Plant Circular RNA Database

Detail information of Os01g0932600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0932600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_005674
					
						Alias
						Os_ciR6420
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 40916527-40917102  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os01g0932600						
					
						Parent gene annotation
						
							BTB domain containing protein. (Os01t0932600-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/11
					
						Tissues
						root/shoot, root, seed
					
						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
						Os01t0932600-01:3

General Information
CircRNA Name	Os01g0932600_circ_g.1
ID in PlantcircBase	osa_circ_005674
Alias	Os_ciR6420
Organism	Oryza sativa
Position	chr1: 40916527-40917102 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	Os01g0932600
Parent gene annotation	BTB domain containing protein. (Os01t0932600-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	2/11
Tissues	root/shoot, root, seed
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	Os01t0932600-01:3

			
						 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  
						
							GCTGTTTGCGGAGAGTCAAGACTATGGTAGTCATGGGGAACGTGTCAGAAATGCCTGCTGGGGT
TATCTTTGCCAAAGTGCCACATTGGAACTACGAGAGgaatatgctacatggtccttggagggag
gctggagctcccacagtggtgttgcatatagatgatccaaacattgactcagaagcaattgcaa
tcgcgtta

						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: 229
Transcript exons: 40916527-40916691,40917039-40917102
GAATATGCTACATGGTCCTTGGAGGGAGGCTGGAGCTCCCACAGTGGTGTTGCATATAGATGAT
CCAAACATTGACTCAGAAGCAATTGCAATCGCGTTAGCATATCTTTACGGGCAACCCCCAAAGC
TTAATGATAACAATGCGTTCCGAGTACTTGCAGCTGCGGAACGTGTCAGAAATGCCTGCTGGGG
TTATCTTTGCCAAAGTGCCACATTGGAACTACGAGAG
Transcript length: 352
Transcript exons: 40916527-40916710,40916788-40916856,40917004-40917102
GAATATGCTACATGGTCCTTGGAGGGAGGCTGGAGCTCCCACAGTGGTGTTGCATATAGATGAT
CCAAACATTGACTCAGAAGCAATTGCAATCGCGTTAGCATATCTTTACGGGCAACCCCCAAAGC
TTAATGATAACAATGCGTTCCGAGTACTTGCAGCTGCATCATTTTTGGATCTTCAGGATTTATG
TACAATATGTACCGACTTTATTATTTCTGAGCTTTGGACATCAAACTTTTTGCAATATCAGCTG
TTTGCGGAGAGTCAAGACTATGGTAGTCATGGGGAACGTGTCAGAAATGCCTGCTGGGGTTATC
TTTGCCAAAGTGCCACATTGGAACTACGAGAG
						
						Genomic sequence
						
							GAATATGCTACATGGTCCTTGGAGGGAGGCTGGAGCTCCCACAGTGGTGTTGCATATAGATGAT
CCAAACATTGACTCAGAAGCAATTGCAATCGCGTTAGCATATCTTTACGGGCAACCCCCAAAGC
TTAATGATAACAATGCGTTCCGAGTACTTGCAGCTGCATCATTTTTGGATCTTCAGGTCTACTT
CATTCGAAAGCTTTCTCTTCTGCCTCACTTCTTTGCTGTTGTTGTGAACTTACAGTTGGTCAAT
TGCAGGATTTATGTACAATATGTACCGACTTTATTATTTCTGAGCTTTGGACATCAAACTTTTT
GCAATATCAGGTTAGTCCGTTACTGCTGTGTGTCTTATCTTCACAACTACTCGATTATTTTCTC
TGTAACTTTTTTTATTAATGAAGTAATATAAGTTTATATCCTTGATAAGCATTCATCTTTATTT
TGTATTATTTTCTTTATTATTCTTTACAGCTGTTTGCGGAGAGTCAAGACTATGGTAGTCATGG
GGAACGTGTCAGAAATGCCTGCTGGGGTTATCTTTGCCAAAGTGCCACATTGGAACTACGAGAG

Sequences
Splice junction sequence	GCTGTTTGCGGAGAGTCAAGACTATGGTAGTCATGGGGAACGTGTCAGAAATGCCTGCTGGGGT TATCTTTGCCAAAGTGCCACATTGGAACTACGAGAGgaatatgctacatggtccttggagggag gctggagctcccacagtggtgttgcatatagatgatccaaacattgactcagaagcaattgcaa tcgcgtta
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: 229 Transcript exons: 40916527-40916691,40917039-40917102 GAATATGCTACATGGTCCTTGGAGGGAGGCTGGAGCTCCCACAGTGGTGTTGCATATAGATGAT CCAAACATTGACTCAGAAGCAATTGCAATCGCGTTAGCATATCTTTACGGGCAACCCCCAAAGC TTAATGATAACAATGCGTTCCGAGTACTTGCAGCTGCGGAACGTGTCAGAAATGCCTGCTGGGG TTATCTTTGCCAAAGTGCCACATTGGAACTACGAGAG Transcript length: 352 Transcript exons: 40916527-40916710,40916788-40916856,40917004-40917102 GAATATGCTACATGGTCCTTGGAGGGAGGCTGGAGCTCCCACAGTGGTGTTGCATATAGATGAT CCAAACATTGACTCAGAAGCAATTGCAATCGCGTTAGCATATCTTTACGGGCAACCCCCAAAGC TTAATGATAACAATGCGTTCCGAGTACTTGCAGCTGCATCATTTTTGGATCTTCAGGATTTATG TACAATATGTACCGACTTTATTATTTCTGAGCTTTGGACATCAAACTTTTTGCAATATCAGCTG TTTGCGGAGAGTCAAGACTATGGTAGTCATGGGGAACGTGTCAGAAATGCCTGCTGGGGTTATC TTTGCCAAAGTGCCACATTGGAACTACGAGAG
Genomic sequence	GAATATGCTACATGGTCCTTGGAGGGAGGCTGGAGCTCCCACAGTGGTGTTGCATATAGATGAT CCAAACATTGACTCAGAAGCAATTGCAATCGCGTTAGCATATCTTTACGGGCAACCCCCAAAGC TTAATGATAACAATGCGTTCCGAGTACTTGCAGCTGCATCATTTTTGGATCTTCAGGTCTACTT CATTCGAAAGCTTTCTCTTCTGCCTCACTTCTTTGCTGTTGTTGTGAACTTACAGTTGGTCAAT TGCAGGATTTATGTACAATATGTACCGACTTTATTATTTCTGAGCTTTGGACATCAAACTTTTT GCAATATCAGGTTAGTCCGTTACTGCTGTGTGTCTTATCTTCACAACTACTCGATTATTTTCTC TGTAACTTTTTTTATTAATGAAGTAATATAAGTTTATATCCTTGATAAGCATTCATCTTTATTT TGTATTATTTTCTTTATTATTCTTTACAGCTGTTTGCGGAGAGTCAAGACTATGGTAGTCATGG GGAACGTGTCAGAAATGCCTGCTGGGGTTATCTTTGCCAAAGTGCCACATTGGAACTACGAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_011174 						
					
						PMCS
						0.463580556

Conservation Information
Conserved circRNAs	osi_circ_011174
PMCS	0.463580556

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							40916532-40916586(+)
40916659-40916586(+)
40916600-40917096(-)
40916632-40917068(-)
						
						Potential amino acid sequence
						
							MLHGPWREAGAPTVVLHIDDPNIDSEAIAIALAYLYGQPPKLNDNNAFRVLAAASFLDLQDLCT
ICTDFIISELWTSNFLQYQLFAESQDYGSHGERVRNACWGYLCQSATLELREEYATWSLEGGWS
SHSGVAYR*(+)
MITMRSEYLQLHHFWIFRIYVQYVPTLLFLSFGHQTFCNISCLRRVKTMVVMGNVSEMPAGVIF
AKVPHWNYERNMLHGPWREAGAPTVVLHIDDPNIDSEAIAIALAYLYGQPPKLNDNNAFRVLAA
ASFLDLQDLCTICTDFIISELWTSNFLQYQLFAESQDYGSHGERVRNACWGYLCQSATLELREE
YATWSLEGGWSSHSGVAYR*(+)
MFGSSICNTTVGAPASLQGPCSIFLS*(-)
MLTRLQLLLSQCLDHLYATPLWELQPPSKDHVAYSSRSSNVALWQR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	40916532-40916586(+) 40916659-40916586(+) 40916600-40917096(-) 40916632-40917068(-)
Potential amino acid sequence	MLHGPWREAGAPTVVLHIDDPNIDSEAIAIALAYLYGQPPKLNDNNAFRVLAAASFLDLQDLCT ICTDFIISELWTSNFLQYQLFAESQDYGSHGERVRNACWGYLCQSATLELREEYATWSLEGGWS SHSGVAYR(+) MITMRSEYLQLHHFWIFRIYVQYVPTLLFLSFGHQTFCNISCLRRVKTMVVMGNVSEMPAGVIF AKVPHWNYERNMLHGPWREAGAPTVVLHIDDPNIDSEAIAIALAYLYGQPPKLNDNNAFRVLAA ASFLDLQDLCTICTDFIISELWTSNFLQYQLFAESQDYGSHGERVRNACWGYLCQSATLELREE YATWSLEGGWSSHSGVAYR(+) MFGSSICNTTVGAPASLQGPCSIFLS(-) MLTRLQLLLSQCLDHLYATPLWELQPPSKDHVAYSSRSSNVALWQR(-)
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 Os01g0932600_circ_g.1

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