATACACCTTTCCAGCTCCATGTGGTCCTCGGATA TAGAAGTTTACCTAAATAAGATGAGTGTGTTTCGAGTGATCAATCAAATTCAACCGTGTGCATA ACCATGCAAACTATATGTCTTAATATCAAAACCCGTCCTAATGCCCCCTTTCCCAATAAACAAA GAATTGTATCTTCACAGAATACATGGGACAACTGAGAACATGTTTGCATTAAGCAAGGATAGAC CATAAAGATTACACCCGACGATCTAGTTGTAACCAAACAACAGTCAAGTGCAAGAGCATACGAA GACTATTACACAAAGAGCAAAGTATCATCGAGAAGGCCATTACACGATGATATCTACTTCTAAG TATTATTATTGGCATTGACTCAAACAGTCTTTCTAGTCAAGAAGCTTGTGTGCTCATTTCTCAT TTCCTCTTGCTATGTTATCATTCACAATCTCCCCTCAGTTAAATGAAGCCATTAGCCCATGCCA TATAAATATAATAAAATGTCAAGGAGCATGTGTCCATGTCACGCCCAGAAAAACATTTAATTCT CCCATTATTCCACTTGATTAAATTGATTTATCTTTTATTTAATTTCTAGAAAATGCATTATTAA ATGTTTTTTTTTTAATCCCGAACGAAAATCGGGGCGTTACAGTCCACACTAAACTTGAGTGGCA AATAAATCAACATACTTAAAAGAGACAGAACAACAGAGGCAAGAATATATGCTACCTCCACATG TTCAACACCGTCCTCATCTGTCCAAACCTTGTTAGGAATGCGCTGCCGAGCTGCACGATTTCTA CTTTCATTGCCATATCCAGTAACAGGATACCCAATTTTTGCTGTAACCTGACAAAACGTGTGAA AACATGAAGTTGTACCAAGGGGAAAATATGATATGTATGAAGGAAGTGGAATAGCACTAATGTC CACAAACCTGACTGTCATTCTGTACTCTTGCTAGCGCTTTTCCAAAAATCTTGTACCTGTAGAA TGGTAACAGCAGTGCAAGCTCTTTCAAATTGCATATAATAATATATGCATTTAACATAAGAAAA AGATTCGAAGCACAAAAAGAACTTTCACTAGGAAGTAACAAGAACACCCATGCCAACTTGCTAA GTGACTTGCATAGGATCAAATCAGAAATGTGCCATGGCACTCTGCTGCAGCATACAAGAAAAAA AATCCATAGCTTACTGATTGTTTCTTTAAAGTTTGGCACCGTAAGTGGCTACATGTGAGGGTCA TAAACAAACCTAGAAACATCTGGATTAATAAATGTGTGTGTGATATTAGTTTTTTAAAAAATAA ATAAAAAGGAACTATTTCCATATTATACAAAATATTAACGCTACAATGTGAAGAAAGACCATTG CACAGTGCATATTTGTAGGACTTACCAAATTATCATAACTGGTTAGACTTGAATGTATTTTACT GTCATAAGCCATACAATTATGCGAGCAACTATATTATTAAAGTACCTTTGATTTCATTCAAAAT GGAGGCTTCCTGAGGAACTGGTTCATCGTGGAATCTTAAGCCATGTGAAAAATAGGAGAGGCAG GGGTTGGATAAAAACTGAAATGGAAGAAAGTGGTAAAAAGACCACTGAAGGCATGGAGTGCATC CAAAGATTTGGGTTTGGATAGGAGTACGAGGAAGTTGGCGATCCAACATCCAAGTGCCAGAACT ACATAAGAATTTACATAATTCTTTCACCGGTATCATTCCTAGTAGTATTAGGAATATGTGGAAG TTAGAGATCCAACATTTTGGTTCTCCTGGCTATACTTGGGTTTCACCTCTAGTCCACCCAGCTT CCTGGGACTAAAGATTGTAGTACTTGTTGTTGAGCTAAGTGCCTAAGTCAAAAGAATTAACAAT TAATGCAGAAAACTTACTCTTTTGGTTCAAATATAAGTTCTTTGAAAACAGCATATCCAGCCAC TGCTGCAATTCCAAGTCCCGCAACTATTACAAGACTGTAGGAAGCCCCTTCAGCAAATGTCACT GGCTTCTCAGGTATGTTGTAGGTAGGGGAATCAAATGGATCTTCAACAGTTTTCAGGTCTTTTG TACCCTGAGGATGAAGACATCAGTCTTTTATAAGCAATAAAATAAGAAATAGAAAACAACAAAT CAGGGGGGAATGTCTGATAAAAATTACAGTTCGGAGCAATGTATATGTTGAGATTACAAGGCGA CAAATATGTGTCAGGTGATTAGTTTGTTGATGGGAATTATGATTTAATTATTCTCCAGCAATAC GTTGCCAACTGAAAACCTAAGACCATAGACAAGACTGCCCTGCCAGTAAGGAGGTATGGGGCAT AGAGCAAACCTGTCTCTTCTACCTCTATTCCCTTCCTCTCTGCCTGGGAGCTGCCCTTCCTCTC TCTTATAACTCCAGCCAGCAAAGATTGAGGACCACATTCAGTAGCCAATGCCAGGAGGGTGGAG GTGAGAGGAGCAGTGAACGTCTTGCCATCCAGTTGGTTGCCCAGCCTAACAAGAAGCCTACCCA GACTGCCATGCCTTGCTCTGACTTGGACTGCCTTTGGCTAATTATGCAGCCTCCCAGCTTAGAT TGCTGAGCATGGGCCGCTCAGGGTGACTAGGTGCTACTGAGTTTCTTAGGTGACACCTAGGCTT TGTGGTCATCTTCTTTGGAATTCCCTTTTTGTATGAGGTAGTACTATAGTCTACTCTTCTGGCT TAAGTAAAATTACGGAGCATATTTGGGTAGACTGAGATTATGAACACCAGAGCACCTAGCAGTT AACTATGTTGATATAACGAAAAAACATTATATTTCCGACATATACGGAATCACCCCTATCTCAT AGCAATTGAATAACTCTTAACTTTTTTTTCTAACAAGATTATTCACCACCACATTACTGAGATG ATGCCCATACATTAGTCAACAATTGATCCAGCAGTTCCCTGAGGCAAGATTCCTGACAGTTTTG ATTGTATGACATGAAAAGAAGCCTACTCAAGATTACACATGTATGCATACAAATGCTCACTGAG GTGGCATGCTTAATAGTGTCATGTATTGTACTTGATAATCCGCAGTAACATGGCCAACAACATT GATGAAAATTGTACTCACAGAGGATAAAAAAAAGCAGGAACAAAATATTGAACAATTTAAATAG CAAAACAGACAAGCTGTTGCTTACCTCTTTTGGGTTCTGCTCTGAAGCTTGTGTGGAGTAGGAT GCAGAAGGCCTAACTAAATGAGTAGATACTTTGTGGCTTTCACGCTGTGTTGTGAGAGGACTTG AAGGGTTTGACTTGATCATGTACCACCTTGATTTTTTTAAAGATGAGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.318326175

Conservation Information
Conserved circRNAs	NA
PMCS	0.318326175

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os03g0253800_circ_g.1

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