Plant Circular RNA Database

Detail information of Os02g0128200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0128200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_012929
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 1457825-1458679  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0128200						
					
						Parent gene annotation
						
							Similar to Transcription factor HBP-1a (Histone-specific transcr
iption factor HBP1). (Os02t0128200-01);Similar to Transcription 
factor HBP-1a (Histone-specific transcription factor HBP1). (Os0
2t0128200-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0128200_circ_g.2 Os02g0128200_circ_g.3 Os02g0128200_circ_g.4 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os02t0128200-01:3
Os02t0128200-02:3

General Information
CircRNA Name	Os02g0128200_circ_g.1
ID in PlantcircBase	osa_circ_012929
Alias	NA
Organism	Oryza sativa
Position	chr2: 1457825-1458679 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0128200
Parent gene annotation	Similar to Transcription factor HBP-1a (Histone-specific transcr iption factor HBP1). (Os02t0128200-01);Similar to Transcription factor HBP-1a (Histone-specific transcription factor HBP1). (Os0 2t0128200-02)
Parent gene strand	+
Alternative splicing	Os02g0128200_circ_g.2 Os02g0128200_circ_g.3 Os02g0128200_circ_g.4
Support reads	1
Tissues	shoot
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	Os02t0128200-01:3 Os02t0128200-02:3

			
						 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  
						
							TTTAACCTTGAAGGCCTACTCGGCAATTCCACCGCATGGGTTCTTTCCACCTCCTGTTGCTGCA
AGTCCCCAGGCTCATCCCTACATGTGGGGAGCTCAGgtggcctttttgctatcacaatttatca
atatccgggttacaatggaatgagtgtgcgagtttggttgccgggaagcattgttgacgaatca
gatgggta

						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: 300
Transcript exons: 1457825-1457971,1458417-1458482,1458593-1458679
GTGGCCTTTTTGCTATCACAATTTATCAATATCCGGGTTACAATGGAATGAGTGTGCGAGTTTG
GTTGCCGGGAAGCATTGTTGACGAATCAGATGGGTACTAATGATCCTGGCACGCCGTCCAAGGC
AACAAAGGCATCAGAACCGGAGCAGTCTCCAGCCACTACATCTGGCACTACAGCTCCAGTTTAC
CCTGAATGGCCTGGTTTTCAGGCCTACTCGGCAATTCCACCGCATGGGTTCTTTCCACCTCCTG
TTGCTGCAAGTCCCCAGGCTCATCCCTACATGTGGGGAGCTCAG
						
						Genomic sequence
						
							GTGGCCTTTTTGCTATCACAATTTATCAATATCCGGGTTACAATGGAATGAGTGTGCGAGTTTG
GTTGCCGGGAAGCATTGTTGACGAATCAGATGGGTACTAATGATCCTGGCACGCCGTCCAAGGC
AACAAAGGCATCAGAACCGGTAACTGATCACTCATCTACTTTCTAAATGAACCTTTTCTGCTTA
ATTTGTCTTACCTGTATTAGCCTAAGACAATAAGATTGGTTCTTATTATTATTTTCTAGTGCCC
CTTTTCCCCATATGATGTATGCTGTTAGTTTTTCTCGAGAAGAATGCTGTGTTGCTGCCAAATT
AAGAAATGTGTCGAACATTTATGATAAAGCATGAATTGGAAAGAATGTGCATATTCTGTTTTTA
TGCAGATTATTTGGACTATATTAGAGTAGCAAGATATTCTGGCTTGTATTCTATACTTCTCTTT
GCATAGATAATAATAATATGCCTATGTGGACAGAACGAATATCCCTTCACAGTAGAAGTACAGA
ACACATATGTCCTGTTTCTTTTTCACAGACGTTTTATTTTATTTACCTCTTTTTATGGTTTCTT
GCTTGCACATTCTCAGGAGCAGTCTCCAGCCACTACATCTGGCACTACAGCTCCAGTTTACCCT
GAATGGCCTGGTTTTCAGGTTATTGCATCTTTACTTATTAAGATGAACTTATAGCTTTCCTCTA
CTGGATTTTCAATTTAATTTTAACGACATAACAGTGCTTTATATTTTGTTTTTTAACCTTGAAG
GCCTACTCGGCAATTCCACCGCATGGGTTCTTTCCACCTCCTGTTGCTGCAAGTCCCCAGGCTC
ATCCCTACATGTGGGGAGCTCAG

Sequences
Splice junction sequence	TTTAACCTTGAAGGCCTACTCGGCAATTCCACCGCATGGGTTCTTTCCACCTCCTGTTGCTGCA AGTCCCCAGGCTCATCCCTACATGTGGGGAGCTCAGgtggcctttttgctatcacaatttatca atatccgggttacaatggaatgagtgtgcgagtttggttgccgggaagcattgttgacgaatca gatgggta
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: 300 Transcript exons: 1457825-1457971,1458417-1458482,1458593-1458679 GTGGCCTTTTTGCTATCACAATTTATCAATATCCGGGTTACAATGGAATGAGTGTGCGAGTTTG GTTGCCGGGAAGCATTGTTGACGAATCAGATGGGTACTAATGATCCTGGCACGCCGTCCAAGGC AACAAAGGCATCAGAACCGGAGCAGTCTCCAGCCACTACATCTGGCACTACAGCTCCAGTTTAC CCTGAATGGCCTGGTTTTCAGGCCTACTCGGCAATTCCACCGCATGGGTTCTTTCCACCTCCTG TTGCTGCAAGTCCCCAGGCTCATCCCTACATGTGGGGAGCTCAG
Genomic sequence	GTGGCCTTTTTGCTATCACAATTTATCAATATCCGGGTTACAATGGAATGAGTGTGCGAGTTTG GTTGCCGGGAAGCATTGTTGACGAATCAGATGGGTACTAATGATCCTGGCACGCCGTCCAAGGC AACAAAGGCATCAGAACCGGTAACTGATCACTCATCTACTTTCTAAATGAACCTTTTCTGCTTA ATTTGTCTTACCTGTATTAGCCTAAGACAATAAGATTGGTTCTTATTATTATTTTCTAGTGCCC CTTTTCCCCATATGATGTATGCTGTTAGTTTTTCTCGAGAAGAATGCTGTGTTGCTGCCAAATT AAGAAATGTGTCGAACATTTATGATAAAGCATGAATTGGAAAGAATGTGCATATTCTGTTTTTA TGCAGATTATTTGGACTATATTAGAGTAGCAAGATATTCTGGCTTGTATTCTATACTTCTCTTT GCATAGATAATAATAATATGCCTATGTGGACAGAACGAATATCCCTTCACAGTAGAAGTACAGA ACACATATGTCCTGTTTCTTTTTCACAGACGTTTTATTTTATTTACCTCTTTTTATGGTTTCTT GCTTGCACATTCTCAGGAGCAGTCTCCAGCCACTACATCTGGCACTACAGCTCCAGTTTACCCT GAATGGCCTGGTTTTCAGGTTATTGCATCTTTACTTATTAAGATGAACTTATAGCTTTCCTCTA CTGGATTTTCAATTTAATTTTAACGACATAACAGTGCTTTATATTTTGTTTTTTAACCTTGAAG GCCTACTCGGCAATTCCACCGCATGGGTTCTTTCCACCTCCTGTTGCTGCAAGTCCCCAGGCTC ATCCCTACATGTGGGGAGCTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003624* osi_circ_011649 						
					
						PMCS
						0.116276667

Conservation Information
Conserved circRNAs	osi_circ_003624* osi_circ_011649
PMCS	0.116276667

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1457919-1457872(+)
1457929-1457906(+)
1458468-1457925(+)
						
						Potential amino acid sequence
						
							MGTNDPGTPSKATKASEPEQSPATTSGTTAPVYPEWPGFQAYSAIPPHGFFPPPVAASPQAHPY
MWGAQVAFLLSQFINIRVTME*(+)
MILARRPRQQRHQNRSSLQPLHLALQLQFTLNGLVFRPTRQFHRMGSFHLLLLQVPRLIPTCGE
LRWPFCYHNLSISGLQWNECASLVAGKHC*(+)
MAWFSGLLGNSTAWVLSTSCCCKSPGSSLHVGSSGGLFAITIYQYPGYNGMSVRVWLPGSIVDE
SDGY*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1457919-1457872(+) 1457929-1457906(+) 1458468-1457925(+)
Potential amino acid sequence	MGTNDPGTPSKATKASEPEQSPATTSGTTAPVYPEWPGFQAYSAIPPHGFFPPPVAASPQAHPY MWGAQVAFLLSQFINIRVTME(+) MILARRPRQQRHQNRSSLQPLHLALQLQFTLNGLVFRPTRQFHRMGSFHLLLLQVPRLIPTCGE LRWPFCYHNLSISGLQWNECASLVAGKHC(+) MAWFSGLLGNSTAWVLSTSCCCKSPGSSLHVGSSGGLFAITIYQYPGYNGMSVRVWLPGSIVDE SDGY*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0128200_circ_g.1

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