Plant Circular RNA Database

Detail information of Os07g0288700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0288700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_033402
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 11175858-11176488  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0289050						
					
						Parent gene annotation
						
							Hypothetical protein. (Os07t0289050-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os07t0288700-02:2
Os07t0288700-01:2
Os07t0289050-00:2
Os07t0288700-02:2
Os07t0288700-01:2

General Information
CircRNA Name	Os07g0288700_circ_g.1
ID in PlantcircBase	osa_circ_033402
Alias	NA
Organism	Oryza sativa
Position	chr7: 11175858-11176488 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ui-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0289050
Parent gene annotation	Hypothetical protein. (Os07t0289050-00)
Parent gene strand	-
Alternative splicing	NA
Support reads	1
Tissues	shoot
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	Os07t0288700-02:2 Os07t0288700-01:2 Os07t0289050-00:2 Os07t0288700-02:2 Os07t0288700-01:2

			
						 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  
						
							GCACCAGCCCAGCACGGAGATGTTCGAGCTCTTCCATGGCCTCTGCCTCCTGGCCACTGGGAGG
ACGGTGTATTTTGGAGCAGCTTCAGATGCAATCGAGggaggctgagccccaacatgaaaatgag
aggagacatcctgatcaatggcctgcgagagaaactttcgtttggaacatccgtacgttttcac
ataaaatg

						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: 545
Transcript exons: 11175858-11175937,11176024-11176488
GGAGGCTGAGCCCCAACATGAAAATGAGAGGAGACATCCTGATCAATGGCCTGCGAGAGAAACT
TTCGTTTGGAACATCCGCCTACGTGACCCAAGAAAACGTGCTGATGGCGACGCTCACGGTGACG
GAGGCCGTCCACTACTCGGCGCAGCTGCAGCTGCCGGACTCGATGCCGGCGGAAGACAAGCGGG
CCCGCGCCGACCGCGCCATCCGCCAGATGGGGCTCGGCGCGGTCGCCGGCGTCCGGATCGGCGG
CCGGGTGTGCAAGGGCATCAGCGGCGGGCAGCGGAAGCGGGTGAGCATCTGCGTCGAGCTGCTG
GCGTCGCCCGCGCTGCTGTTCCTCGACGAGCCGACGAGCGGGCTCGACAGCGCGGCGTCGTACC
ACGTCATGAGCCGCATCGCCGGCCTCGCCAGGAGGGACGGGATGACGGTCGTCGCCGCCGTGCA
CCAGCCCAGCACGGAGATGTTCGAGCTCTTCCATGGCCTCTGCCTCCTGGCCACTGGGAGGACG
GTGTATTTTGGAGCAGCTTCAGATGCAATCGAG
						
						Genomic sequence
						
							GGAGGCTGAGCCCCAACATGAAAATGAGAGGAGACATCCTGATCAATGGCCTGCGAGAGAAACT
TTCGTTTGGAACATCCGTACGTTTTCACATAAAATGCGATCTCGAATGATTTGAAACAGTGTGA
TCTTGACTTGACACATGTTCGTACATGCGTTAATGAAGGCCTACGTGACCCAAGAAAACGTGCT
GATGGCGACGCTCACGGTGACGGAGGCCGTCCACTACTCGGCGCAGCTGCAGCTGCCGGACTCG
ATGCCGGCGGAAGACAAGCGGGCCCGCGCCGACCGCGCCATCCGCCAGATGGGGCTCGGCGCGG
TCGCCGGCGTCCGGATCGGCGGCCGGGTGTGCAAGGGCATCAGCGGCGGGCAGCGGAAGCGGGT
GAGCATCTGCGTCGAGCTGCTGGCGTCGCCCGCGCTGCTGTTCCTCGACGAGCCGACGAGCGGG
CTCGACAGCGCGGCGTCGTACCACGTCATGAGCCGCATCGCCGGCCTCGCCAGGAGGGACGGGA
TGACGGTCGTCGCCGCCGTGCACCAGCCCAGCACGGAGATGTTCGAGCTCTTCCATGGCCTCTG
CCTCCTGGCCACTGGGAGGACGGTGTATTTTGGAGCAGCTTCAGATGCAATCGAG

Sequences
Splice junction sequence	GCACCAGCCCAGCACGGAGATGTTCGAGCTCTTCCATGGCCTCTGCCTCCTGGCCACTGGGAGG ACGGTGTATTTTGGAGCAGCTTCAGATGCAATCGAGggaggctgagccccaacatgaaaatgag aggagacatcctgatcaatggcctgcgagagaaactttcgtttggaacatccgtacgttttcac ataaaatg
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: 545 Transcript exons: 11175858-11175937,11176024-11176488 GGAGGCTGAGCCCCAACATGAAAATGAGAGGAGACATCCTGATCAATGGCCTGCGAGAGAAACT TTCGTTTGGAACATCCGCCTACGTGACCCAAGAAAACGTGCTGATGGCGACGCTCACGGTGACG GAGGCCGTCCACTACTCGGCGCAGCTGCAGCTGCCGGACTCGATGCCGGCGGAAGACAAGCGGG CCCGCGCCGACCGCGCCATCCGCCAGATGGGGCTCGGCGCGGTCGCCGGCGTCCGGATCGGCGG CCGGGTGTGCAAGGGCATCAGCGGCGGGCAGCGGAAGCGGGTGAGCATCTGCGTCGAGCTGCTG GCGTCGCCCGCGCTGCTGTTCCTCGACGAGCCGACGAGCGGGCTCGACAGCGCGGCGTCGTACC ACGTCATGAGCCGCATCGCCGGCCTCGCCAGGAGGGACGGGATGACGGTCGTCGCCGCCGTGCA CCAGCCCAGCACGGAGATGTTCGAGCTCTTCCATGGCCTCTGCCTCCTGGCCACTGGGAGGACG GTGTATTTTGGAGCAGCTTCAGATGCAATCGAG
Genomic sequence	GGAGGCTGAGCCCCAACATGAAAATGAGAGGAGACATCCTGATCAATGGCCTGCGAGAGAAACT TTCGTTTGGAACATCCGTACGTTTTCACATAAAATGCGATCTCGAATGATTTGAAACAGTGTGA TCTTGACTTGACACATGTTCGTACATGCGTTAATGAAGGCCTACGTGACCCAAGAAAACGTGCT GATGGCGACGCTCACGGTGACGGAGGCCGTCCACTACTCGGCGCAGCTGCAGCTGCCGGACTCG ATGCCGGCGGAAGACAAGCGGGCCCGCGCCGACCGCGCCATCCGCCAGATGGGGCTCGGCGCGG TCGCCGGCGTCCGGATCGGCGGCCGGGTGTGCAAGGGCATCAGCGGCGGGCAGCGGAAGCGGGT GAGCATCTGCGTCGAGCTGCTGGCGTCGCCCGCGCTGCTGTTCCTCGACGAGCCGACGAGCGGG CTCGACAGCGCGGCGTCGTACCACGTCATGAGCCGCATCGCCGGCCTCGCCAGGAGGGACGGGA TGACGGTCGTCGCCGCCGTGCACCAGCCCAGCACGGAGATGTTCGAGCTCTTCCATGGCCTCTG CCTCCTGGCCACTGGGAGGACGGTGTATTTTGGAGCAGCTTCAGATGCAATCGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.344105758

Conservation Information
Conserved circRNAs	NA
PMCS	0.344105758

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11176425-11175863(+)
11175876-11175863(+)
11176427-11176085(-)
11175896-11176333(-)
						
						Potential amino acid sequence
						
							MASASWPLGGRCILEQLQMQSREAEPQHENERRHPDQWPARETFVWNIRLRDPRKRADGDAHGD
GGRPLLGAAAAAGLDAGGRQAGPRRPRHPPDGARRGRRRPDRRPGVQGHQRRAAEAGEHLRRAA
GVARAAVPRRADERARQRGVVPRHEPHRRPRQEGRDDGRRRRAPAQHGDVRALPWPLPPGHWED
GVFWSSFRCNRGRLSPNMKMRGDILINGLREKLSFGTSAYVTQENVLMATLTVTEAVHYSAQLQ
LPDSMPAEDKRARADRAIRQMGLGAVAGVRIGGRVCKGISGGQRKRVSICVELLASPALLFLDE
PTSGLDSAASYHVMSRIAGLARRDGMTVVAAVHQPSTEMFELFHGLCLLATGRTVYFGAASDAI
EGG*(+)
MKMRGDILINGLREKLSFGTSAYVTQENVLMATLTVTEAVHYSAQLQLPDSMPAEDKRARADRA
IRQMGLGAVAGVRIGGRVCKGISGGQRKRVSICVELLASPALLFLDEPTSGLDSAASYHVMSRI
AGLARRDGMTVVAAVHQPSTEMFELFHGLCLLATGRTVYFGAASDAIEGG*(+)
MEELEHLRAGLVHGGDDRHPVPPGEAGDAAHDVVRRRAVEPARRLVEEQQRGRRQQLDADAHPL
PLPAADALAHPAADPDAGDRAEPHLADGAVGAGPLVFRRHRVRQLQLRRVVDGLRHRERRHQHV
FLGHVGGCSKRKFLSQAIDQDVSSHFHVGAQPPSIASEAAPKYTVLPVARRQRPWKSSNISVLG
WCTAATTVIPSLLARPAMRLMTWYDAALSSPLVGSSRNSSAGDASSSTQMLTRFRCPPLMPLHT
RPPIRTPATAPSPIWRMARSARARLSSAGIESGSCSCAE*(-)
MSPLIFMLGLSLPRLHLKLLQNTPSSQWPGGRGHGRARTSPCWAGARRRRPSSRPSWRGRRCGS
*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11176425-11175863(+) 11175876-11175863(+) 11176427-11176085(-) 11175896-11176333(-)
Potential amino acid sequence	MASASWPLGGRCILEQLQMQSREAEPQHENERRHPDQWPARETFVWNIRLRDPRKRADGDAHGD GGRPLLGAAAAAGLDAGGRQAGPRRPRHPPDGARRGRRRPDRRPGVQGHQRRAAEAGEHLRRAA GVARAAVPRRADERARQRGVVPRHEPHRRPRQEGRDDGRRRRAPAQHGDVRALPWPLPPGHWED GVFWSSFRCNRGRLSPNMKMRGDILINGLREKLSFGTSAYVTQENVLMATLTVTEAVHYSAQLQ LPDSMPAEDKRARADRAIRQMGLGAVAGVRIGGRVCKGISGGQRKRVSICVELLASPALLFLDE PTSGLDSAASYHVMSRIAGLARRDGMTVVAAVHQPSTEMFELFHGLCLLATGRTVYFGAASDAI EGG(+) MKMRGDILINGLREKLSFGTSAYVTQENVLMATLTVTEAVHYSAQLQLPDSMPAEDKRARADRA IRQMGLGAVAGVRIGGRVCKGISGGQRKRVSICVELLASPALLFLDEPTSGLDSAASYHVMSRI AGLARRDGMTVVAAVHQPSTEMFELFHGLCLLATGRTVYFGAASDAIEGG(+) MEELEHLRAGLVHGGDDRHPVPPGEAGDAAHDVVRRRAVEPARRLVEEQQRGRRQQLDADAHPL PLPAADALAHPAADPDAGDRAEPHLADGAVGAGPLVFRRHRVRQLQLRRVVDGLRHRERRHQHV FLGHVGGCSKRKFLSQAIDQDVSSHFHVGAQPPSIASEAAPKYTVLPVARRQRPWKSSNISVLG WCTAATTVIPSLLARPAMRLMTWYDAALSSPLVGSSRNSSAGDASSSTQMLTRFRCPPLMPLHT RPPIRTPATAPSPIWRMARSARARLSSAGIESGSCSCAE(-) MSPLIFMLGLSLPRLHLKLLQNTPSSQWPGGRGHGRARTSPCWAGARRRRPSSRPSWRGRRCGS (-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0288700_circ_g.1

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