Plant Circular RNA Database

Detail information of Os05g0235300_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0235300_circ_g.2
					
						ID in PlantcircBase
						osa_circ_027117
					
						Alias
						Os_ciR10289
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 8272203-8280461  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os05g0235300						
					
						Parent gene annotation
						
							Serine/threonine (Ser/Thr) protein kinase, Modulation of thylako
id membrane lipid biosynthesis, homeostasis (Os05t0235300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0235300_circ_g.1 Os05g0235300_circ_g.3 						
					
						Support reads
						2
					
						Tissues
						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  
						
							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
						Os05t0235300-01:21

General Information
CircRNA Name	Os05g0235300_circ_g.2
ID in PlantcircBase	osa_circ_027117
Alias	Os_ciR10289
Organism	Oryza sativa
Position	chr5: 8272203-8280461 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os05g0235300
Parent gene annotation	Serine/threonine (Ser/Thr) protein kinase, Modulation of thylako id membrane lipid biosynthesis, homeostasis (Os05t0235300-01)
Parent gene strand	+
Alternative splicing	Os05g0235300_circ_g.1 Os05g0235300_circ_g.3
Support reads	2
Tissues	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	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	Os05t0235300-01:21

			
						 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  
						
							AGGTACGAAAAATTGCACCGTTGGGATGAGGCCTTGAAGGCATACAAAGCAAAGTCATCTCAAG
CATCTGGGCCATTACAAAACTTGGATGCTACATTAGgagtaccatgtcagagaattggcaatat
cagttgcaggtagattgtctgaaaaaaatcctgcttatgtactgcctgcccttcgccgttatct
tatacagt

									
								

					

						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: 2395
Transcript exons: 8272203-8272324,8272402-8272501,8272586-8272681,8272765-
8272895,8274082-8274184,8274738-8274920,8274997-8275089,
8275183-8275218,8276037-8276138,8276262-8276372,8276675-
8276837,8276922-8277043,8277152-8277204,8277400-8277523,
8278032-8278214,8279044-8279196,8279501-8279653,8279738-
8279809,8279895-8280029,8280104-8280165,8280364-8280461
GAGTACCATGTCAGAGAATTGGCAATATCAGTTGCAGGTAGATTGTCTGAAAAAAATCCTGCTT
ATGTACTGCCTGCCCTTCGCCGTTATCTTATACAGTTGCTCACATATCTTGACCAAAGTATGGA
TAGCAAGTGTAGAGAGGAAAGTGCTAGATTGTTGGGTTGCTTAATTAGGAGTTGTGCACGACTC
ATTCTTCCTTATATTGCTCCAATTCACAAGGCACTAGTGGCTAGGTTACGTGAAGGAACAGGAC
CGAATGCTAATAATGCGCTTGCAGCAGGAGTGCTTGCTACTGTTGGAGAGTTGGCCAAAGTGGG
TGGTTTTGCAATGAGGCAATATCTTCCTGAGCTAATGCCTCTAGTTGTGGATGCTCTTTTGGAT
GGAGGTGCTGTTAGTAAAAGGGAAGTGGCAGTAGCAACCCTTGGACAAGTTATCCAAAGCACAG
GCTATGTTATCTCTCCTTATAATGAGTATCCTCCATTGCTTGGTTTACTCTTGAAATTGCTGAA
TGGCGAATTGGAATGGTCTACTAGACTGGAAGTGCTGAAGGTTTTAGGTATTATGGGTGCATTG
GACCCGCACGCACATAAGCGTAATCAACATAAGCTACCTGGTCAACATAGGGAGGTCTTGCGGC
CAACGATGGAAACAGCACAACATATTGTTTCCATGGAAGAACTGCCAACTGATTTCTGGCCATC
CTTTTCAGCATCTGAGGACTATTATTCAACAGTTGCAATTAGTTCTCTCATGCGGATTCTTCAT
GATCCTTCCCTTTCAAGTTATCATCAGATGGTGGTTGGCTCTCTTATATTTATTTTTAAGTCGA
TGGGACTTGGCTGTGTTCCATATTTACCAAAGGTTCTCCCTGAGCTATTCCGCGCTGTTCGCAT
GTGTGAGGATGGTGGTTTGAAAGAGTTCATTACCTGGAAGCTTGGGACATTGGTATCTATTGTT
CGACAGCACATTCGGAAATATTTACAAGAAATACTCTCTCTTGTGTCTGAATTGTGGACTTCCT
CATTCAGCTTACCTGCACCAAATCGGACTGTCCAAGGTCCACAAGCTTCTCCGGTTCTTCACCT
TGTTGAACAACTATGCTTGGCACTGAATGACGAATTCAGAATGTATATACTTCACATATTGCCA
AGTTGTATTCAAGTCCTGGGTGATGCTGAACGCTGCAATGACTATTACTATGTTCCTGACATAT
TGCACACCCTAGAGGTGTTTGGAGGAAATTTGGATGAGCACATGCACTTGGTTGCTCCAGTACT
TGTTCGGTTATTTAAAGTGGAGCTAGTTGATATCAGACGCCGTGCCATTGTCACTTTGACTAAA
CTCATACCTACGGTGCAGGTTGGTACTCATGTTTCGGTTTTGGTGCATCATCTAAAGCTAGTTT
TGGATGGAAACAATGATGATCTACGGAAAGATGCAGCAGAGGCGCTTTGTTGTCTTGCACATGC
TCTTGGAGAAGATTTTACAATATTCGTGTCATCAATACACAAGCTTCTTGTGAAGCACCATATG
CGGTATAGAAAATGGGATGAGATTGAAAATCGATTACTAAGGCGAGAGCCACTCATCTCTGAGA
ACTTATCAGTACAAAAGTACACACAATGCCCGCCTGAAGTCATTAGTGACCCTCTTGATGATTT
TGGTGGTGTTCCTTCTGAGGAGGCTGATGAAACACAGCGGCAACCAAGAAGTCATCAAGTCAAT
GATGTTCGACTGAGAAGTGCCGGTGAGGCTTCTCAAAGGAGCACTAGAGAAGATTGGGCTGAAT
GGATGAGGCACTTCAGTATTGCGCTTCTCAAAGAATCACCATCTCCTGCTTTACGCACTTGCGC
AAGACTAGCACAACTTCAGCCTTCTGTTGGTCGTGAGTTGTTTGCTGCGGGCTTTGCAAGTTGC
TGGGCCCAAATGAATGAAACATCCCAGGAGCAACTTGTGAGAAGTCTCAAGACTGCATTCTCAT
CTCAGAACATACCTCCAGAAATTCTTGCCACACTGCTGAACTTGGCAGAGTTTATGGAACATGA
TGAGAAGCCGCTTCCAATTGATACAAGACTGCTCGGTGCACTTGCTGAAAAGTGTCGAGCATTT
GCAAAAGCACTGCATTATAAAGAAATGGAGTTTGAAGCTGTATGTTCCAAGAAGATGGGTGCAA
ATCCTGTTACTGTTGTTGAATCTCTTATTCATATTAACAACCAATTACACCAGCATGAGGCAGC
TATTGGGATATTGACTTACTCACAACAACATTTAGAAGTTCAATTGAAGGAGTCCTGGTACGAA
AAATTGCACCGTTGGGATGAGGCCTTGAAGGCATACAAAGCAAAGTCATCTCAAGCATCTGGGC
CATTACAAAACTTGGATGCTACATTAG
						
					

						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	AGGTACGAAAAATTGCACCGTTGGGATGAGGCCTTGAAGGCATACAAAGCAAAGTCATCTCAAG CATCTGGGCCATTACAAAACTTGGATGCTACATTAGgagtaccatgtcagagaattggcaatat cagttgcaggtagattgtctgaaaaaaatcctgcttatgtactgcctgcccttcgccgttatct tatacagt
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: 2395 Transcript exons: 8272203-8272324,8272402-8272501,8272586-8272681,8272765- 8272895,8274082-8274184,8274738-8274920,8274997-8275089, 8275183-8275218,8276037-8276138,8276262-8276372,8276675- 8276837,8276922-8277043,8277152-8277204,8277400-8277523, 8278032-8278214,8279044-8279196,8279501-8279653,8279738- 8279809,8279895-8280029,8280104-8280165,8280364-8280461 GAGTACCATGTCAGAGAATTGGCAATATCAGTTGCAGGTAGATTGTCTGAAAAAAATCCTGCTT ATGTACTGCCTGCCCTTCGCCGTTATCTTATACAGTTGCTCACATATCTTGACCAAAGTATGGA TAGCAAGTGTAGAGAGGAAAGTGCTAGATTGTTGGGTTGCTTAATTAGGAGTTGTGCACGACTC ATTCTTCCTTATATTGCTCCAATTCACAAGGCACTAGTGGCTAGGTTACGTGAAGGAACAGGAC CGAATGCTAATAATGCGCTTGCAGCAGGAGTGCTTGCTACTGTTGGAGAGTTGGCCAAAGTGGG TGGTTTTGCAATGAGGCAATATCTTCCTGAGCTAATGCCTCTAGTTGTGGATGCTCTTTTGGAT GGAGGTGCTGTTAGTAAAAGGGAAGTGGCAGTAGCAACCCTTGGACAAGTTATCCAAAGCACAG GCTATGTTATCTCTCCTTATAATGAGTATCCTCCATTGCTTGGTTTACTCTTGAAATTGCTGAA TGGCGAATTGGAATGGTCTACTAGACTGGAAGTGCTGAAGGTTTTAGGTATTATGGGTGCATTG GACCCGCACGCACATAAGCGTAATCAACATAAGCTACCTGGTCAACATAGGGAGGTCTTGCGGC CAACGATGGAAACAGCACAACATATTGTTTCCATGGAAGAACTGCCAACTGATTTCTGGCCATC CTTTTCAGCATCTGAGGACTATTATTCAACAGTTGCAATTAGTTCTCTCATGCGGATTCTTCAT GATCCTTCCCTTTCAAGTTATCATCAGATGGTGGTTGGCTCTCTTATATTTATTTTTAAGTCGA TGGGACTTGGCTGTGTTCCATATTTACCAAAGGTTCTCCCTGAGCTATTCCGCGCTGTTCGCAT GTGTGAGGATGGTGGTTTGAAAGAGTTCATTACCTGGAAGCTTGGGACATTGGTATCTATTGTT CGACAGCACATTCGGAAATATTTACAAGAAATACTCTCTCTTGTGTCTGAATTGTGGACTTCCT CATTCAGCTTACCTGCACCAAATCGGACTGTCCAAGGTCCACAAGCTTCTCCGGTTCTTCACCT TGTTGAACAACTATGCTTGGCACTGAATGACGAATTCAGAATGTATATACTTCACATATTGCCA AGTTGTATTCAAGTCCTGGGTGATGCTGAACGCTGCAATGACTATTACTATGTTCCTGACATAT TGCACACCCTAGAGGTGTTTGGAGGAAATTTGGATGAGCACATGCACTTGGTTGCTCCAGTACT TGTTCGGTTATTTAAAGTGGAGCTAGTTGATATCAGACGCCGTGCCATTGTCACTTTGACTAAA CTCATACCTACGGTGCAGGTTGGTACTCATGTTTCGGTTTTGGTGCATCATCTAAAGCTAGTTT TGGATGGAAACAATGATGATCTACGGAAAGATGCAGCAGAGGCGCTTTGTTGTCTTGCACATGC TCTTGGAGAAGATTTTACAATATTCGTGTCATCAATACACAAGCTTCTTGTGAAGCACCATATG CGGTATAGAAAATGGGATGAGATTGAAAATCGATTACTAAGGCGAGAGCCACTCATCTCTGAGA ACTTATCAGTACAAAAGTACACACAATGCCCGCCTGAAGTCATTAGTGACCCTCTTGATGATTT TGGTGGTGTTCCTTCTGAGGAGGCTGATGAAACACAGCGGCAACCAAGAAGTCATCAAGTCAAT GATGTTCGACTGAGAAGTGCCGGTGAGGCTTCTCAAAGGAGCACTAGAGAAGATTGGGCTGAAT GGATGAGGCACTTCAGTATTGCGCTTCTCAAAGAATCACCATCTCCTGCTTTACGCACTTGCGC AAGACTAGCACAACTTCAGCCTTCTGTTGGTCGTGAGTTGTTTGCTGCGGGCTTTGCAAGTTGC TGGGCCCAAATGAATGAAACATCCCAGGAGCAACTTGTGAGAAGTCTCAAGACTGCATTCTCAT CTCAGAACATACCTCCAGAAATTCTTGCCACACTGCTGAACTTGGCAGAGTTTATGGAACATGA TGAGAAGCCGCTTCCAATTGATACAAGACTGCTCGGTGCACTTGCTGAAAAGTGTCGAGCATTT GCAAAAGCACTGCATTATAAAGAAATGGAGTTTGAAGCTGTATGTTCCAAGAAGATGGGTGCAA ATCCTGTTACTGTTGTTGAATCTCTTATTCATATTAACAACCAATTACACCAGCATGAGGCAGC TATTGGGATATTGACTTACTCACAACAACATTTAGAAGTTCAATTGAAGGAGTCCTGGTACGAA AAATTGCACCGTTGGGATGAGGCCTTGAAGGCATACAAAGCAAAGTCATCTCAAGCATCTGGGC CATTACAAAACTTGGATGCTACATTAG
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
						
							NA						
					
						PMCS
						0.211986673

Conservation Information
Conserved circRNAs	NA
PMCS	0.211986673

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8272404-8272240(+)
						
						Potential amino acid sequence
						
							MDSKCREESARLLGCLIRSCARLILPYIAPIHKALVARLREGTGPNANNALAAGVLATVGELAK
VGGFAMRQYLPELMPLVVDALLDGGAVSKREVAVATLGQVIQSTGYVISPYNEYPPLLGLLLKL
LNGELEWSTRLEVLKVLGIMGALDPHAHKRNQHKLPGQHREVLRPTMETAQHIVSMEELPTDFW
PSFSASEDYYSTVAISSLMRILHDPSLSSYHQMVVGSLIFIFKSMGLGCVPYLPKVLPELFRAV
RMCEDGGLKEFITWKLGTLVSIVRQHIRKYLQEILSLVSELWTSSFSLPAPNRTVQGPQASPVL
HLVEQLCLALNDEFRMYILHILPSCIQVLGDAERCNDYYYVPDILHTLEVFGGNLDEHMHLVAP
VLVRLFKVELVDIRRRAIVTLTKLIPTVQVGTHVSVLVHHLKLVLDGNNDDLRKDAAEALCCLA
HALGEDFTIFVSSIHKLLVKHHMRYRKWDEIENRLLRREPLISENLSVQKYTQCPPEVISDPLD
DFGGVPSEEADETQRQPRSHQVNDVRLRSAGEASQRSTREDWAEWMRHFSIALLKESPSPALRT
CARLAQLQPSVGRELFAAGFASCWAQMNETSQEQLVRSLKTAFSSQNIPPEILATLLNLAEFME
HDEKPLPIDTRLLGALAEKCRAFAKALHYKEMEFEAVCSKKMGANPVTVVESLIHINNQLHQHE
AAIGILTYSQQHLEVQLKESWYEKLHRWDEALKAYKAKSSQASGPLQNLDATLGVPCQRIGNIS
CR*(+)
						
						Sponge-miRNAs
						
							osa-miR6253 osa-miR2868 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8272404-8272240(+)
Potential amino acid sequence	MDSKCREESARLLGCLIRSCARLILPYIAPIHKALVARLREGTGPNANNALAAGVLATVGELAK VGGFAMRQYLPELMPLVVDALLDGGAVSKREVAVATLGQVIQSTGYVISPYNEYPPLLGLLLKL LNGELEWSTRLEVLKVLGIMGALDPHAHKRNQHKLPGQHREVLRPTMETAQHIVSMEELPTDFW PSFSASEDYYSTVAISSLMRILHDPSLSSYHQMVVGSLIFIFKSMGLGCVPYLPKVLPELFRAV RMCEDGGLKEFITWKLGTLVSIVRQHIRKYLQEILSLVSELWTSSFSLPAPNRTVQGPQASPVL HLVEQLCLALNDEFRMYILHILPSCIQVLGDAERCNDYYYVPDILHTLEVFGGNLDEHMHLVAP VLVRLFKVELVDIRRRAIVTLTKLIPTVQVGTHVSVLVHHLKLVLDGNNDDLRKDAAEALCCLA HALGEDFTIFVSSIHKLLVKHHMRYRKWDEIENRLLRREPLISENLSVQKYTQCPPEVISDPLD DFGGVPSEEADETQRQPRSHQVNDVRLRSAGEASQRSTREDWAEWMRHFSIALLKESPSPALRT CARLAQLQPSVGRELFAAGFASCWAQMNETSQEQLVRSLKTAFSSQNIPPEILATLLNLAEFME HDEKPLPIDTRLLGALAEKCRAFAKALHYKEMEFEAVCSKKMGANPVTVVESLIHINNQLHQHE AAIGILTYSQQHLEVQLKESWYEKLHRWDEALKAYKAKSSQASGPLQNLDATLGVPCQRIGNIS CR*(+)
Sponge-miRNAs	osa-miR6253 osa-miR2868
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os05g0235300_circ_g.2

Address

Any questions?

Supported by