Plant Circular RNA Database

Detail information of Os01g0911800_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os01g0911800_circ_g.3
					
						ID in PlantcircBase
						osa_circ_005423
					
						Alias
						Os_ciR5127
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 39732527-39735735  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0911800						
					
						Parent gene annotation
						
							Similar to Heavy meromyosin-like protein (Fragment). (Os01t09118
00-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0911800_circ_g.4 Os01g0911800_circ_g.5 Os01g0911800_circ_g.6 Os01g0911800_circ_g.7 Os01g0911800_circ_g.8 Os01g0911800_circ_g.9 						
					
						Support reads
						3/3
					
						Tissues
						root/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
						Os01t0911800-01:8

General Information
CircRNA Name	Os01g0911800_circ_g.3
ID in PlantcircBase	osa_circ_005423
Alias	Os_ciR5127
Organism	Oryza sativa
Position	chr1: 39732527-39735735 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0911800
Parent gene annotation	Similar to Heavy meromyosin-like protein (Fragment). (Os01t09118 00-01)
Parent gene strand	+
Alternative splicing	Os01g0911800_circ_g.4 Os01g0911800_circ_g.5 Os01g0911800_circ_g.6 Os01g0911800_circ_g.7 Os01g0911800_circ_g.8 Os01g0911800_circ_g.9
Support reads	3/3
Tissues	root/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	Os01t0911800-01:8

			
						 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  
						
							TTCCTTGTTAATAGTAATTGTTGCATTGCAGTTGGCAGTGGAGCGAGAAGAGTTGCTGCGAGCT
TTGAGAATTGAATCATCCAATTGCTCCAAGCTGAAGctcattgaggatttgacaaaagagaagt
tcgccttacaacgtactcttgagaaatctcaagaattggctcaaactttggccacagacaactc
agctttga

									
								

					

						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
						
							CTCATTGAGGATTTGACAAAAGAGAAGTTCGCCTTACAACGTACTCTTGAGAAATCTCAAGAAT
TGGCTCAAACTTTGGCCACAGACAACTCAGCTTTGACTGATAAGTTCAACCAACAGGTATTTCC
AAATCTCCATTTTGGTTTTTGGAGTTGGATCTAGTATCCTCACAAACTTTTGCCATTTATTATG
CAAGTCCACAACAGAAAAACACTTTCTTCACAATTAATAAACCAGTTTCTGCTATAACGTAGTA
TTTCAATGTCAAAGTTTCATTCTGCCCGTTTCTCTGTCTTTCCTTGTTGCTCTGCCTTATTCAC
GGTGAATGATATTCAACTAGCATAACATGCTTGCAAAAGTGTCTCTAGCAACTAGAAAATGCTA
AATGAGAATGGAATAGCTAAGCAATCACCCAAAATTTACCTTACAGTCAATACTTCTTATCTGA
TCAGTAAATCATCAATTCTTTTACAGCATTGGTATAAGGACAGAATCAATACTGATTAGTCATA
TTTCCAGTCACTTATTGTCTTGTGTATCATATTTATTATTTTGTTTGCAAATGCTTAGGCACAA
GTTATCAGCAACCTGACATCTGACATGGAGAGATTGCAGAACGAAATTCAAGCTCAACTGGTTA
GGCTTATTCCACCTTTTCTAGCAATCATTAAGATTCTGTAATTCCATGCTTGCTATGCTGACAT
GCTTTTGTTCTGTTGGTTTTTTAGTAGTACTATCGCTGTGTAATTTGGAAATATAATGTGCTAG
TTGCAAGACATATGTTAGCATAGAATATGACTTATGAAATGTAGAATGTCTCCGGATATGAGGA
GCTAGGGAATGAGTTCATAAGATCACATGGTTCACTATGTACCCAGCATGCACAATATGTTTAG
ATTTTGGTGTTTGACTAGGCAACTGGCTGAAGTATGGCGCTGAACTATTGCTTGCTAAATGCCT
AATTCATATGAAAGTATCTCCACTAAATGTTTAGGTTACTTAGTGTACATTTGACTTACTGATG
TTTCTGGTAGTTAGCATCATCTGTGCACTCAGTGCTAGTATCTATCAATATGAAACTTATGATT
TAGGGCCAGTTTGAATGTGCATATTGCCTGAGCTTACTTAGGGGCACGCAACACAGAACATGTT
ATCAGTGCATTATTAATTAAGTATTAACTATTATAAACTTGAAAAATGGATTTTTTGAAGAAAC
TTCATATACTTTTTTTTTTTGCATAAAACACACCATTTAGCAGTTCGGAAAATGTGACTAACAA
AAAACGAGGAAGTTGTAGTTTGGAGTTGAAGTTTTCTCATAATTTGTATAGTTTTCTTACCAAC
TCCAATTTTTCAACAGCTGGCACTTGAGTCTGTCAGAACGGAATATGCTAATGCCCAGCTAGAA
TGCAATGCTGCAGATGAGAGGGCCAAAGTTCTTGCAGCAGAAGTCATTCTACTTGAAGATAAGG
TGCTTAGCTATATACTCGTCTGCTTCCTCTCTAATGTTGCAAATCAACCTAACCTTCTTAGTGG
GATAATAATATTGACACTGTTTATAGTTTTTGAATGCTCATTATTTTGAGCAATGTTTTTTTGG
AGTATGTTATTATACTATACCTTGAGTACATTAAGCCCTAGAGGTGTCACAGGCTCACAGCAAC
AAATCAAAGTATAATGACAGATATCCTATACACCTGCAGGTAGGTAATGCCTATTATATTCAAG
TTTTAATGCATCAGATGTAAATATATAATATCCCTTGATATGCCAAACATGCAGCTGCTGTTTT
TTTATCTAACACTTCTCTTTAAGGCACTATTTATCAAAAGCGCATGCAGTTTGATATATCGCTA
TTTTTTAGGCTCTTAGACTGAGGTCAAGTGAGTTAAAGCTTGAAAAGGAAATTGAGGGTTTGAG
CTCTGAGATTTCTTCATACAGGTGAGGTTTTCTGCTATGAGTGCATGGTATGTGTTTTACAAGG
TGGGGAGATCAATTGATAAGTGAAATGGGCTTCAAATATAAATGTGAAAGAAAGTTTCTGGTTT
TTCTCACATTGGCATTCTTGAAATTGTTATGCGAAAAAAATATGTGAGTCTTGTGTTAACATGC
AAAAAACATGACATGAGTTTAAGTTTACTGAACTCACACACTGATCATCCGAGGGTACTGACAG
TGTTTCCTTTACGATTTTCTTTTACTATGCACAGGCGCAAAGTTTCTAGTCTAGAGAAGGAGCG
TCAACATCTTCAATCTACTGTTGAGGCTCTTCAAGAAGGTAGTTACCGTTTTACTCTGATGTAA
AACTTTTTTGAACTCGTTCTTTATCCCATGCCCAACTCAATTATCTGGTGAGTCCTAGAAAATC
ATTAGTTGTGTTCACATCTTGCACGCACATTTTTGTTCCCTATTATTTAAGCCCCATACTCACA
CATCCTTTAGTGTCACTTATTTTTGGCTGTCAAATAACTAAAACTAAACTAGAAATTTATCTGT
AATATTCTAGTTGGAATAAGACTTGCATGTGTGTGATAGACTTAATTTATGCATGAATATTGCC
GGTTGTAAACTTGACTTCACATTGATACTTTTGGACAGAAAAGAAACTCCTACACTCTAAATTG
AGGAATACTTCTGTGACTGAGAAGGTCAATATTATAGAAAAACCTTCAGCTGATAAAAGAGATG
CATCAACTGCAACAGAAGATCTAGGTATGAATGTTGATCTCCCCTTTTGTTTGATATCTATGAA
TATGTATTTCAATTTTCAACTAGTAGTCTGCTTGACACGAAATATGCATCTTCAGATACAGGGG
AAAGCAGCTCTTCAGAAACCCTTACCAGTGCCATTGACACAGTAGAAGATGGTGAAACATCTGT
ATCGCGGTCCAATAATGTGGCTGATTTTACTTATTTAGAAGAGGTGTCTTCTAGCATCCCACAT
GATCAGCTTAGAATGATCGACAATATCAACTCCTTGATGTCAGAGGTAATCTCTTTGATGTGCA
AAAATCCAGTGTGGTTGGTACTTTATATCACTTACATTGATCGATTGCACCTAAATAACCTTAA
ACCACAGCACTTGAGTTTCATAGCCTACAAAATTTACTTCCTTGTTAATAGTAATTGTTGCATT
GCAGTTGGCAGTGGAGCGAGAAGAGTTGCTGCGAGCTTTGAGAATTGAATCATCCAATTGCTCC
AAGCTGAAG
						
					

			
		

Sequences
Splice junction sequence	TTCCTTGTTAATAGTAATTGTTGCATTGCAGTTGGCAGTGGAGCGAGAAGAGTTGCTGCGAGCT TTGAGAATTGAATCATCCAATTGCTCCAAGCTGAAGctcattgaggatttgacaaaagagaagt tcgccttacaacgtactcttgagaaatctcaagaattggctcaaactttggccacagacaactc agctttga
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	CTCATTGAGGATTTGACAAAAGAGAAGTTCGCCTTACAACGTACTCTTGAGAAATCTCAAGAAT TGGCTCAAACTTTGGCCACAGACAACTCAGCTTTGACTGATAAGTTCAACCAACAGGTATTTCC AAATCTCCATTTTGGTTTTTGGAGTTGGATCTAGTATCCTCACAAACTTTTGCCATTTATTATG CAAGTCCACAACAGAAAAACACTTTCTTCACAATTAATAAACCAGTTTCTGCTATAACGTAGTA TTTCAATGTCAAAGTTTCATTCTGCCCGTTTCTCTGTCTTTCCTTGTTGCTCTGCCTTATTCAC GGTGAATGATATTCAACTAGCATAACATGCTTGCAAAAGTGTCTCTAGCAACTAGAAAATGCTA AATGAGAATGGAATAGCTAAGCAATCACCCAAAATTTACCTTACAGTCAATACTTCTTATCTGA TCAGTAAATCATCAATTCTTTTACAGCATTGGTATAAGGACAGAATCAATACTGATTAGTCATA TTTCCAGTCACTTATTGTCTTGTGTATCATATTTATTATTTTGTTTGCAAATGCTTAGGCACAA GTTATCAGCAACCTGACATCTGACATGGAGAGATTGCAGAACGAAATTCAAGCTCAACTGGTTA GGCTTATTCCACCTTTTCTAGCAATCATTAAGATTCTGTAATTCCATGCTTGCTATGCTGACAT GCTTTTGTTCTGTTGGTTTTTTAGTAGTACTATCGCTGTGTAATTTGGAAATATAATGTGCTAG TTGCAAGACATATGTTAGCATAGAATATGACTTATGAAATGTAGAATGTCTCCGGATATGAGGA GCTAGGGAATGAGTTCATAAGATCACATGGTTCACTATGTACCCAGCATGCACAATATGTTTAG ATTTTGGTGTTTGACTAGGCAACTGGCTGAAGTATGGCGCTGAACTATTGCTTGCTAAATGCCT AATTCATATGAAAGTATCTCCACTAAATGTTTAGGTTACTTAGTGTACATTTGACTTACTGATG TTTCTGGTAGTTAGCATCATCTGTGCACTCAGTGCTAGTATCTATCAATATGAAACTTATGATT TAGGGCCAGTTTGAATGTGCATATTGCCTGAGCTTACTTAGGGGCACGCAACACAGAACATGTT ATCAGTGCATTATTAATTAAGTATTAACTATTATAAACTTGAAAAATGGATTTTTTGAAGAAAC TTCATATACTTTTTTTTTTTGCATAAAACACACCATTTAGCAGTTCGGAAAATGTGACTAACAA AAAACGAGGAAGTTGTAGTTTGGAGTTGAAGTTTTCTCATAATTTGTATAGTTTTCTTACCAAC TCCAATTTTTCAACAGCTGGCACTTGAGTCTGTCAGAACGGAATATGCTAATGCCCAGCTAGAA TGCAATGCTGCAGATGAGAGGGCCAAAGTTCTTGCAGCAGAAGTCATTCTACTTGAAGATAAGG TGCTTAGCTATATACTCGTCTGCTTCCTCTCTAATGTTGCAAATCAACCTAACCTTCTTAGTGG GATAATAATATTGACACTGTTTATAGTTTTTGAATGCTCATTATTTTGAGCAATGTTTTTTTGG AGTATGTTATTATACTATACCTTGAGTACATTAAGCCCTAGAGGTGTCACAGGCTCACAGCAAC AAATCAAAGTATAATGACAGATATCCTATACACCTGCAGGTAGGTAATGCCTATTATATTCAAG TTTTAATGCATCAGATGTAAATATATAATATCCCTTGATATGCCAAACATGCAGCTGCTGTTTT TTTATCTAACACTTCTCTTTAAGGCACTATTTATCAAAAGCGCATGCAGTTTGATATATCGCTA TTTTTTAGGCTCTTAGACTGAGGTCAAGTGAGTTAAAGCTTGAAAAGGAAATTGAGGGTTTGAG CTCTGAGATTTCTTCATACAGGTGAGGTTTTCTGCTATGAGTGCATGGTATGTGTTTTACAAGG TGGGGAGATCAATTGATAAGTGAAATGGGCTTCAAATATAAATGTGAAAGAAAGTTTCTGGTTT TTCTCACATTGGCATTCTTGAAATTGTTATGCGAAAAAAATATGTGAGTCTTGTGTTAACATGC AAAAAACATGACATGAGTTTAAGTTTACTGAACTCACACACTGATCATCCGAGGGTACTGACAG TGTTTCCTTTACGATTTTCTTTTACTATGCACAGGCGCAAAGTTTCTAGTCTAGAGAAGGAGCG TCAACATCTTCAATCTACTGTTGAGGCTCTTCAAGAAGGTAGTTACCGTTTTACTCTGATGTAA AACTTTTTTGAACTCGTTCTTTATCCCATGCCCAACTCAATTATCTGGTGAGTCCTAGAAAATC ATTAGTTGTGTTCACATCTTGCACGCACATTTTTGTTCCCTATTATTTAAGCCCCATACTCACA CATCCTTTAGTGTCACTTATTTTTGGCTGTCAAATAACTAAAACTAAACTAGAAATTTATCTGT AATATTCTAGTTGGAATAAGACTTGCATGTGTGTGATAGACTTAATTTATGCATGAATATTGCC GGTTGTAAACTTGACTTCACATTGATACTTTTGGACAGAAAAGAAACTCCTACACTCTAAATTG AGGAATACTTCTGTGACTGAGAAGGTCAATATTATAGAAAAACCTTCAGCTGATAAAAGAGATG CATCAACTGCAACAGAAGATCTAGGTATGAATGTTGATCTCCCCTTTTGTTTGATATCTATGAA TATGTATTTCAATTTTCAACTAGTAGTCTGCTTGACACGAAATATGCATCTTCAGATACAGGGG AAAGCAGCTCTTCAGAAACCCTTACCAGTGCCATTGACACAGTAGAAGATGGTGAAACATCTGT ATCGCGGTCCAATAATGTGGCTGATTTTACTTATTTAGAAGAGGTGTCTTCTAGCATCCCACAT GATCAGCTTAGAATGATCGACAATATCAACTCCTTGATGTCAGAGGTAATCTCTTTGATGTGCA AAAATCCAGTGTGGTTGGTACTTTATATCACTTACATTGATCGATTGCACCTAAATAACCTTAA ACCACAGCACTTGAGTTTCATAGCCTACAAAATTTACTTCCTTGTTAATAGTAATTGTTGCATT GCAGTTGGCAGTGGAGCGAGAAGAGTTGCTGCGAGCTTTGAGAATTGAATCATCCAATTGCTCC AAGCTGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002616* 						
					
						PMCS
						0.211552823

Conservation Information
Conserved circRNAs	osi_circ_002616*
PMCS	0.211552823

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							39733128-39735732(+)
39732533-39735475(-)
						
						Potential amino acid sequence
						
							MERLQNEIQAQLLALESVRTEYANAQLECNAADERAKVLAAEVILLEDKALRLRSSELKLEKEI
EGLSSEISSYRRKVSSLEKERQHLQSTVEALQEEKKLLHSKLRNTSVTEKVNIIEKPSADKRDA
STATEDLDTGESSSSETLTSAIDTVEDGETSVSRSNNVADFTYLEEVSSSIPHDQLRMIDNINS
LMSELAVEREELLRALRIESSNCSKLKLIEDLTKEKFALQRTLEKSQELAQTLATDNSALTDKF
NQQAQVISNLTSDMERLQNEIQAQLLALESVRTEYANAQLECNAADERAKVLAAEVILLEDKAL
RLRSSELKLEKEIEGLSSEISSYRRKVSSLEKERQHLQSTVEALQEEKKLLHSKLRNTSVTEKV
NIIEKPSADKRDASTATEDLDTGESSSSETLTSAIDTVEDGETSVSRSNNVADFTYLEEVSSSI
PHDQLRMIDNINSLMSELAVEREELLRALRIESSNCSKLKLIEDLTKEKFALQRTLEKSQELAQ
TLATDNSALTDKFNQQAQVISNLTSDMERLQNEIQAQLLALESVRTEYANAQLECNAADERAKV
LAAEVILLEDKALRLRSSELKLEKEIEGLSSEISSYRRKVSSLEKERQHLQSTVEALQEEKKLL
HSKLRNTSVTEKVNIIEKPSADKRDASTATEDLDTGESSSSETLTSAIDTVEDGETSVSRSNNV
ADFTYLEEVSSSIPHDQLRMIDNINSLMSELAVEREELLRALRIESSNCSKLKLIEDLTKEKFA
LQRTLEKSQELAQTLATDNSALTDKFNQQAQVISNLTSDMERLQNEIQAQLLALESVRTEYANA
QLECNAADERAKVLAAEVILLEDKALRLRSSELKLEKEIEGLSSEISSYRRKVSSLEKERQHLQ
STVEALQEEKKLLHSKLRNTSVTEKVNIIEKPSADKRDASTATEDLDTGESSSSETLTSAIDTV
EDGETSVSRSNNVADFTYLEEVSSSIPHDQLRMIDNINSLMSELAVEREELLRALRIESSNCSK
LK(+)
MSFSLEQLDDSILKARSNSSRSTANSDIKELILSIILS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	39733128-39735732(+) 39732533-39735475(-)
Potential amino acid sequence	MERLQNEIQAQLLALESVRTEYANAQLECNAADERAKVLAAEVILLEDKALRLRSSELKLEKEI EGLSSEISSYRRKVSSLEKERQHLQSTVEALQEEKKLLHSKLRNTSVTEKVNIIEKPSADKRDA STATEDLDTGESSSSETLTSAIDTVEDGETSVSRSNNVADFTYLEEVSSSIPHDQLRMIDNINS LMSELAVEREELLRALRIESSNCSKLKLIEDLTKEKFALQRTLEKSQELAQTLATDNSALTDKF NQQAQVISNLTSDMERLQNEIQAQLLALESVRTEYANAQLECNAADERAKVLAAEVILLEDKAL RLRSSELKLEKEIEGLSSEISSYRRKVSSLEKERQHLQSTVEALQEEKKLLHSKLRNTSVTEKV NIIEKPSADKRDASTATEDLDTGESSSSETLTSAIDTVEDGETSVSRSNNVADFTYLEEVSSSI PHDQLRMIDNINSLMSELAVEREELLRALRIESSNCSKLKLIEDLTKEKFALQRTLEKSQELAQ TLATDNSALTDKFNQQAQVISNLTSDMERLQNEIQAQLLALESVRTEYANAQLECNAADERAKV LAAEVILLEDKALRLRSSELKLEKEIEGLSSEISSYRRKVSSLEKERQHLQSTVEALQEEKKLL HSKLRNTSVTEKVNIIEKPSADKRDASTATEDLDTGESSSSETLTSAIDTVEDGETSVSRSNNV ADFTYLEEVSSSIPHDQLRMIDNINSLMSELAVEREELLRALRIESSNCSKLKLIEDLTKEKFA LQRTLEKSQELAQTLATDNSALTDKFNQQAQVISNLTSDMERLQNEIQAQLLALESVRTEYANA QLECNAADERAKVLAAEVILLEDKALRLRSSELKLEKEIEGLSSEISSYRRKVSSLEKERQHLQ STVEALQEEKKLLHSKLRNTSVTEKVNIIEKPSADKRDASTATEDLDTGESSSSETLTSAIDTV EDGETSVSRSNNVADFTYLEEVSSSIPHDQLRMIDNINSLMSELAVEREELLRALRIESSNCSK LK(+) MSFSLEQLDDSILKARSNSSRSTANSDIKELILSIILS*(-)
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 Os01g0911800_circ_g.3

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