Plant Circular RNA Database

Detail information of Os10g0488800_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os10g0488800_circ_g.4
					
						ID in PlantcircBase
						osa_circ_007217
					
						Alias
						Os_ciR1631
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 18535295-18536210  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							Os10g0488800						
					
						Parent gene annotation
						
							Myosin head, motor region domain containing protein. (Os10t04888
00-01);Similar to Myosin head family protein, expressed. (Os10t0
488800-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os10g0488800_circ_igg.1 Os10g0488800_circ_igg.2 Os10g0488800_circ_g.1 Os10g0488800_circ_g.2 Os10g0488800_circ_g.3 Os10g0488800_circ_g.5 Os10g0488800_circ_g.6 Os10g0488800_circ_g.7 Os10g0488800_circ_g.8 						
					
						Support reads
						7/12
					
						Tissues
						root/shoot, root, 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
						Os10t0488800-01:4
Os10t0488800-02:4

General Information
CircRNA Name	Os10g0488800_circ_g.4
ID in PlantcircBase	osa_circ_007217
Alias	Os_ciR1631
Organism	Oryza sativa
Position	chr10: 18535295-18536210 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	Os10g0488800
Parent gene annotation	Myosin head, motor region domain containing protein. (Os10t04888 00-01);Similar to Myosin head family protein, expressed. (Os10t0 488800-02)
Parent gene strand	+
Alternative splicing	Os10g0488800_circ_igg.1 Os10g0488800_circ_igg.2 Os10g0488800_circ_g.1 Os10g0488800_circ_g.2 Os10g0488800_circ_g.3 Os10g0488800_circ_g.5 Os10g0488800_circ_g.6 Os10g0488800_circ_g.7 Os10g0488800_circ_g.8
Support reads	7/12
Tissues	root/shoot, root, 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	Os10t0488800-01:4 Os10t0488800-02:4

			
						 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  
						
							TTTCTCTGATGTCTTCGAACAGGAATACGTTGAAGATGGCATTGACTGGGCAAAGGTTGAGTTT
GAGGACAATCAGAACTGTTTGAATCTCTTTGAGAAAcggcagaaacggtcgcaagacttcttgg
ctgcagtattgaagatctcaatttagctttgtcgaagaggcacatgaaagttaataatgaaaat
attgtaca

						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: 440
Transcript exons: 18535295-18535413,18535514-18535666,18535746-18535835,18
536133-18536210
CGGCAGAAACGGTCGCAAGACTTCTTGGCTGCAGTATTGAAGATCTCAATTTAGCTTTGTCGAA
GAGGCACATGAAAGTTAATAATGAAAATATTGTACAGAAACTCACCCTTTCACAGGCAATCGAC
ACAAGAGATGCGTTGGCCAAGTCACTCTATGCCAGTTTGTTTGAGTGGCTTGTTGAACAAATTA
ACAAGTCTCTTTCAGTTGGCAAGCGTCGAACTGGGAGATCAATCAGCATTCTTGATATCTATGG
CTTTGAATCATTCGATAGGAACAGTTTTGAACAGTTCTGTATTAACTATGCTAATGAAAGGCTC
CAACAACATTTCAATCGCCATTTGTTTAAGCTTGAACAAGAGGAATACGTTGAAGATGGCATTG
ACTGGGCAAAGGTTGAGTTTGAGGACAATCAGAACTGTTTGAATCTCTTTGAGAAA
						
						Genomic sequence
						
							CGGCAGAAACGGTCGCAAGACTTCTTGGCTGCAGTATTGAAGATCTCAATTTAGCTTTGTCGAA
GAGGCACATGAAAGTTAATAATGAAAATATTGTACAGAAACTCACCCTTTCACAGGTTAGTGAG
TTTTGTTCTTAACTAAATGCAAGGTAGCAACAACAGCCATGAAAGTATTGTTAAATTCACAGTT
CTGCACCCACCTCTTTGAATATTGCAGGCAATCGACACAAGAGATGCGTTGGCCAAGTCACTCT
ATGCCAGTTTGTTTGAGTGGCTTGTTGAACAAATTAACAAGTCTCTTTCAGTTGGCAAGCGTCG
AACTGGGAGATCAATCAGCATTCTTGATATCTATGGCTTTGAATCATTCGATGTAATGTACTTC
CATTTGACATGCTGTCATCATATTTTAATTGGCAAATGGTTTCTCATGTCATAACACAAAATTG
CAGAGGAACAGTTTTGAACAGTTCTGTATTAACTATGCTAATGAAAGGCTCCAACAACATTTCA
ATCGCCATTTGTTTAAGCTTGAACAAGAGGTGAGCTATTGCTATGGTTAAAATCCAGAATATAT
GTTTCAGGATTGCAACCTTCAACCTCTTATTTTTTTCCCATCATCGGCAGTGGCACTTTTTTAG
AGTAATGATTTTCTTGTCATGCTATGAAGTTCCAATGCATATTTTTTTTCCACAAGATCTGGTG
ATCTTCTCTTTCTCTTTGTGCACTTCTTGAACATGCTTTTCTGTGCTTTTTGTTAACTAAATGG
AAGACTTGGTAGGTGTTACTAATTCACAGCAGAGATTTTTCTCTAAATTTTCTCTGATGTCTTC
GAACAGGAATACGTTGAAGATGGCATTGACTGGGCAAAGGTTGAGTTTGAGGACAATCAGAACT
GTTTGAATCTCTTTGAGAAA

Sequences
Splice junction sequence	TTTCTCTGATGTCTTCGAACAGGAATACGTTGAAGATGGCATTGACTGGGCAAAGGTTGAGTTT GAGGACAATCAGAACTGTTTGAATCTCTTTGAGAAAcggcagaaacggtcgcaagacttcttgg ctgcagtattgaagatctcaatttagctttgtcgaagaggcacatgaaagttaataatgaaaat attgtaca
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: 440 Transcript exons: 18535295-18535413,18535514-18535666,18535746-18535835,18 536133-18536210 CGGCAGAAACGGTCGCAAGACTTCTTGGCTGCAGTATTGAAGATCTCAATTTAGCTTTGTCGAA GAGGCACATGAAAGTTAATAATGAAAATATTGTACAGAAACTCACCCTTTCACAGGCAATCGAC ACAAGAGATGCGTTGGCCAAGTCACTCTATGCCAGTTTGTTTGAGTGGCTTGTTGAACAAATTA ACAAGTCTCTTTCAGTTGGCAAGCGTCGAACTGGGAGATCAATCAGCATTCTTGATATCTATGG CTTTGAATCATTCGATAGGAACAGTTTTGAACAGTTCTGTATTAACTATGCTAATGAAAGGCTC CAACAACATTTCAATCGCCATTTGTTTAAGCTTGAACAAGAGGAATACGTTGAAGATGGCATTG ACTGGGCAAAGGTTGAGTTTGAGGACAATCAGAACTGTTTGAATCTCTTTGAGAAA
Genomic sequence	CGGCAGAAACGGTCGCAAGACTTCTTGGCTGCAGTATTGAAGATCTCAATTTAGCTTTGTCGAA GAGGCACATGAAAGTTAATAATGAAAATATTGTACAGAAACTCACCCTTTCACAGGTTAGTGAG TTTTGTTCTTAACTAAATGCAAGGTAGCAACAACAGCCATGAAAGTATTGTTAAATTCACAGTT CTGCACCCACCTCTTTGAATATTGCAGGCAATCGACACAAGAGATGCGTTGGCCAAGTCACTCT ATGCCAGTTTGTTTGAGTGGCTTGTTGAACAAATTAACAAGTCTCTTTCAGTTGGCAAGCGTCG AACTGGGAGATCAATCAGCATTCTTGATATCTATGGCTTTGAATCATTCGATGTAATGTACTTC CATTTGACATGCTGTCATCATATTTTAATTGGCAAATGGTTTCTCATGTCATAACACAAAATTG CAGAGGAACAGTTTTGAACAGTTCTGTATTAACTATGCTAATGAAAGGCTCCAACAACATTTCA ATCGCCATTTGTTTAAGCTTGAACAAGAGGTGAGCTATTGCTATGGTTAAAATCCAGAATATAT GTTTCAGGATTGCAACCTTCAACCTCTTATTTTTTTCCCATCATCGGCAGTGGCACTTTTTTAG AGTAATGATTTTCTTGTCATGCTATGAAGTTCCAATGCATATTTTTTTTCCACAAGATCTGGTG ATCTTCTCTTTCTCTTTGTGCACTTCTTGAACATGCTTTTCTGTGCTTTTTGTTAACTAAATGG AAGACTTGGTAGGTGTTACTAATTCACAGCAGAGATTTTTCTCTAAATTTTCTCTGATGTCTTC GAACAGGAATACGTTGAAGATGGCATTGACTGGGCAAAGGTTGAGTTTGAGGACAATCAGAACT GTTTGAATCTCTTTGAGAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002869* osi_circ_008547 						
					
						PMCS
						0.378752802

Conservation Information
Conserved circRNAs	osi_circ_002869* osi_circ_008547
PMCS	0.378752802

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							18535367-18535345(+)
18535369-18535821(-)
						
						Potential amino acid sequence
						
							MKVNNENIVQKLTLSQAIDTRDALAKSLYASLFEWLVEQINKSLSVGKRRTGRSISILDIYGFE
SFDRNSFEQFCINYANERLQQHFNRHLFKLEQEEYVEDGIDWAKVEFEDNQNCLNLFEKRQKRS
QDFLAAVLKISI*(+)
MCLFDKAKLRSSILQPRSLATVSAVSQRDSNSSDCPQTQPLPSQCHLQRIPLVQA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	18535367-18535345(+) 18535369-18535821(-)
Potential amino acid sequence	MKVNNENIVQKLTLSQAIDTRDALAKSLYASLFEWLVEQINKSLSVGKRRTGRSISILDIYGFE SFDRNSFEQFCINYANERLQQHFNRHLFKLEQEEYVEDGIDWAKVEFEDNQNCLNLFEKRQKRS QDFLAAVLKISI(+) MCLFDKAKLRSSILQPRSLATVSAVSQRDSNSSDCPQTQPLPSQCHLQRIPLVQA(-)
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 Os10g0488800_circ_g.4

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