Plant Circular RNA Database

Detail information of Os07g0679700_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os07g0679700_circ_g.4
					
						ID in PlantcircBase
						osa_circ_035328
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 28787884-28790517  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0679700						
					
						Parent gene annotation
						
							Transcriptional factor B3 family protein. (Os07t0679700-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0679700_circ_g.5 Os07g0679700_circ_g.6 Os07g0679700_circ_g.7 						
					
						Support reads
						1
					
						Tissues
						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
						Os07t0679700-01:7

General Information
CircRNA Name	Os07g0679700_circ_g.4
ID in PlantcircBase	osa_circ_035328
Alias	NA
Organism	Oryza sativa
Position	chr7: 28787884-28790517 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0679700
Parent gene annotation	Transcriptional factor B3 family protein. (Os07t0679700-01)
Parent gene strand	-
Alternative splicing	Os07g0679700_circ_g.5 Os07g0679700_circ_g.6 Os07g0679700_circ_g.7
Support reads	1
Tissues	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	Os07t0679700-01:7

			
						 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  
						
							TACCTCCGCACAGGCTTTTGGTAGAACAAGGCGCCCTATGCGGCCTGCATCACTGGCGCTTAGA
ACCTTCTCAAACAGGGGGACAATGGTGGAATTTGAActtcgtattgctgaagaacaatgtgcaa
ttctttgggggttaattcttcaggtgcagagcaggaacagctgcaaatatgttggaaataattt
tagttagc

									
								

					

						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
						
							CTTCGTATTGCTGAAGAACAATGTGCAATTCTTTGGGGGTTAATTCTTCAGGTGCAGAGCAGGA
ACAGCTGCAAATATGTTGGAAATAATTTTAGTTAGCTAATCATGATGTACAATGAACAGTTCTA
TCAAATGACGAAAGTGTGGCTAGAATGTTTTTCCACAAACAGCATACCTTTTTGAGTCGATTGT
GTTGTCAGCACATGTCCACTTGGATGCAACAATAACATTAAGTGGTAACCGGCGCCATTTTGAG
CAATCATCACATTGAATCCATTGATCTTGTTCCCTAAAAAATACACAGTAAGGTATTGGCAAAA
ATTAGTCACTGGCACAGAGAATATTTGTATGGTGTCTATGCAGAGGGCAAACCCTTTAAAATGA
TATCAATACCATACAGCTCCAAGGCAATATCTATTGAAATCTAAACAATCGCTTAATATTTTTG
TTGTTTTATTTCCACCACTTATGGTTTTCCTCATGATGAAAACTAGAGTACTAAACGGTATCTT
CTGAATAAGGTTCTTACCCAGTAGAACGGATGGTAAAAATTGATCTCTTTGCAAACACAGGGGG
TTCCTGCATATGTATAATATAGTTAGATTAAATTCAATCATTCCAAGGCCTCTCCTGAGGGCTG
AGAAAAAAGAAGTCAGAATTTCATGTTTCCCACAAACGTGAATAATGAAATGGCCAGCAAACTT
ACATCATACTCTTCAATTTCGTAGTCCTCAATCATCACGACAGTAGGTTTTGCAGTTGGAGCAG
GACGCAACAGCTCCTGAACCTCATCCCAGTAAAGCTTTAGTTCCCAGGCTTCTTCAGCATCCAT
TGAAAGCCTCCTGCTTTTGGAACCAATATTGCGGCCTCTCTTTAAAAACTGCAAAGACCCCTCA
TCTGGCCTGCTGCCGAATTTATCTGTCTTAAGCCAACTAACATCCCCGTCAGCTGAGTTCACAT
GATGATCGTATATAGAGCTTGTATGGAGATCTGCAGCCCCCTTTATTGACTGAAGAAATCCTGA
ATAACCACTTACTATTGCTAAATTCTCATTTGTACTAGAAAATAATGTATCCCCAAGAATGGAA
CCGTTGGCAATAGCTGAAATCTGTGAGTCCTGTACAGAAGTAACATAAAAACATTGATAAAGGA
AGGGAAAAAGGAAAGTGAAACAAGCATTTGCAGGAAAATAAATTAGTAGGAAGAATGTTAGGAA
AATCTAACTTACTGGCAAACTGACAGTGTTTGTGGCCTTCCGGAAGCCCATAACAAGTTTCCCT
CCAGGTTCTATCCGACTAAAAGTCACTGAAAAGAAAACAAGAATCACCATTAAGTATGAAAACC
TTCCCAGTGAGATCACATTTAATATGGAACAATTCTACTTAGCATGTTTAAATATATTACCACA
CAAAATTCCTATAACAAGTAAGATATGACCATGAAATATTAATCAGGCATTGAATTTTGACCTA
GACGTGACAATTAAATGACTATGGGAGGACCCCTATTTGTCCCTGTCAATTCCATGTGTAGGTC
AATTTGTTCTTTCAAATTCTGTACACTCAATTTAGACATTTGTGAATACTTAAGGAGATTCCCC
TATCAACTGGCAACTTTACTGCCATGAGTGCTTTCCCAAATAGTTTTGAAGTACTTTTGAACTA
TGTTAGATCCTTTGAAGGTATGCAATAGGAAAATCATTGCTTATATGTAATCAGGCATCAGTAA
TAAAATTGTAAAAAAAGAACAGGTGATATCATGTCCAAGGAGATTTAACCTGTATCACCAGCCT
GTAATTGTAATGATTGTATGCATGGTGTAACCCCCTCCAAGACATACATTCTGCTGTTGTTATT
TGGCCAGAATCTGAACTGAAAATGCCATTCTTTGCCTTTTGCGTCTTGAATTGTCAAAGGACGA
CCTTCTGGCTGAGAAATTGGAGGGAAATATGCCTACAAAATGTATCTCGGCAACTCAGGATGAC
AGCAAACATGAAAAGAAATATGTTAAAATAGTTATGCTGAGAAACAATTGTCCCCACTCCCAGT
AGTTAGCAACCATTTTGCAAAGAATGTAAAGTAGCAGTGCTCTATTGCAAAATACTGTAACCAT
GAAAATATTTAAATAAATTATTTATATAAGATTATTGAGCATGTTGGGAACCAAAGAATGTCAA
GTAGCATAACAATACTAACAAGTGTAACAATGGCCTAGGTCTCTGTTGATCAGGTATTCTATGT
CAGTGTTTACGTGAAGTAGTAAAATTAGGTTCCACATCGGCTGTATTTCTTTCTAGTCCTAACT
CTTGTGCATATACTACTATATAATATAGTCACATAGATCTTGTCAAAGCATAATAAAGGTTATT
GTTTTTTGTAACATGTGGATGGGAGGGTGTTCCTGATCCTCATTTGTATCAAAGGATCTTTAAA
TAATAGGGAATATGATACAAAAACGATAAATCAGTAATGAGGTAACAACACTAAAATTTTATTA
ACAGGAGGCAGAACCACAAAAGGTTGTGAACAAAAAAATACCTCCGCACAGGCTTTTGGTAGAA
CAAGGCGCCCTATGCGGCCTGCATCACTGGCGCTTAGAACCTTCTCAAACAGGGGGACAATGGT
GGAATTTGAA
						
					

			
		

Sequences
Splice junction sequence	TACCTCCGCACAGGCTTTTGGTAGAACAAGGCGCCCTATGCGGCCTGCATCACTGGCGCTTAGA ACCTTCTCAAACAGGGGGACAATGGTGGAATTTGAActtcgtattgctgaagaacaatgtgcaa ttctttgggggttaattcttcaggtgcagagcaggaacagctgcaaatatgttggaaataattt tagttagc
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	CTTCGTATTGCTGAAGAACAATGTGCAATTCTTTGGGGGTTAATTCTTCAGGTGCAGAGCAGGA ACAGCTGCAAATATGTTGGAAATAATTTTAGTTAGCTAATCATGATGTACAATGAACAGTTCTA TCAAATGACGAAAGTGTGGCTAGAATGTTTTTCCACAAACAGCATACCTTTTTGAGTCGATTGT GTTGTCAGCACATGTCCACTTGGATGCAACAATAACATTAAGTGGTAACCGGCGCCATTTTGAG CAATCATCACATTGAATCCATTGATCTTGTTCCCTAAAAAATACACAGTAAGGTATTGGCAAAA ATTAGTCACTGGCACAGAGAATATTTGTATGGTGTCTATGCAGAGGGCAAACCCTTTAAAATGA TATCAATACCATACAGCTCCAAGGCAATATCTATTGAAATCTAAACAATCGCTTAATATTTTTG TTGTTTTATTTCCACCACTTATGGTTTTCCTCATGATGAAAACTAGAGTACTAAACGGTATCTT CTGAATAAGGTTCTTACCCAGTAGAACGGATGGTAAAAATTGATCTCTTTGCAAACACAGGGGG TTCCTGCATATGTATAATATAGTTAGATTAAATTCAATCATTCCAAGGCCTCTCCTGAGGGCTG AGAAAAAAGAAGTCAGAATTTCATGTTTCCCACAAACGTGAATAATGAAATGGCCAGCAAACTT ACATCATACTCTTCAATTTCGTAGTCCTCAATCATCACGACAGTAGGTTTTGCAGTTGGAGCAG GACGCAACAGCTCCTGAACCTCATCCCAGTAAAGCTTTAGTTCCCAGGCTTCTTCAGCATCCAT TGAAAGCCTCCTGCTTTTGGAACCAATATTGCGGCCTCTCTTTAAAAACTGCAAAGACCCCTCA TCTGGCCTGCTGCCGAATTTATCTGTCTTAAGCCAACTAACATCCCCGTCAGCTGAGTTCACAT GATGATCGTATATAGAGCTTGTATGGAGATCTGCAGCCCCCTTTATTGACTGAAGAAATCCTGA ATAACCACTTACTATTGCTAAATTCTCATTTGTACTAGAAAATAATGTATCCCCAAGAATGGAA CCGTTGGCAATAGCTGAAATCTGTGAGTCCTGTACAGAAGTAACATAAAAACATTGATAAAGGA AGGGAAAAAGGAAAGTGAAACAAGCATTTGCAGGAAAATAAATTAGTAGGAAGAATGTTAGGAA AATCTAACTTACTGGCAAACTGACAGTGTTTGTGGCCTTCCGGAAGCCCATAACAAGTTTCCCT CCAGGTTCTATCCGACTAAAAGTCACTGAAAAGAAAACAAGAATCACCATTAAGTATGAAAACC TTCCCAGTGAGATCACATTTAATATGGAACAATTCTACTTAGCATGTTTAAATATATTACCACA CAAAATTCCTATAACAAGTAAGATATGACCATGAAATATTAATCAGGCATTGAATTTTGACCTA GACGTGACAATTAAATGACTATGGGAGGACCCCTATTTGTCCCTGTCAATTCCATGTGTAGGTC AATTTGTTCTTTCAAATTCTGTACACTCAATTTAGACATTTGTGAATACTTAAGGAGATTCCCC TATCAACTGGCAACTTTACTGCCATGAGTGCTTTCCCAAATAGTTTTGAAGTACTTTTGAACTA TGTTAGATCCTTTGAAGGTATGCAATAGGAAAATCATTGCTTATATGTAATCAGGCATCAGTAA TAAAATTGTAAAAAAAGAACAGGTGATATCATGTCCAAGGAGATTTAACCTGTATCACCAGCCT GTAATTGTAATGATTGTATGCATGGTGTAACCCCCTCCAAGACATACATTCTGCTGTTGTTATT TGGCCAGAATCTGAACTGAAAATGCCATTCTTTGCCTTTTGCGTCTTGAATTGTCAAAGGACGA CCTTCTGGCTGAGAAATTGGAGGGAAATATGCCTACAAAATGTATCTCGGCAACTCAGGATGAC AGCAAACATGAAAAGAAATATGTTAAAATAGTTATGCTGAGAAACAATTGTCCCCACTCCCAGT AGTTAGCAACCATTTTGCAAAGAATGTAAAGTAGCAGTGCTCTATTGCAAAATACTGTAACCAT GAAAATATTTAAATAAATTATTTATATAAGATTATTGAGCATGTTGGGAACCAAAGAATGTCAA GTAGCATAACAATACTAACAAGTGTAACAATGGCCTAGGTCTCTGTTGATCAGGTATTCTATGT CAGTGTTTACGTGAAGTAGTAAAATTAGGTTCCACATCGGCTGTATTTCTTTCTAGTCCTAACT CTTGTGCATATACTACTATATAATATAGTCACATAGATCTTGTCAAAGCATAATAAAGGTTATT GTTTTTTGTAACATGTGGATGGGAGGGTGTTCCTGATCCTCATTTGTATCAAAGGATCTTTAAA TAATAGGGAATATGATACAAAAACGATAAATCAGTAATGAGGTAACAACACTAAAATTTTATTA ACAGGAGGCAGAACCACAAAAGGTTGTGAACAAAAAAATACCTCCGCACAGGCTTTTGGTAGAA CAAGGCGCCCTATGCGGCCTGCATCACTGGCGCTTAGAACCTTCTCAAACAGGGGGACAATGGT GGAATTTGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.153884146

Conservation Information
Conserved circRNAs	NA
PMCS	0.153884146

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28789833-28787923(+)
28790456-28788107(+)
28789726-28790479(-)
						
						Potential amino acid sequence
						
							MPPHRLLVEQGALCGLHHWRLEPSQTGGQWWNLNFVLLKNNVQFFGG*(+)
MRPASLALRTFSNRGTMVEFELRIAEEQCAILWGLILQVQSRNSFLSRLCCQHMSTWMQQ*(+)
MYVLEGVTPCIQSLQLQAGDTVTFSRIEPGGKLVMGFRKATNTVSLPDSQISAIANGSILGDTL
FSSTNENLAIVSGYSGFLQSIKGAADLHTSSIYDHHVNSADGDVSWLKTDKFGSRPDEGSLQFL
KRGRNIGSKSRRLSMDAEEAWELKLYWDEVQELLRPAPTAKPTVVMIEDYEIEEYDEPPVFAKR
SIFTIRSTGEQDQWIQCDDCSKWRRLPLNVIVASKWTCADNTIDSKSCSCSAPEELTPKELHIV
LQQYEVQIPPLSPCLRRF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28789833-28787923(+) 28790456-28788107(+) 28789726-28790479(-)
Potential amino acid sequence	MPPHRLLVEQGALCGLHHWRLEPSQTGGQWWNLNFVLLKNNVQFFGG(+) MRPASLALRTFSNRGTMVEFELRIAEEQCAILWGLILQVQSRNSFLSRLCCQHMSTWMQQ(+) MYVLEGVTPCIQSLQLQAGDTVTFSRIEPGGKLVMGFRKATNTVSLPDSQISAIANGSILGDTL FSSTNENLAIVSGYSGFLQSIKGAADLHTSSIYDHHVNSADGDVSWLKTDKFGSRPDEGSLQFL KRGRNIGSKSRRLSMDAEEAWELKLYWDEVQELLRPAPTAKPTVVMIEDYEIEEYDEPPVFAKR SIFTIRSTGEQDQWIQCDDCSKWRRLPLNVIVASKWTCADNTIDSKSCSCSAPEELTPKELHIV LQQYEVQIPPLSPCLRRF*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0679700_circ_g.4

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