Plant Circular RNA Database

Detail information of Os05g0224800_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os05g0224800_circ_g.1
					
						ID in PlantcircBase
						osa_circ_027026
					
						Alias
						Os05circ05275/Os_ciR964
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 7635910-7637416  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
					
						Parent gene
						
							Os05g0224800						
					
						Parent gene annotation
						
							Similar to Cytosine-specific methyltransferase. (Os05t0224800-01
)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0224800_circ_g.2 Os05g0224800_circ_igg.1 Os05g0224800_circ_igg.2 Os05g0224800_circ_igg.3 						
					
						Support reads
						10/26/8
					
						Tissues
						leaf and panicle/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  
						
							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
						Os05t0224800-01:7

General Information
CircRNA Name	Os05g0224800_circ_g.1
ID in PlantcircBase	osa_circ_027026
Alias	Os05circ05275/Os_ciR964
Organism	Oryza sativa
Position	chr5: 7635910-7637416 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
Parent gene	Os05g0224800
Parent gene annotation	Similar to Cytosine-specific methyltransferase. (Os05t0224800-01 )
Parent gene strand	-
Alternative splicing	Os05g0224800_circ_g.2 Os05g0224800_circ_igg.1 Os05g0224800_circ_igg.2 Os05g0224800_circ_igg.3
Support reads	10/26/8
Tissues	leaf and panicle/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	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	Os05t0224800-01:7

			
						 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  
						
							TGTTGTCAGTTACTTCTGGGAGATCAGAAAGAATGTCTTCAAGGACAATTGGTCTTGCTAGTTG
CATTGGTGTGTCATTGGGCCAACCAACCAAATTACGctgtctttgactgttccacgaaacctgt
aattgtcaggaaagccttgcaaccgagcactttcacgaatagtaagcagtctgtcttgtgcagg
atgtatca

									
								

					

						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: 146
Transcript exons: 7635910-7635972,7637334-7637416
CTGTCTTTGACTGTTCCACGAAACCTGTAATTGTCAGGAAAGCCTTGCAACCGAGCACTTTCAG
GGAGATCAGAAAGAATGTCTTCAAGGACAATTGGTCTTGCTAGTTGCATTGGTGTGTCATTGGG
CCAACCAACCAAATTACG
Transcript length: 620
Transcript exons: 7635910-7636013,7636088-7636157,7636253-7636296,7636406-
7636510,7636587-7636708,7637171-7637258,7637330-7637416
CTGTCTTTGACTGTTCCACGAAACCTGTAATTGTCAGGAAAGCCTTGCAACCGAGCACTTTCAC
GAATAGTAAGCAGTCTGTCTTGTGCAGGATGTATCAAGGCCTGCATACGGGCATTTGGAACTGT
CAGCACGGTTCCCACTACCTCATCCCACCATACTCGACCAAAAGGTCTTAAAGATTTACCATTC
TCATAAGCTAGTATGCAATCAAGCACCAGAGGACGACCAGATGGCAAAAGTACTCTTTCTTTCG
TTGGATCTAATCTAGCCACATTGTCAGGACCAACTATGACTCCTGAAAGGTCTCTAAAATTAGC
TCCCTTTCTCTTGGGAATTTGCAATATCCTTTGGTAGTTATCATTATCCAGTACCAATGGTCGA
TGATCATACAATTTTGAGGATTTGGAATCTTTTGTAACATGAGCTCTGGGACCATGCACTTCAA
CATTAAATGACCGAATGTATCTTTGGAATTCAGTTTGAGGACCCTTTACATACAGCATTTCATC
ACGGCTTTCCCCATTTGCCACTTCTGGGAGATCAGAAAGAATGTCTTCAAGGACAATTGGTCTT
GCTAGTTGCATTGGTGTGTCATTGGGCCAACCAACCAAATTACG
						
					

						Genomic sequence
						
							CTGTCTTTGACTGTTCCACGAAACCTGTAATTGTCAGGAAAGCCTTGCAACCGAGCACTTTCAC
GAATAGTAAGCAGTCTGTCTTGTGCAGGATGTATCAAGGCCTGAAACATACCCTCAGTAATTAT
TTTGAATCACAACCAAAGTGGATAAAAGAAATGAGAGAATCAAAGATAACCTGCATACGGGCAT
TTGGAACTGTCAGCACGGTTCCCACTACCTCATCCCACCATACTCGACCAAAAGGTCTAAAAAT
AAATTATAGAACGAACATATAAAGCATAAAGAAGAACAAATATGTCTACGAACAACACAACTAG
ATAAACTGAAGTTTGGAACCAACCTTAAAGATTTACCATTCTCATAAGCTAGTATGCAATCAAG
CACCTGACATGAAAAACAAGAACCCATAGCATGGTAAGCTAATCAAAATTTGCACAAACAGAGG
TATAGTTCCACATAGGGGAGTTTTGTGGTTTCTTGTTAAATGTCTTACCAGAGGACGACCAGAT
GGCAAAAGTACTCTTTCTTTCGTTGGATCTAATCTAGCCACATTGTCAGGACCAACTATGACTC
CTGAAAGGTCTCTAAAATTAGCTCCCTGAAATAAGACAGATGAGACTATAAGGTTTAACCTACC
AAACTTAAATCTGAATGTAAAAAGCATTTCAGCCAACCTTTCTCTTGGGAATTTGCAATATCCT
TTGGTAGTTATCATTATCCAGTACCAATGGTCGATGATCATACAATTTTGAGGATTTGGAATCT
TTTGTAACATGAGCTCTGGGACCATGCACTTCTGCATAAAATTTCATTCGTGAGTTTCTGATAT
AGCTACAAGAAACATAAATATAATTGGTCAACAAAAGGTGTATTAGTTAATTCTTGGAAAAAAA
ATGGAACACCATATAGAGAAAATTAACACCTAAAATGTTAAATTATTACACCCATCATATGCTG
TTTTTCAATATTTCGCCAATTGAATGGATAATTCCTTGTTCCATATTTTACAATAATTGCTATT
AAACAGACTTATAAATGATCATGGGAAAATAAACTGAACTCTGCAACTTAGTTTCTTTCTTTCT
CTTTGCTAAGAAAACTAATCTAGTTATTATTATCTGCCCCCATGATTTGGACATTTTAATATTC
GGTTGTGTATGGGAATACATATTCCTTGTTACAAAAACCTAAATCTAATATACAAGATCATGGA
AGAATATCCAAGTTTATTTTACAGAAGTGTATGCGATCAACTCACCAACATTAAATGACCGAAT
GTATCTTTGGAATTCAGTTTGAGGACCCTTTACATACAGCATTTCATCACGGCTTTCCCCATTT
GCCACCTAATAATTCAACTTAAGTATCAAAATGCCATTCAAATTAGATATTTCAAAGATATAAT
GTTGTCAGTTACTTCTGGGAGATCAGAAAGAATGTCTTCAAGGACAATTGGTCTTGCTAGTTGC
ATTGGTGTGTCATTGGGCCAACCAACCAAATTACG
						
					

			
		

Sequences
Splice junction sequence	TGTTGTCAGTTACTTCTGGGAGATCAGAAAGAATGTCTTCAAGGACAATTGGTCTTGCTAGTTG CATTGGTGTGTCATTGGGCCAACCAACCAAATTACGctgtctttgactgttccacgaaacctgt aattgtcaggaaagccttgcaaccgagcactttcacgaatagtaagcagtctgtcttgtgcagg atgtatca
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: 146 Transcript exons: 7635910-7635972,7637334-7637416 CTGTCTTTGACTGTTCCACGAAACCTGTAATTGTCAGGAAAGCCTTGCAACCGAGCACTTTCAG GGAGATCAGAAAGAATGTCTTCAAGGACAATTGGTCTTGCTAGTTGCATTGGTGTGTCATTGGG CCAACCAACCAAATTACG Transcript length: 620 Transcript exons: 7635910-7636013,7636088-7636157,7636253-7636296,7636406- 7636510,7636587-7636708,7637171-7637258,7637330-7637416 CTGTCTTTGACTGTTCCACGAAACCTGTAATTGTCAGGAAAGCCTTGCAACCGAGCACTTTCAC GAATAGTAAGCAGTCTGTCTTGTGCAGGATGTATCAAGGCCTGCATACGGGCATTTGGAACTGT CAGCACGGTTCCCACTACCTCATCCCACCATACTCGACCAAAAGGTCTTAAAGATTTACCATTC TCATAAGCTAGTATGCAATCAAGCACCAGAGGACGACCAGATGGCAAAAGTACTCTTTCTTTCG TTGGATCTAATCTAGCCACATTGTCAGGACCAACTATGACTCCTGAAAGGTCTCTAAAATTAGC TCCCTTTCTCTTGGGAATTTGCAATATCCTTTGGTAGTTATCATTATCCAGTACCAATGGTCGA TGATCATACAATTTTGAGGATTTGGAATCTTTTGTAACATGAGCTCTGGGACCATGCACTTCAA CATTAAATGACCGAATGTATCTTTGGAATTCAGTTTGAGGACCCTTTACATACAGCATTTCATC ACGGCTTTCCCCATTTGCCACTTCTGGGAGATCAGAAAGAATGTCTTCAAGGACAATTGGTCTT GCTAGTTGCATTGGTGTGTCATTGGGCCAACCAACCAAATTACG
Genomic sequence	CTGTCTTTGACTGTTCCACGAAACCTGTAATTGTCAGGAAAGCCTTGCAACCGAGCACTTTCAC GAATAGTAAGCAGTCTGTCTTGTGCAGGATGTATCAAGGCCTGAAACATACCCTCAGTAATTAT TTTGAATCACAACCAAAGTGGATAAAAGAAATGAGAGAATCAAAGATAACCTGCATACGGGCAT TTGGAACTGTCAGCACGGTTCCCACTACCTCATCCCACCATACTCGACCAAAAGGTCTAAAAAT AAATTATAGAACGAACATATAAAGCATAAAGAAGAACAAATATGTCTACGAACAACACAACTAG ATAAACTGAAGTTTGGAACCAACCTTAAAGATTTACCATTCTCATAAGCTAGTATGCAATCAAG CACCTGACATGAAAAACAAGAACCCATAGCATGGTAAGCTAATCAAAATTTGCACAAACAGAGG TATAGTTCCACATAGGGGAGTTTTGTGGTTTCTTGTTAAATGTCTTACCAGAGGACGACCAGAT GGCAAAAGTACTCTTTCTTTCGTTGGATCTAATCTAGCCACATTGTCAGGACCAACTATGACTC CTGAAAGGTCTCTAAAATTAGCTCCCTGAAATAAGACAGATGAGACTATAAGGTTTAACCTACC AAACTTAAATCTGAATGTAAAAAGCATTTCAGCCAACCTTTCTCTTGGGAATTTGCAATATCCT TTGGTAGTTATCATTATCCAGTACCAATGGTCGATGATCATACAATTTTGAGGATTTGGAATCT TTTGTAACATGAGCTCTGGGACCATGCACTTCTGCATAAAATTTCATTCGTGAGTTTCTGATAT AGCTACAAGAAACATAAATATAATTGGTCAACAAAAGGTGTATTAGTTAATTCTTGGAAAAAAA ATGGAACACCATATAGAGAAAATTAACACCTAAAATGTTAAATTATTACACCCATCATATGCTG TTTTTCAATATTTCGCCAATTGAATGGATAATTCCTTGTTCCATATTTTACAATAATTGCTATT AAACAGACTTATAAATGATCATGGGAAAATAAACTGAACTCTGCAACTTAGTTTCTTTCTTTCT CTTTGCTAAGAAAACTAATCTAGTTATTATTATCTGCCCCCATGATTTGGACATTTTAATATTC GGTTGTGTATGGGAATACATATTCCTTGTTACAAAAACCTAAATCTAATATACAAGATCATGGA AGAATATCCAAGTTTATTTTACAGAAGTGTATGCGATCAACTCACCAACATTAAATGACCGAAT GTATCTTTGGAATTCAGTTTGAGGACCCTTTACATACAGCATTTCATCACGGCTTTCCCCATTT GCCACCTAATAATTCAACTTAAGTATCAAAATGCCATTCAAATTAGATATTTCAAAGATATAAT GTTGTCAGTTACTTCTGGGAGATCAGAAAGAATGTCTTCAAGGACAATTGGTCTTGCTAGTTGC ATTGGTGTGTCATTGGGCCAACCAACCAAATTACG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006042* osi_circ_016018 						
					
						PMCS
						0.354209644

Conservation Information
Conserved circRNAs	osi_circ_006042* osi_circ_016018
PMCS	0.354209644

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7637350-7635916(+)
7637181-7636254(+)
7637385-7637376(-)
						
						Potential amino acid sequence
						
							MSSRTIGLASCIGVSLGQPTKLRCL*(+)
MTECIFGIQFEDPLHTAFHHGFPHLPLLGDQKECLQGQLVLLVALVCHWANQPNYAVFDCSTKP
VIVRKALQPSTFTNSKQSVLCRMYQGLHTGIWNCQHGSHYLIPPYSTKRS*(+)
MQLARPIVLEDILSDLPEVANGESRDEMLYVKGPQTEFQRYIRSFNVEVHGPRAHVTKDSKSSK
LYDHRPLVLDNDNYQRILQIPKRKGANFRDLSGVIVGPDNVARLDPTKERVLLPSGRPLVLDCI
LAYENGKSLRPFGRVWWDEVVGTVLTVPNARMQALIHPAQDRLLTIRESARLQGFPDNYRFRGT
VKDSVIWLVGPMTHQCN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7637350-7635916(+) 7637181-7636254(+) 7637385-7637376(-)
Potential amino acid sequence	MSSRTIGLASCIGVSLGQPTKLRCL(+) MTECIFGIQFEDPLHTAFHHGFPHLPLLGDQKECLQGQLVLLVALVCHWANQPNYAVFDCSTKP VIVRKALQPSTFTNSKQSVLCRMYQGLHTGIWNCQHGSHYLIPPYSTKRS(+) MQLARPIVLEDILSDLPEVANGESRDEMLYVKGPQTEFQRYIRSFNVEVHGPRAHVTKDSKSSK LYDHRPLVLDNDNYQRILQIPKRKGANFRDLSGVIVGPDNVARLDPTKERVLLPSGRPLVLDCI LAYENGKSLRPFGRVWWDEVVGTVLTVPNARMQALIHPAQDRLLTIRESARLQGFPDNYRFRGT VKDSVIWLVGPMTHQCN*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os05g0224800_circ_g.1

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