Plant Circular RNA Database

Detail information of Os05g0519400_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os05g0519400_circ_g.6
					
						ID in PlantcircBase
						osa_circ_028544
					
						Alias
						Os05circ15917/Os_ciR10050
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 25784255-25786098  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os05g0519400						
					
						Parent gene annotation
						
							Homologue of NSF (N-ethylmaleimide sensitive factor), ATPase, Re
gulation of vacuolar morphology in endosperm cell (Os05t0519400-
01);Similar to predicted protein. (Os05t0519400-02);Similar to p
redicted protein. (Os05t0519400-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0519400_circ_g.3 Os05g0519400_circ_g.4 Os05g0519400_circ_g.5 Os05g0519400_circ_g.7 Os05g0519400_circ_g.8 Os05g0519400_circ_g.9 Os05g0519400_circ_g.10 Os05g0519400_circ_g.11 Os05g0519400_circ_g.12 						
					
						Support reads
						4/2/2
					
						Tissues
						leaf and panicle/root/shoot, 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  
						
							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
						Os05t0519400-01:6
Os05t0519400-02:5
Os05t0519400-03:2

General Information
CircRNA Name	Os05g0519400_circ_g.6
ID in PlantcircBase	osa_circ_028544
Alias	Os05circ15917/Os_ciR10050
Organism	Oryza sativa
Position	chr5: 25784255-25786098 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os05g0519400
Parent gene annotation	Homologue of NSF (N-ethylmaleimide sensitive factor), ATPase, Re gulation of vacuolar morphology in endosperm cell (Os05t0519400- 01);Similar to predicted protein. (Os05t0519400-02);Similar to p redicted protein. (Os05t0519400-03)
Parent gene strand	-
Alternative splicing	Os05g0519400_circ_g.3 Os05g0519400_circ_g.4 Os05g0519400_circ_g.5 Os05g0519400_circ_g.7 Os05g0519400_circ_g.8 Os05g0519400_circ_g.9 Os05g0519400_circ_g.10 Os05g0519400_circ_g.11 Os05g0519400_circ_g.12
Support reads	4/2/2
Tissues	leaf and panicle/root/shoot, 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	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	Os05t0519400-01:6 Os05t0519400-02:5 Os05t0519400-03:2

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							Yes							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   
						
							F: ATTACCCCTGCATTTGGTGC
 R: TACACCCGTACCATCTCTGG
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	Yes 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	F: ATTACCCCTGCATTTGGTGC R: TACACCCGTACCATCTCTGG 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  
						
							CTCGTGTCTTCTGGTCATTTTCAGCATCAGCGAACAAATCTCTCACATTCTTCTCAGTTTCTCC
AACAAACTTGCTCAAGACTTCAGGTCCATTTACAATctgcatctttcaaggtcatcagtggaag
caccaaatgcaggggtaatttcatgaagtgcattcacaaaatcatccatagtaaccttaatgct
ttcttcat

									
								

					

						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: 650
Transcript exons: 25784255-25784465,25784813-25784946,25785205-25785287,25
785375-25785440,25785850-25785905,25785999-25786098
CTGCATCTTTCAAGGTCATCAGTGGAAGCACCAAATGCAGGGGTAATTTCATGAAGTGCATTCA
CAAAATCATCCATAGTAACCTTAATGCTTTCTTCATCCAAAGGCTTGGTAAGGTCATCCATGCT
TATCTGCCTGTTCAAAGCATATGAGACTGCACTTTTGACGACACCTTCCAGCTCTGCTCCACTG
TAGTTCTTTGTCCGTGCAGCTAGCTCCTGAAGATTAACATTCGGGGAAAGGAAAGAGCTTTCTT
TCATCTTATTCGTATGAATTTGAAGAATCTGCAAACGGCCATTTTCATCAGGCAGGTTTATCTC
AATATGAACTTCCAATCGTCCAGGCCTCAGTAAAGCTTCATCAAGTAAATCCTTACGATTGGTC
ATTCCAATGAGGAGCACATTATTCAATGCCTCAACACCATCTATCTTTGTAAGGAGCTGATTTA
CAATGCTATCATGTACACCCGTACCATCTCTGGTAGATCCTCTAGACTTGCAGATAGCATCAAT
TTCATCGAAAATGATAACGTGGAGGTCACTCTGATCACCTCGTGTCTTCTGGTCATTTTCAGCA
TCAGCGAACAAATCTCTCACATTCTTCTCAGTTTCTCCAACAAACTTGCTCAAGACTTCAGGTC
CATTTACAAT
						
					

						Genomic sequence
						
							CTGCATCTTTCAAGGTCATCAGTGGAAGCACCAAATGCAGGGGTAATTTCATGAAGTGCATTCA
CAAAATCATCCATAGTAACCTTAATGCTTTCTTCATCCAAAGGCTTGGTAAGGTCATCCATGCT
TATCTGCCTGTTCAAAGCATATGAGACTGCACTTTTGACGACACCTTCCAGCTCTGCTCCACTG
TAGTTCTTTGTCCGTGCAGCTTCATTCAGAAGAGCATGTCACAACCATCAATCACATTATTTTT
GTAGATAATCGATTAAAACCCAGCCTCTACAACCAACATGGATGTACACAGCCAAGATCACATG
CAGCACATATCTTTTAGAACAAGAAATTCCCACAGGCACCTACTCAGTCATACTAAAATGGGTG
TTGAAGTAAGAAGCATTGCTAAGACAGCAATTTTTGGAAATGGGAAACTAAAACCTTTGAAGCT
TGAGTAATAAGACTAGAATGAGCTAATCAGTCCATTTTAAGAGATCATTTACAACATTTGTTAT
AATGAACGAATGCCTGAAAACAAATATGAATTATCAAAGAATATACCTAGCTCCTGAAGATTAA
CATTCGGGGAAAGGAAAGAGCTTTCTTTCATCTTATTCGTATGAATTTGAAGAATCTGCAAACG
GCCATTTTCATCAGGCAGGTTTATCTCAATATGAACTTCCAATCGTCCAGGCCTGTAACAGATG
TGTCAAATGTCAATGGATACGTGCAAATAGTAAAACAAAAATACAAAAAGAAGATTCCCCAATG
GTTTAGGCCTGCAATATCTAAAATAATCAAGGCAAGCATAATTTTCTGAATTACACAGTAAATG
CAGCACAGAGTTATGTTTAGATATTAAAATGTACATAAAATGAAATGGTAACAATTTTAGGAGG
TCTGATGCATTTCATGATCTAGCTTGAGTGCATTTCTAGAGGGTCAGAAGTTACCTCAGTAAAG
CTTCATCAAGTAAATCCTTACGATTGGTCATTCCAATGAGGAGCACATTATTCAATGCCTCAAC
ACCATCTATCTAAAATGCAGAAAGTTTGACGAGAACTTAGTGTATATGCAGAAAGAAAATACGT
GAGTCCAAAGTTCAAATTCTAGGAAAAGATACCTTTGTAAGGAGCTGATTTACAATGCTATCAT
GTACACCCGTACCATCTCTGGTAGATCCTCTAGACTGCACAGCACAATCAGAGTTTAATTAATT
CAGGAGAAGTTAGCAGTTACTATAAATAAAGCTGAAGCAATGCTACAACTGATGTAATCAAACA
TAGCACACTGAAATATACACTGGACAAAATTGCAAGTTGAACTTCTAGAAGGGGTAAAAGAGTT
TGATCTGAAGTACTTATGCTCTGTTATTCCCTAAGAACTTATGCATGACTAATCAGTCAAACTA
TTTGCTCTCATATTTCCAACTCACTTAATGTAAGGGTACTTCAACCATTCTCTTCGGTGACATT
CTCAAACTAACCTTATGAAATTAACAAAGGAAGAAACACAAAAAAAGATGTTTTACATCTTGAG
AGAAAGATATAGTCAAGTAGAAATATGCATGATGTTTATTTAAGGAAAAAGAACTCCACCTTGC
AGATAGCATCAATTTCATCGAAAATGATAACGTGGAGGTCACTCTGATCACCTGTATTTGAAAA
CAAGGTACCGCGATTAATTGTTAAAAAGGGTCCACTCCACATAAAAATATGGAAAAGCTTTTAT
CGATGAGGAATCATACCTCGTGTCTTCTGGTCATTTTCAGCATCAGCGAACAAATCTCTCACAT
TCTTCTCAGTTTCTCCAACAAACTTGCTCAAGACTTCAGGTCCATTTACAAT
						
					

			
		

Sequences
Splice junction sequence	CTCGTGTCTTCTGGTCATTTTCAGCATCAGCGAACAAATCTCTCACATTCTTCTCAGTTTCTCC AACAAACTTGCTCAAGACTTCAGGTCCATTTACAATctgcatctttcaaggtcatcagtggaag caccaaatgcaggggtaatttcatgaagtgcattcacaaaatcatccatagtaaccttaatgct ttcttcat
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: 650 Transcript exons: 25784255-25784465,25784813-25784946,25785205-25785287,25 785375-25785440,25785850-25785905,25785999-25786098 CTGCATCTTTCAAGGTCATCAGTGGAAGCACCAAATGCAGGGGTAATTTCATGAAGTGCATTCA CAAAATCATCCATAGTAACCTTAATGCTTTCTTCATCCAAAGGCTTGGTAAGGTCATCCATGCT TATCTGCCTGTTCAAAGCATATGAGACTGCACTTTTGACGACACCTTCCAGCTCTGCTCCACTG TAGTTCTTTGTCCGTGCAGCTAGCTCCTGAAGATTAACATTCGGGGAAAGGAAAGAGCTTTCTT TCATCTTATTCGTATGAATTTGAAGAATCTGCAAACGGCCATTTTCATCAGGCAGGTTTATCTC AATATGAACTTCCAATCGTCCAGGCCTCAGTAAAGCTTCATCAAGTAAATCCTTACGATTGGTC ATTCCAATGAGGAGCACATTATTCAATGCCTCAACACCATCTATCTTTGTAAGGAGCTGATTTA CAATGCTATCATGTACACCCGTACCATCTCTGGTAGATCCTCTAGACTTGCAGATAGCATCAAT TTCATCGAAAATGATAACGTGGAGGTCACTCTGATCACCTCGTGTCTTCTGGTCATTTTCAGCA TCAGCGAACAAATCTCTCACATTCTTCTCAGTTTCTCCAACAAACTTGCTCAAGACTTCAGGTC CATTTACAAT
Genomic sequence	CTGCATCTTTCAAGGTCATCAGTGGAAGCACCAAATGCAGGGGTAATTTCATGAAGTGCATTCA CAAAATCATCCATAGTAACCTTAATGCTTTCTTCATCCAAAGGCTTGGTAAGGTCATCCATGCT TATCTGCCTGTTCAAAGCATATGAGACTGCACTTTTGACGACACCTTCCAGCTCTGCTCCACTG TAGTTCTTTGTCCGTGCAGCTTCATTCAGAAGAGCATGTCACAACCATCAATCACATTATTTTT GTAGATAATCGATTAAAACCCAGCCTCTACAACCAACATGGATGTACACAGCCAAGATCACATG CAGCACATATCTTTTAGAACAAGAAATTCCCACAGGCACCTACTCAGTCATACTAAAATGGGTG TTGAAGTAAGAAGCATTGCTAAGACAGCAATTTTTGGAAATGGGAAACTAAAACCTTTGAAGCT TGAGTAATAAGACTAGAATGAGCTAATCAGTCCATTTTAAGAGATCATTTACAACATTTGTTAT AATGAACGAATGCCTGAAAACAAATATGAATTATCAAAGAATATACCTAGCTCCTGAAGATTAA CATTCGGGGAAAGGAAAGAGCTTTCTTTCATCTTATTCGTATGAATTTGAAGAATCTGCAAACG GCCATTTTCATCAGGCAGGTTTATCTCAATATGAACTTCCAATCGTCCAGGCCTGTAACAGATG TGTCAAATGTCAATGGATACGTGCAAATAGTAAAACAAAAATACAAAAAGAAGATTCCCCAATG GTTTAGGCCTGCAATATCTAAAATAATCAAGGCAAGCATAATTTTCTGAATTACACAGTAAATG CAGCACAGAGTTATGTTTAGATATTAAAATGTACATAAAATGAAATGGTAACAATTTTAGGAGG TCTGATGCATTTCATGATCTAGCTTGAGTGCATTTCTAGAGGGTCAGAAGTTACCTCAGTAAAG CTTCATCAAGTAAATCCTTACGATTGGTCATTCCAATGAGGAGCACATTATTCAATGCCTCAAC ACCATCTATCTAAAATGCAGAAAGTTTGACGAGAACTTAGTGTATATGCAGAAAGAAAATACGT GAGTCCAAAGTTCAAATTCTAGGAAAAGATACCTTTGTAAGGAGCTGATTTACAATGCTATCAT GTACACCCGTACCATCTCTGGTAGATCCTCTAGACTGCACAGCACAATCAGAGTTTAATTAATT CAGGAGAAGTTAGCAGTTACTATAAATAAAGCTGAAGCAATGCTACAACTGATGTAATCAAACA TAGCACACTGAAATATACACTGGACAAAATTGCAAGTTGAACTTCTAGAAGGGGTAAAAGAGTT TGATCTGAAGTACTTATGCTCTGTTATTCCCTAAGAACTTATGCATGACTAATCAGTCAAACTA TTTGCTCTCATATTTCCAACTCACTTAATGTAAGGGTACTTCAACCATTCTCTTCGGTGACATT CTCAAACTAACCTTATGAAATTAACAAAGGAAGAAACACAAAAAAAGATGTTTTACATCTTGAG AGAAAGATATAGTCAAGTAGAAATATGCATGATGTTTATTTAAGGAAAAAGAACTCCACCTTGC AGATAGCATCAATTTCATCGAAAATGATAACGTGGAGGTCACTCTGATCACCTGTATTTGAAAA CAAGGTACCGCGATTAATTGTTAAAAAGGGTCCACTCCACATAAAAATATGGAAAAGCTTTTAT CGATGAGGAATCATACCTCGTGTCTTCTGGTCATTTTCAGCATCAGCGAACAAATCTCTCACAT TCTTCTCAGTTTCTCCAACAAACTTGCTCAAGACTTCAGGTCCATTTACAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006347* osi_circ_015657 						
					
						PMCS
						0.251376351

Conservation Information
Conserved circRNAs	osi_circ_006347* osi_circ_015657
PMCS	0.251376351

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25785406-25784305(+)
25785247-25786094(-)
25784317-25786084(-)
25784262-25786094(-)
						
						Potential amino acid sequence
						
							MYTRTISGRSSRLADSINFIENDNVEVTLITSCLLVIFSISEQISHILLSFSNKLAQDFRSIYN
LHLSRSSVEAPNAGVIS*(+)
MTNRKDLLDEALLRPGRLEVHIEINLPDENGRLQILQIHTNKMKESSFLSPNVNLQELAARTKN
YSGAELEGVVKSAVSYALNRQISMDDLTKPLDEESIKVTMDDFVNALHEITPAFGASTDDLERC
RL*(-)
MHFMKLPLHLVLPLMTLKDADCKWT*(-)
MQIVNGPEVLSKFVGETEKNVRDLFADAENDQKTRGDQSDLHVIIFDEIDAICKSRGSTRDGTG
VHDSIVNQLLTKIDGVEALNNVLLIGMTNRKDLLDEALLRPGRLEVHIEINLPDENGRLQILQI
HTNKMKESSFLSPNVNLQELAARTKNYSGAELEGVVKSAVSYALNRQISMDDLTKPLDEESIKV
TMDDFVNALHEITPAFGASTDDLERCRL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25785406-25784305(+) 25785247-25786094(-) 25784317-25786084(-) 25784262-25786094(-)
Potential amino acid sequence	MYTRTISGRSSRLADSINFIENDNVEVTLITSCLLVIFSISEQISHILLSFSNKLAQDFRSIYN LHLSRSSVEAPNAGVIS(+) MTNRKDLLDEALLRPGRLEVHIEINLPDENGRLQILQIHTNKMKESSFLSPNVNLQELAARTKN YSGAELEGVVKSAVSYALNRQISMDDLTKPLDEESIKVTMDDFVNALHEITPAFGASTDDLERC RL(-) MHFMKLPLHLVLPLMTLKDADCKWT(-) MQIVNGPEVLSKFVGETEKNVRDLFADAENDQKTRGDQSDLHVIIFDEIDAICKSRGSTRDGTG VHDSIVNQLLTKIDGVEALNNVLLIGMTNRKDLLDEALLRPGRLEVHIEINLPDENGRLQILQI HTNKMKESSFLSPNVNLQELAARTKNYSGAELEGVVKSAVSYALNRQISMDDLTKPLDEESIKV TMDDFVNALHEITPAFGASTDDLERCRL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os05g0519400_circ_g.6

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