Plant Circular RNA Database

Detail information of Os07g0108300_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os07g0108300_circ_g.2
					
						ID in PlantcircBase
						osa_circ_032585
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 447026-448838  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0108300						
					
						Parent gene annotation
						
							Similar to Alanine aminotransferase. (Os07t0108300-01);Similar t
o Alanine aminotransferase. (Os07t0108300-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0108300_circ_g.1 Os07g0108300_circ_g.3 Os07g0108300_circ_g.4 Os07g0108300_circ_g.5 Os07g0108300_circ_g.6 Os07g0108300_circ_g.7 Os07g0108300_circ_g.8 Os07g0108300_circ_g.9 Os07g0108300_circ_g.10 Os07g0108300_circ_g.11 Os07g0108300_circ_g.12 Os07g0108300_circ_g.13 Os07g0108300_circ_g.14 						
					
						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  
						
							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
						Os07t0108300-01:5
Os07t0108300-02:5

General Information
CircRNA Name	Os07g0108300_circ_g.2
ID in PlantcircBase	osa_circ_032585
Alias	NA
Organism	Oryza sativa
Position	chr7: 447026-448838 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0108300
Parent gene annotation	Similar to Alanine aminotransferase. (Os07t0108300-01);Similar t o Alanine aminotransferase. (Os07t0108300-02)
Parent gene strand	-
Alternative splicing	Os07g0108300_circ_g.1 Os07g0108300_circ_g.3 Os07g0108300_circ_g.4 Os07g0108300_circ_g.5 Os07g0108300_circ_g.6 Os07g0108300_circ_g.7 Os07g0108300_circ_g.8 Os07g0108300_circ_g.9 Os07g0108300_circ_g.10 Os07g0108300_circ_g.11 Os07g0108300_circ_g.12 Os07g0108300_circ_g.13 Os07g0108300_circ_g.14
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	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	Os07t0108300-01:5 Os07t0108300-02:5

			
						 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  
						
							CTCCACGTTGTCCACACTCCCCCCAATATCCTTTTGACACAGTATGGAAAGAAACCAGCTGAAC
TTCCCTGCTCATAGGAGGACCCATGTCAAACAGAACccttctttttgtccgaaacctgaccctg
gaacagtggatattccagttgcttcaagaagcttgaggcagtagaaaacatcggccgctttgcc
agcccttt

									
								

					

						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: 512
Transcript exons: 447026-447182,447274-447365,447516-447580,448052-448117,
448707-448838
CCTTCTTTTTGTCCGAAACCTGACCCTGGAACAGTGGATATTCCAGTTGCTTCAAGAAGCTTGA
GGCAGTAGAAAACATCGGCCGCTTTGCCAGCCCTTTTGGCTGCATCTATAGCTTTTGGTGGTAA
GCGTATTTGGGGGAAAGAGTACATAGCTCCTTCTGTGAAATTGCAGACAACATTTCGGCAACTA
TTGAAACCATCTGTCATCAGGCGTGCTCTCCTCCTCAAAGACTCGAGGATAGACTTGCTTTCAG
CAGAAAACTTCAGATAAGAGATATCTCCAGGCTTAGGAGGGTTAACCATTAAACCCATAAAGAT
CTGCCCAGGAACATTTGGACTGAGTGCGATTGATGCAACCTTGTAGATCTCGTCTACTGTCTTG
GGAGGAAGATTTGTCATTTCAAAATACCCTCCACGTTGTCCACACTCCCCCCAATATCCTTTTG
ACACAGTATGGAAAGAAACCAGCTGAACTTCCCTGCTCATAGGAGGACCCATGTCAAACAGAAC
						
					

						Genomic sequence
						
							CCTTCTTTTTGTCCGAAACCTGACCCTGGAACAGTGGATATTCCAGTTGCTTCAAGAAGCTTGA
GGCAGTAGAAAACATCGGCCGCTTTGCCAGCCCTTTTGGCTGCATCTATAGCTTTTGGTGGTAA
GCGTATTTGGGGGAAAGAGTACATAGCTCCTGCAACAACATAATTGGAAGAGCATTATTAGAGA
AGCTGCTTCATTTTCTCCTATTGCCATAAAGGAAGGGGCTCATATGTTAATGTCACCTTCTGTG
AAATTGCAGACAACATTTCGGCAACTATTGAAACCATCTGTCATCAGGCGTGCTCTCCTCCTCA
AAGACTCGAGGATAGACTTGCTGCAACATCATCAGGAGGCACATTATACATAGAACACTCGAAA
TTACTACCAGAGGAAATAAATACTGAATAACTGAATACCCGTGTAGGTCTTCTTTTCCTTGAAA
ATGCAGACATGGATTAAAATGATGAGAAGGGAAAGTATATACCTTTCAGCAGAAAACTTCAGAT
AAGAGATATCTCCAGGCTTAGGAGGGTTAACCATTAAACCCATCTGTAAATGACATTAAAACCA
TTTTTATTAACTTGTTAAAGCAAAGTAACATAACTTCAAGAAAATTAGTACAGTTGCAACTAAA
CTGTTTCAGGAACTAAGACCACATTGAATAACTCTAACACAAAAAGAAATGCATGTTTGCTATT
CCTTGTAAGGCTGTAGCCCACAGAGACATATTTTCAAGGTGCAGCATTATATGCTAATAAAGTA
AGCCATTGTGCTCATCACCAACATATGGACTGACCAAATAAGGGATTATTTAGATGCTCTCATC
TATTATTGTTGCAATCCATGGAAAAAAAATCTGGATATTTTTGGGCATCTCAGGGCACCGAAAT
TTTGAGTAATGCTCCATGGATAAATTAAGGATATCATATTTCCAGTTTTAAAGCTTGTGGTTTG
GCCACTGGAAGAACGGAAAGCTGTTTTAGATAATTGCACAAAAACAATGAATATTGTTTGACTT
ACAAAGATCTGCCCAGGAACATTTGGACTGAGTGCGATTGATGCAACCTTGTAGATCTCGTCTA
CTGTCTGTCATATGAAATGAGGAACGTAATTAGATCACAAGCAAACAGAAAAATGGTATCTGTG
CTACTATCCAAACTTCAAAGTAAAATCTTACATTACATGATCTATAACCAATCTTGTGCGAGTG
CTTAATCTTATCTAAAAGCTTAATATTTCAACTGCCAAAGGCTCTTCAAAATTTGTCAAACATT
AAGTTTACAGTTTGGAAATTGGACAAACCTAAGAGTTGCAAACTTGCAAACTCCAGTTTACGTT
GTTCATACTCAAGTTTCTGAGACTGACAAAGACCACTCTAGTAAGGGAATATTTCGGTGCAACA
AATGTAACTACACCAACCTAGTTAGCAGGATGGGCTACTGGATTATATTACATAGTTCAACATA
TACACTATTTTACTGTGGACCAAATATAACAACAAGAAACTAGCATATTCTCTATTAGACTTTG
CAACATGGCATGAAGAATGTAACATCTTTTCTAGTATCTGCATCTACATTTTTGTGTAGCTGCA
TTCTATAAATCTATATAGTAAAGACTAGAAATTTGAATCACGATCTTTTGAGATCAATCACATA
TTCTATAATGGCATCACCTTGGGAGGAAGATTTGTCATTTCAAAATACCCTCCACGTTGTCCAC
ACTCCCCCCAATATCCTTTTGACACAGTATGGAAAGAAACCAGCTGAACTTCCCTGCTCATAGG
AGGACCCATGTCAAACAGAAC
						
					

			
		

Sequences
Splice junction sequence	CTCCACGTTGTCCACACTCCCCCCAATATCCTTTTGACACAGTATGGAAAGAAACCAGCTGAAC TTCCCTGCTCATAGGAGGACCCATGTCAAACAGAACccttctttttgtccgaaacctgaccctg gaacagtggatattccagttgcttcaagaagcttgaggcagtagaaaacatcggccgctttgcc agcccttt
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: 512 Transcript exons: 447026-447182,447274-447365,447516-447580,448052-448117, 448707-448838 CCTTCTTTTTGTCCGAAACCTGACCCTGGAACAGTGGATATTCCAGTTGCTTCAAGAAGCTTGA GGCAGTAGAAAACATCGGCCGCTTTGCCAGCCCTTTTGGCTGCATCTATAGCTTTTGGTGGTAA GCGTATTTGGGGGAAAGAGTACATAGCTCCTTCTGTGAAATTGCAGACAACATTTCGGCAACTA TTGAAACCATCTGTCATCAGGCGTGCTCTCCTCCTCAAAGACTCGAGGATAGACTTGCTTTCAG CAGAAAACTTCAGATAAGAGATATCTCCAGGCTTAGGAGGGTTAACCATTAAACCCATAAAGAT CTGCCCAGGAACATTTGGACTGAGTGCGATTGATGCAACCTTGTAGATCTCGTCTACTGTCTTG GGAGGAAGATTTGTCATTTCAAAATACCCTCCACGTTGTCCACACTCCCCCCAATATCCTTTTG ACACAGTATGGAAAGAAACCAGCTGAACTTCCCTGCTCATAGGAGGACCCATGTCAAACAGAAC
Genomic sequence	CCTTCTTTTTGTCCGAAACCTGACCCTGGAACAGTGGATATTCCAGTTGCTTCAAGAAGCTTGA GGCAGTAGAAAACATCGGCCGCTTTGCCAGCCCTTTTGGCTGCATCTATAGCTTTTGGTGGTAA GCGTATTTGGGGGAAAGAGTACATAGCTCCTGCAACAACATAATTGGAAGAGCATTATTAGAGA AGCTGCTTCATTTTCTCCTATTGCCATAAAGGAAGGGGCTCATATGTTAATGTCACCTTCTGTG AAATTGCAGACAACATTTCGGCAACTATTGAAACCATCTGTCATCAGGCGTGCTCTCCTCCTCA AAGACTCGAGGATAGACTTGCTGCAACATCATCAGGAGGCACATTATACATAGAACACTCGAAA TTACTACCAGAGGAAATAAATACTGAATAACTGAATACCCGTGTAGGTCTTCTTTTCCTTGAAA ATGCAGACATGGATTAAAATGATGAGAAGGGAAAGTATATACCTTTCAGCAGAAAACTTCAGAT AAGAGATATCTCCAGGCTTAGGAGGGTTAACCATTAAACCCATCTGTAAATGACATTAAAACCA TTTTTATTAACTTGTTAAAGCAAAGTAACATAACTTCAAGAAAATTAGTACAGTTGCAACTAAA CTGTTTCAGGAACTAAGACCACATTGAATAACTCTAACACAAAAAGAAATGCATGTTTGCTATT CCTTGTAAGGCTGTAGCCCACAGAGACATATTTTCAAGGTGCAGCATTATATGCTAATAAAGTA AGCCATTGTGCTCATCACCAACATATGGACTGACCAAATAAGGGATTATTTAGATGCTCTCATC TATTATTGTTGCAATCCATGGAAAAAAAATCTGGATATTTTTGGGCATCTCAGGGCACCGAAAT TTTGAGTAATGCTCCATGGATAAATTAAGGATATCATATTTCCAGTTTTAAAGCTTGTGGTTTG GCCACTGGAAGAACGGAAAGCTGTTTTAGATAATTGCACAAAAACAATGAATATTGTTTGACTT ACAAAGATCTGCCCAGGAACATTTGGACTGAGTGCGATTGATGCAACCTTGTAGATCTCGTCTA CTGTCTGTCATATGAAATGAGGAACGTAATTAGATCACAAGCAAACAGAAAAATGGTATCTGTG CTACTATCCAAACTTCAAAGTAAAATCTTACATTACATGATCTATAACCAATCTTGTGCGAGTG CTTAATCTTATCTAAAAGCTTAATATTTCAACTGCCAAAGGCTCTTCAAAATTTGTCAAACATT AAGTTTACAGTTTGGAAATTGGACAAACCTAAGAGTTGCAAACTTGCAAACTCCAGTTTACGTT GTTCATACTCAAGTTTCTGAGACTGACAAAGACCACTCTAGTAAGGGAATATTTCGGTGCAACA AATGTAACTACACCAACCTAGTTAGCAGGATGGGCTACTGGATTATATTACATAGTTCAACATA TACACTATTTTACTGTGGACCAAATATAACAACAAGAAACTAGCATATTCTCTATTAGACTTTG CAACATGGCATGAAGAATGTAACATCTTTTCTAGTATCTGCATCTACATTTTTGTGTAGCTGCA TTCTATAAATCTATATAGTAAAGACTAGAAATTTGAATCACGATCTTTTGAGATCAATCACATA TTCTATAATGGCATCACCTTGGGAGGAAGATTTGTCATTTCAAAATACCCTCCACGTTGTCCAC ACTCCCCCCAATATCCTTTTGACACAGTATGGAAAGAAACCAGCTGAACTTCCCTGCTCATAGG AGGACCCATGTCAAACAGAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.251268032

Conservation Information
Conserved circRNAs	NA
PMCS	0.251268032

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							448826-447086(+)
448783-447094(+)
448828-448813(-)
447136-448830(-)
						
						Potential amino acid sequence
						
							MSNRTLLFVRNLTLEQWIFQLLQEA*(+)
MERNQLNFPAHRRTHVKQNPSFCPKPDPGTVDIPVASRSLRQ*(+)
MGPPMSREVQLVSFHTVSKGYWGECGQRGGYFEMTNLPPKTVDEIYKVASIALSPNVPGQIFMG
LMVNPPKPGDISYLKFSAESKSILESLRRRARLMTDGFNSCRNVVCNFTEGAMYSFPQIRLPPK
AIDAAKRAGKAADVFYCLKLLEATGISTVPGSGFGQKEGFCLTWVLL*(-)
MQPKGLAKRPMFSTASSFLKQLEYPLFQGQVSDKKKGSV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	448826-447086(+) 448783-447094(+) 448828-448813(-) 447136-448830(-)
Potential amino acid sequence	MSNRTLLFVRNLTLEQWIFQLLQEA(+) MERNQLNFPAHRRTHVKQNPSFCPKPDPGTVDIPVASRSLRQ(+) MGPPMSREVQLVSFHTVSKGYWGECGQRGGYFEMTNLPPKTVDEIYKVASIALSPNVPGQIFMG LMVNPPKPGDISYLKFSAESKSILESLRRRARLMTDGFNSCRNVVCNFTEGAMYSFPQIRLPPK AIDAAKRAGKAADVFYCLKLLEATGISTVPGSGFGQKEGFCLTWVLL(-) MQPKGLAKRPMFSTASSFLKQLEYPLFQGQVSDKKKGSV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0108300_circ_g.2

Address

Any questions?

Supported by