Plant Circular RNA Database

Detail information of Os06g0483900_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os06g0483900_circ_g.2
					
						ID in PlantcircBase
						osa_circ_030865
					
						Alias
						Os06circ10180
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 16478930-16479373  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
					
						Parent gene
						
							Os06g0483900						
					
						Parent gene annotation
						
							Homeodomain-like containing protein. (Os06t0483900-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0483900_circ_ag.1 Os06g0483900_circ_g.1 Os06g0483900_circ_g.3 Os06g0484600_circ_g.1 						
					
						Support reads
						2/12
					
						Tissues
						panicle/shoot, root, seed, pistil
					
						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
						Os06t0483900-01:1

General Information
CircRNA Name	Os06g0483900_circ_g.2
ID in PlantcircBase	osa_circ_030865
Alias	Os06circ10180
Organism	Oryza sativa
Position	chr6: 16478930-16479373 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
Parent gene	Os06g0483900
Parent gene annotation	Homeodomain-like containing protein. (Os06t0483900-01)
Parent gene strand	-
Alternative splicing	Os06g0483900_circ_ag.1 Os06g0483900_circ_g.1 Os06g0483900_circ_g.3 Os06g0484600_circ_g.1
Support reads	2/12
Tissues	panicle/shoot, root, seed, pistil
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	Os06t0483900-01:1

			
						 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  
						
							CCTGCGTGAACCGGAAACCCGGGCCCCCCGTGCTTGGCATTGGTGGCCGCCCCATCCCCGCTAC
TCCTCCTCGATCCTACAACGCAACGACGCCGCGCGTctgaggagcgagcgaaggccgacttgtg
gtcgccagacgccgccggtagcatcttggtcgagttcctagagcgctgcgagtacttccggttc
tggaacca

						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: 444
Transcript exons: 16478930-16479373
CTGAGGAGCGAGCGAAGGCCGACTTGTGGTCGCCAGACGCCGCCGGTAGCATCTTGGTCGAGTT
CCTAGAGCGCTGCGAGTACTTCCGGTTCTGGAACCAGTACCACACCTCCCGCGCAACACCAACC
CCGGCCCGGATCAACGTGTCAGAATTAAGGACATAAGCGATCGAATTCCCCACCGGAAAGGAGA
CACACGGGCTATTACCTGCTTGGACCGGACGCCGACCTTGCCGGCGCGCGCGGCGGAGGCGGTG
AACCTGTCGGCGAGGGACTGGATCAAGGAGCCGTCCGGGATGCCGTTGTTGAGATGCCGCAGGA
GCGACTCCATCTCGGCCACCTCCTCCTGCGTGAACCGGAAACCCGGGCCCCCCGTGCTTGGCAT
TGGTGGCCGCCCCATCCCCGCTACTCCTCCTCGATCCTACAACGCAACGACGCCGCGCGT
						
						Genomic sequence
						
							CTGAGGAGCGAGCGAAGGCCGACTTGTGGTCGCCAGACGCCGCCGGTAGCATCTTGGTCGAGTT
CCTAGAGCGCTGCGAGTACTTCCGGTTCTGGAACCAGTACCACACCTCCCGCGCAACACCAACC
CCGGCCCGGATCAACGTGTCAGAATTAAGGACATAAGCGATCGAATTCCCCACCGGAAAGGAGA
CACACGGGCTATTACCTGCTTGGACCGGACGCCGACCTTGCCGGCGCGCGCGGCGGAGGCGGTG
AACCTGTCGGCGAGGGACTGGATCAAGGAGCCGTCCGGGATGCCGTTGTTGAGATGCCGCAGGA
GCGACTCCATCTCGGCCACCTCCTCCTGCGTGAACCGGAAACCCGGGCCCCCCGTGCTTGGCAT
TGGTGGCCGCCCCATCCCCGCTACTCCTCCTCGATCCTACAACGCAACGACGCCGCGCGT

Sequences
Splice junction sequence	CCTGCGTGAACCGGAAACCCGGGCCCCCCGTGCTTGGCATTGGTGGCCGCCCCATCCCCGCTAC TCCTCCTCGATCCTACAACGCAACGACGCCGCGCGTctgaggagcgagcgaaggccgacttgtg gtcgccagacgccgccggtagcatcttggtcgagttcctagagcgctgcgagtacttccggttc tggaacca
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: 444 Transcript exons: 16478930-16479373 CTGAGGAGCGAGCGAAGGCCGACTTGTGGTCGCCAGACGCCGCCGGTAGCATCTTGGTCGAGTT CCTAGAGCGCTGCGAGTACTTCCGGTTCTGGAACCAGTACCACACCTCCCGCGCAACACCAACC CCGGCCCGGATCAACGTGTCAGAATTAAGGACATAAGCGATCGAATTCCCCACCGGAAAGGAGA CACACGGGCTATTACCTGCTTGGACCGGACGCCGACCTTGCCGGCGCGCGCGGCGGAGGCGGTG AACCTGTCGGCGAGGGACTGGATCAAGGAGCCGTCCGGGATGCCGTTGTTGAGATGCCGCAGGA GCGACTCCATCTCGGCCACCTCCTCCTGCGTGAACCGGAAACCCGGGCCCCCCGTGCTTGGCAT TGGTGGCCGCCCCATCCCCGCTACTCCTCCTCGATCCTACAACGCAACGACGCCGCGCGT
Genomic sequence	CTGAGGAGCGAGCGAAGGCCGACTTGTGGTCGCCAGACGCCGCCGGTAGCATCTTGGTCGAGTT CCTAGAGCGCTGCGAGTACTTCCGGTTCTGGAACCAGTACCACACCTCCCGCGCAACACCAACC CCGGCCCGGATCAACGTGTCAGAATTAAGGACATAAGCGATCGAATTCCCCACCGGAAAGGAGA CACACGGGCTATTACCTGCTTGGACCGGACGCCGACCTTGCCGGCGCGCGCGGCGGAGGCGGTG AACCTGTCGGCGAGGGACTGGATCAAGGAGCCGTCCGGGATGCCGTTGTTGAGATGCCGCAGGA GCGACTCCATCTCGGCCACCTCCTCCTGCGTGAACCGGAAACCCGGGCCCCCCGTGCTTGGCAT TGGTGGCCGCCCCATCCCCGCTACTCCTCCTCGATCCTACAACGCAACGACGCCGCGCGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006748* 						
					
						PMCS
						0.332244745

Conservation Information
Conserved circRNAs	osi_circ_006748*
PMCS	0.332244745

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16479240-16478995(+)
16479226-16478930(+)
16478983-16478932(-)
						
						Potential amino acid sequence
						
							MPQERLHLGHLLLREPETRAPRAWHWWPPHPRYSSSILQRNDAARLRSERRPTCGRQTPPVASW
SSS*(+)
MPLLRCRRSDSISATSSCVNRKPGPPVLGIGGRPIPATPPRSYNATTPRV*(+)
MLPAASGDHKSAFARSSDARRRCVVGSRRSSGDGAATNAKHGGPGFPVHAGGGGRDGVAPAASQ
QRHPGRLLDPVPRRQVHRLRRARRQGRRPVQAGNSPCVSFPVGNSIAYVLNSDTLIRAGVGVAR
EVWYWFQNRKYSQRSRNSTKMLPAASGDHKSAFARSSDARRRCVVGSRRSSGDGAATNAKHGGP
GFPVHAGGGGRDGVAPAASQQRHPGRLLDPVPRRQVHRLRRARRQGRRPVQAGNSPCVSFPVGN
SIAYVLNSDTLIRAGVGVAREVWYWFQNRKYSQRSRNSTKMLPAASGDHKSAFARSSDARRRCV
VGSRRSSGDGAATNAKHGGPGFPVHAGGGGRDGVAPAASQQRHPGRLLDPVPRRQVHRLRRARR
QGRRPVQAGNSPCVSFPVGNSIAYVLNSDTLIRAGVGVAREVWYWFQNRKYSQRSRNSTKMLPA
ASGDHKSAFARSS(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	16479240-16478995(+) 16479226-16478930(+) 16478983-16478932(-)
Potential amino acid sequence	MPQERLHLGHLLLREPETRAPRAWHWWPPHPRYSSSILQRNDAARLRSERRPTCGRQTPPVASW SSS(+) MPLLRCRRSDSISATSSCVNRKPGPPVLGIGGRPIPATPPRSYNATTPRV(+) MLPAASGDHKSAFARSSDARRRCVVGSRRSSGDGAATNAKHGGPGFPVHAGGGGRDGVAPAASQ QRHPGRLLDPVPRRQVHRLRRARRQGRRPVQAGNSPCVSFPVGNSIAYVLNSDTLIRAGVGVAR EVWYWFQNRKYSQRSRNSTKMLPAASGDHKSAFARSSDARRRCVVGSRRSSGDGAATNAKHGGP GFPVHAGGGGRDGVAPAASQQRHPGRLLDPVPRRQVHRLRRARRQGRRPVQAGNSPCVSFPVGN SIAYVLNSDTLIRAGVGVAREVWYWFQNRKYSQRSRNSTKMLPAASGDHKSAFARSSDARRRCV VGSRRSSGDGAATNAKHGGPGFPVHAGGGGRDGVAPAASQQRHPGRLLDPVPRRQVHRLRRARR QGRRPVQAGNSPCVSFPVGNSIAYVLNSDTLIRAGVGVAREVWYWFQNRKYSQRSRNSTKMLPA ASGDHKSAFARSS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os06g0483900_circ_g.2

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