Plant Circular RNA Database

Detail information of Os11g0175500_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os11g0175500_circ_g.2
					
						ID in PlantcircBase
						osa_circ_008680
					
						Alias
						Os_ciR7219
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 3750875-3753695  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os11g0175500						
					
						Parent gene annotation
						
							Zinc finger, RING/FYVE/PHD-type domain containing protein. (Os11
t0175500-01);Zinc finger, RING/FYVE/PHD-type domain containing p
rotein. (Os11t0175500-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os11g0175500_circ_g.1 						
					
						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
						Os11t0175500-01:9
Os11t0175500-02:10

General Information
CircRNA Name	Os11g0175500_circ_g.2
ID in PlantcircBase	osa_circ_008680
Alias	Os_ciR7219
Organism	Oryza sativa
Position	chr11: 3750875-3753695 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os11g0175500
Parent gene annotation	Zinc finger, RING/FYVE/PHD-type domain containing protein. (Os11 t0175500-01);Zinc finger, RING/FYVE/PHD-type domain containing p rotein. (Os11t0175500-02)
Parent gene strand	+
Alternative splicing	Os11g0175500_circ_g.1
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	Os11t0175500-01:9 Os11t0175500-02:10

			
						 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  
						
							TCTCCTCTCTAGATTACAGAAAGATGTATACAGCAATCAGGCAAAGCATTGCAAGCTATAATCT
CAGAGTGGATAGTGAAGTTTGACAATAAGGAGCTTGggcatctgttgtacacctttgatataac
aggcctgaatgaccaggacaaaactaatatcaaggtattttgttgaaatgaatgttgatcaaca
acaacctc

									
								

					

						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
						
							GGCATCTGTTGTACACCTTTGATATAACAGGCCTGAATGACCAGGACAAAACTAATATCAAGGT
ATTTTGTTGAAATGAATGTTGATCAACAACAACCTCGGTGCATAAACGTCACTAACTTTTATTT
AAATGATGATGTCAGATTGTGCTGGATATTGAGAATGCAAAGTGCAGCATATGCTTAAATTTGT
GGCATGATGTTGTTACTGTTGCTCCATGCCTCCACAACTTCTGGTACTTTTGCCAATTTTCCTA
GCTATTTTTGATTTATCTCAAAATTCTGATTGGTGCTCATTTCTGTATTCCTTTTAAGCAACGG
TTGCTTCTCTGAGTGGTTAAGAAGGTCTTCAGCTAATTCGCGTGATAAAAGTCAGAGTGCTGCC
TGTCCACAATGTAGGACGGCAGTGCAATCAGTTGGTAGGAATCACTTCCTACATAATATTGAAG
AGGTGTGATAGTTGTGTTTAGTGACTTAACTCCTCAATACTGTTTAAGTGCTACCTATTGTACA
GCTGAGATGTTTATTATAGTTCTGCTTTTGTAGGCTATACTGCAAGCTTTTTCATCGCTACAGC
GGTCTGATGAGGAGATTGCATTGTTGGAGTCATATGCCTCGGTCAAGACAAATATTGTGAGTTA
AAAATCTTACTAAGAAATTGTTGATTTCCACCATTTTCTCAATGGATTGTATAAAGTGTTGCAC
CAGTCTCTTATCTGCCAGCACTGATATTTGTCCCTGTTATCTGCCATAAAATCGAATATTGTTT
TAAAATCATCACCCTTTTTTAACTTGTTTATATATTGTTGTTCATTTTAGAGAAGTGCCTTCCT
CAGTCATTTGTTATTAGTTGCTGATAAATATTTAGTTTTGCTGTTGATAGCTTTTGAACTTTAA
AAAGCTTGTAGTTAGCCTTCCCTACAAATAAAAAATGGCAGCTTGTAATTATGGACAATTCAAG
GCCTTTCTCATGATAATGTGATGTTATATATAAATTGAAGGTTGCATGAGTTTTGTCATAAAAT
ATTGTTGGGGCTAATTTTAATTACTCAATTCATATGAAATTTAATTGTGAAACTTTATCTAAGT
AGGCGCAGCAGTTGTATTTTAACATTTCTGCTATTCAGTCTATGATGTATTTTAACCTAAAATT
CACAGGCATGGCATGCATTCATCCCTTTTCCATGGTCTTATGCTGGTGCGATGATTCTTAGATC
CACCATGGGGATAAACATCTGTCAGAGGGAGGTCAGATGGCAACGACTCAAAGTAGAACAGAGC
TAGGTGAAGTAGGGTACAATTGAGGGAGCAATAGATCTATAATAGCTTGCCATGAGAGAGACCA
GAGCTGACTAGAGACTTGTTTATTCATCTTAGCTTAACGGAAATGTATAATCCCCATCCTTGTG
ATAATTTGACCCTGAAGCTTATCTCTAAAATAAGGAATAGATACCAACCCAATCTAATCTGTTA
AAATCAACTGGCATGAACAGTACCCCTGAACATGACAATTTGTCTGTCTGATGGATAAAATGCC
TTATTATTAGAGCCAGTTGAGTCACAGGACAATTAATACCCGACTCACCAAGGTTATAGGTGTT
TTCTATGCTATAATATATATGTTGCAAGTATATTTGTTTTGGTATTTAAATGATCAGTCCCATG
ATTCTGAGTTGCTGTCAATGTTCATACCTTAGGTTTTGGGGAAACAGAAAATCCAGTCAAGGAA
GCGCCGTTTGCCACGTTCAAATGATGAAGCTAACCATACTAACCATGCTGATTTTCTATGCCCT
CAATGTGGTAAGTGTTGAAATTTCATTTTTAATATTTTTATTCTTCTTTTTAGACATGTTACTC
AAATGAGAAAAATAAATGCAGGTGCTGAATTTGGTGGATTTAGGTGCAGTCCAGGTGCTCCACA
CTTGCCGTGTAATGGATGTGGAGGAATGATGCCAGCCAGACCTGACACCAGTATACCACAAAAA
TGTAACCGATAATTCTGACCATATTACAAGATTGTAATTCTATAATTCAGTTGTTATTTGATTG
ATTATTCAACGTAACCATGTGTGCTGCCGTTATGTTAGGAACTGGACATATCTATGTTCATATT
TTTTTCTTGCCATACTAATATGCTTGGTATCAATTAGATGAGCTAAAATTATTTTTATTACATA
ATTGAGGAGTATGATAGATATGCACGATTGCCTCAAGATGTATTTTGAAGTTTGCAGGCATCAT
GAGTAGCTTGATTGCACCTTTTCCCTACTGAATGTTTATGAAAATTATATCCTCTGTATTCTTT
TTAATTTTCTGGCTCTAATCTATCAACCTTATATTGCAGGTTTGGGATGTGATAGGGCATTTTG
TGGAGCTTATTGGTGTTCCCAAGGAGTGAATTCAAGTCAGCATAATCCAATCTGTGATCAGGAA
ACTTTCAAGATGGTAAGATAATCTATTACTTATATCTTTTAGACCCCACTGTACTCCATCATCA
TACAGTACATGTTGTGTACTTATATTCACTGTTTGACATGTTGTGTGGATAACTGCATAACTTT
GCAGATCTCTCAGCGCCATATCTCTAGTGTTCCTGACACAGTACATGGAGGCAATCAATACGAG
AAAGATGTAGGAAGTTTTAACATGATCTTATACTATCATATTGCTCCTTTTATACCCCAGATAG
TAGTTTCACATGTGAGTACTGAGTATAGTATTTTCTCCTCTCTAGATTACAGAAAGATGTATAC
AGCAATCAGGCAAAGCATTGCAAGCTATAATCTCAGAGTGGATAGTGAAGTTTGACAATAAGGA
GCTTG
						
					

			
		

Sequences
Splice junction sequence	TCTCCTCTCTAGATTACAGAAAGATGTATACAGCAATCAGGCAAAGCATTGCAAGCTATAATCT CAGAGTGGATAGTGAAGTTTGACAATAAGGAGCTTGggcatctgttgtacacctttgatataac aggcctgaatgaccaggacaaaactaatatcaaggtattttgttgaaatgaatgttgatcaaca acaacctc
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	GGCATCTGTTGTACACCTTTGATATAACAGGCCTGAATGACCAGGACAAAACTAATATCAAGGT ATTTTGTTGAAATGAATGTTGATCAACAACAACCTCGGTGCATAAACGTCACTAACTTTTATTT AAATGATGATGTCAGATTGTGCTGGATATTGAGAATGCAAAGTGCAGCATATGCTTAAATTTGT GGCATGATGTTGTTACTGTTGCTCCATGCCTCCACAACTTCTGGTACTTTTGCCAATTTTCCTA GCTATTTTTGATTTATCTCAAAATTCTGATTGGTGCTCATTTCTGTATTCCTTTTAAGCAACGG TTGCTTCTCTGAGTGGTTAAGAAGGTCTTCAGCTAATTCGCGTGATAAAAGTCAGAGTGCTGCC TGTCCACAATGTAGGACGGCAGTGCAATCAGTTGGTAGGAATCACTTCCTACATAATATTGAAG AGGTGTGATAGTTGTGTTTAGTGACTTAACTCCTCAATACTGTTTAAGTGCTACCTATTGTACA GCTGAGATGTTTATTATAGTTCTGCTTTTGTAGGCTATACTGCAAGCTTTTTCATCGCTACAGC GGTCTGATGAGGAGATTGCATTGTTGGAGTCATATGCCTCGGTCAAGACAAATATTGTGAGTTA AAAATCTTACTAAGAAATTGTTGATTTCCACCATTTTCTCAATGGATTGTATAAAGTGTTGCAC CAGTCTCTTATCTGCCAGCACTGATATTTGTCCCTGTTATCTGCCATAAAATCGAATATTGTTT TAAAATCATCACCCTTTTTTAACTTGTTTATATATTGTTGTTCATTTTAGAGAAGTGCCTTCCT CAGTCATTTGTTATTAGTTGCTGATAAATATTTAGTTTTGCTGTTGATAGCTTTTGAACTTTAA AAAGCTTGTAGTTAGCCTTCCCTACAAATAAAAAATGGCAGCTTGTAATTATGGACAATTCAAG GCCTTTCTCATGATAATGTGATGTTATATATAAATTGAAGGTTGCATGAGTTTTGTCATAAAAT ATTGTTGGGGCTAATTTTAATTACTCAATTCATATGAAATTTAATTGTGAAACTTTATCTAAGT AGGCGCAGCAGTTGTATTTTAACATTTCTGCTATTCAGTCTATGATGTATTTTAACCTAAAATT CACAGGCATGGCATGCATTCATCCCTTTTCCATGGTCTTATGCTGGTGCGATGATTCTTAGATC CACCATGGGGATAAACATCTGTCAGAGGGAGGTCAGATGGCAACGACTCAAAGTAGAACAGAGC TAGGTGAAGTAGGGTACAATTGAGGGAGCAATAGATCTATAATAGCTTGCCATGAGAGAGACCA GAGCTGACTAGAGACTTGTTTATTCATCTTAGCTTAACGGAAATGTATAATCCCCATCCTTGTG ATAATTTGACCCTGAAGCTTATCTCTAAAATAAGGAATAGATACCAACCCAATCTAATCTGTTA AAATCAACTGGCATGAACAGTACCCCTGAACATGACAATTTGTCTGTCTGATGGATAAAATGCC TTATTATTAGAGCCAGTTGAGTCACAGGACAATTAATACCCGACTCACCAAGGTTATAGGTGTT TTCTATGCTATAATATATATGTTGCAAGTATATTTGTTTTGGTATTTAAATGATCAGTCCCATG ATTCTGAGTTGCTGTCAATGTTCATACCTTAGGTTTTGGGGAAACAGAAAATCCAGTCAAGGAA GCGCCGTTTGCCACGTTCAAATGATGAAGCTAACCATACTAACCATGCTGATTTTCTATGCCCT CAATGTGGTAAGTGTTGAAATTTCATTTTTAATATTTTTATTCTTCTTTTTAGACATGTTACTC AAATGAGAAAAATAAATGCAGGTGCTGAATTTGGTGGATTTAGGTGCAGTCCAGGTGCTCCACA CTTGCCGTGTAATGGATGTGGAGGAATGATGCCAGCCAGACCTGACACCAGTATACCACAAAAA TGTAACCGATAATTCTGACCATATTACAAGATTGTAATTCTATAATTCAGTTGTTATTTGATTG ATTATTCAACGTAACCATGTGTGCTGCCGTTATGTTAGGAACTGGACATATCTATGTTCATATT TTTTTCTTGCCATACTAATATGCTTGGTATCAATTAGATGAGCTAAAATTATTTTTATTACATA ATTGAGGAGTATGATAGATATGCACGATTGCCTCAAGATGTATTTTGAAGTTTGCAGGCATCAT GAGTAGCTTGATTGCACCTTTTCCCTACTGAATGTTTATGAAAATTATATCCTCTGTATTCTTT TTAATTTTCTGGCTCTAATCTATCAACCTTATATTGCAGGTTTGGGATGTGATAGGGCATTTTG TGGAGCTTATTGGTGTTCCCAAGGAGTGAATTCAAGTCAGCATAATCCAATCTGTGATCAGGAA ACTTTCAAGATGGTAAGATAATCTATTACTTATATCTTTTAGACCCCACTGTACTCCATCATCA TACAGTACATGTTGTGTACTTATATTCACTGTTTGACATGTTGTGTGGATAACTGCATAACTTT GCAGATCTCTCAGCGCCATATCTCTAGTGTTCCTGACACAGTACATGGAGGCAATCAATACGAG AAAGATGTAGGAAGTTTTAACATGATCTTATACTATCATATTGCTCCTTTTATACCCCAGATAG TAGTTTCACATGTGAGTACTGAGTATAGTATTTTCTCCTCTCTAGATTACAGAAAGATGTATAC AGCAATCAGGCAAAGCATTGCAAGCTATAATCTCAGAGTGGATAGTGAAGTTTGACAATAAGGA GCTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.111017145

Conservation Information
Conserved circRNAs	NA
PMCS	0.111017145

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3752821-3753692(+)
3751054-3753491(-)
						
						Potential amino acid sequence
						
							MMPARPDTSIPQKCLGCDRAFCGAYWCSQGVNSSQHNPICDQETFKMISQRHISSVPDTVHGGN
QYEKDITERCIQQSGKALQAIISEWIVKFDNKELGHLLYTFDITGLNDQDKTNIKIVLDIENAK
CSICLNLWHDVVTVAPCLHNFCNGCFSEWLRRSSANSRDKSQSAACPQCRTAVQSVGRNHFLHN
IEEAILQAFSSLQRSDEEIALLESYASVKTNIVLGKQKIQSRKRRLPRSNDEANHTNHADFLCP
QCGAEFGGFRCSPGAPHLPCNGCGGMMPARPDTSIPQKCLGCDRAFCGAYWCSQGVNSSQHNPI
CDQETFKMISQRHISSVPDTVHGGNQYEKDITERCIQQSGKALQAIISEWIVKFDNKELGHLLY
TFDITGLNDQDKTNIKIVLDIENAKCSICLNLWHDVVTVAPCLHNFCNGCFSEWLRRSSANSRD
KSQSAACPQCRTAVQSVGRNHFLHNIEEAILQAFSSLQRSDEEIALLESYASVKTNIVLGKQKI
QSRKRRLPRSNDEANHTNHADFLCPQCGAEFGGFRCSPGAPHLPCNGCGGMMPARPDTSIPQKC
LGCDRAFCGAYWCSQGVNSSQHNPICDQETFKMISQRHISSVPDTVHGGNQYEKDITERCIQQS
GKALQAIISEWIVKFDNKELGHLLYTFDITGLNDQDKTNIKIVLDIENAKCSICLNLWHDVVTV
APCLHNFCNGCFSEWLRRSSANSRDKSQSAACPQCRTAVQSVGRNHFLHNIEEAILQAFSSLQR
SDEEIALLESYASVKTNIVLGKQKIQSRKRRLPRSNDEANHTNHADFLCPQCGAEFGGFRCSPG
APHLPCNGCGGMMPARPDTSIPQKCLGCDRAFCGAYWCSQGVNSSQHNPICDQETFKMISQRHI
SSVPDTVHGGNQYEKDITERCIQQSGKALQAIISEWIVKFDNKEL(+)
MLHFAFSISSTILILVLSWSFRPVISKVYNRCPSSLLSNFTIHSEIIACNALPDCCIHLSVISF
SY*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3752821-3753692(+) 3751054-3753491(-)
Potential amino acid sequence	MMPARPDTSIPQKCLGCDRAFCGAYWCSQGVNSSQHNPICDQETFKMISQRHISSVPDTVHGGN QYEKDITERCIQQSGKALQAIISEWIVKFDNKELGHLLYTFDITGLNDQDKTNIKIVLDIENAK CSICLNLWHDVVTVAPCLHNFCNGCFSEWLRRSSANSRDKSQSAACPQCRTAVQSVGRNHFLHN IEEAILQAFSSLQRSDEEIALLESYASVKTNIVLGKQKIQSRKRRLPRSNDEANHTNHADFLCP QCGAEFGGFRCSPGAPHLPCNGCGGMMPARPDTSIPQKCLGCDRAFCGAYWCSQGVNSSQHNPI CDQETFKMISQRHISSVPDTVHGGNQYEKDITERCIQQSGKALQAIISEWIVKFDNKELGHLLY TFDITGLNDQDKTNIKIVLDIENAKCSICLNLWHDVVTVAPCLHNFCNGCFSEWLRRSSANSRD KSQSAACPQCRTAVQSVGRNHFLHNIEEAILQAFSSLQRSDEEIALLESYASVKTNIVLGKQKI QSRKRRLPRSNDEANHTNHADFLCPQCGAEFGGFRCSPGAPHLPCNGCGGMMPARPDTSIPQKC LGCDRAFCGAYWCSQGVNSSQHNPICDQETFKMISQRHISSVPDTVHGGNQYEKDITERCIQQS GKALQAIISEWIVKFDNKELGHLLYTFDITGLNDQDKTNIKIVLDIENAKCSICLNLWHDVVTV APCLHNFCNGCFSEWLRRSSANSRDKSQSAACPQCRTAVQSVGRNHFLHNIEEAILQAFSSLQR SDEEIALLESYASVKTNIVLGKQKIQSRKRRLPRSNDEANHTNHADFLCPQCGAEFGGFRCSPG APHLPCNGCGGMMPARPDTSIPQKCLGCDRAFCGAYWCSQGVNSSQHNPICDQETFKMISQRHI SSVPDTVHGGNQYEKDITERCIQQSGKALQAIISEWIVKFDNKEL(+) MLHFAFSISSTILILVLSWSFRPVISKVYNRCPSSLLSNFTIHSEIIACNALPDCCIHLSVISF SY*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os11g0175500_circ_g.2

Address

Any questions?

Supported by