Plant Circular RNA Database

Detail information of Os10g0567300_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os10g0567300_circ_g.2
					
						ID in PlantcircBase
						osa_circ_008055
					
						Alias
						Os_ciR6908
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 22481457-22482081  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os10g0567300						
					
						Parent gene annotation
						
							SH2 motif domain containing protein. (Os10t0567300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os10g0567200_circ_ag.1 EPlOSAG00000036674_circ_ig.1 Os10g0567300_circ_g.1 Os10g0567300_circ_g.3 Os10g0567400_circ_g.1 Os10g0567400_circ_g.2 Os10g0567400_circ_g.3 Os10g0567400_circ_g.4 Os10g0567400_circ_g.5 Os10g0567400_circ_g.6 Os10g0567400_circ_g.7 Os10g0567400_circ_g.8 Os10g0567400_circ_g.9 Os10g0567400_circ_g.10 Os10g0567400_circ_g.11 						
					
						Support reads
						2/2
					
						Tissues
						root/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  
						
							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
						Os10t0567300-01:2

General Information
CircRNA Name	Os10g0567300_circ_g.2
ID in PlantcircBase	osa_circ_008055
Alias	Os_ciR6908
Organism	Oryza sativa
Position	chr10: 22481457-22482081 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os10g0567300
Parent gene annotation	SH2 motif domain containing protein. (Os10t0567300-01)
Parent gene strand	+
Alternative splicing	Os10g0567200_circ_ag.1 EPlOSAG00000036674_circ_ig.1 Os10g0567300_circ_g.1 Os10g0567300_circ_g.3 Os10g0567400_circ_g.1 Os10g0567400_circ_g.2 Os10g0567400_circ_g.3 Os10g0567400_circ_g.4 Os10g0567400_circ_g.5 Os10g0567400_circ_g.6 Os10g0567400_circ_g.7 Os10g0567400_circ_g.8 Os10g0567400_circ_g.9 Os10g0567400_circ_g.10 Os10g0567400_circ_g.11
Support reads	2/2
Tissues	root/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	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	Os10t0567300-01:2

			
						 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  
						
							CTACCCGAAGCTGGCCACATCCAGATGCCGGTAGCCTGGTTGTTACCTATGTTGGCTCCGATAA
CTCAATTCATCATAGACTTTTGTCTCTTGATGTCAGaaaccaaatattaatatcaaagcaactg
ctccaagagggtgctgacatttggagtataatctcaaagaacaatgaacgtgctctttggtcat
ctgcagtt

						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: 131
Transcript exons: 22481457-22481491,22481986-22482081
AAACCAAATATTAATATCAAAGCAACTGCTCCAAGCCGAAGCTGGCCACATCCAGATGCCGGTA
GCCTGGTTGTTACCTATGTTGGCTCCGATAACTCAATTCATCATAGACTTTTGTCTCTTGATGT
CAG
Transcript length: 510
Transcript exons: 22481457-22481619,22481735-22482081
AAACCAAATATTAATATCAAAGCAACTGCTCCAAGAGGGTGCTGACATTTGGAGTATAATCTCA
AAGAACAATGAACGTGCTCTTTGGTCATCTGCAGTTCCTGAAATGAAAGCAAAATTTTTGGAAA
TAGTCCATCCTTCCAACAGGGGTTTGTCGGAGCAGGATTTTGAGGTTTTAAGAGGAATTGCTGG
TTGTGGTGATGACATTGGAAGAGACGAGTTTGATAAGCTATGGTCCTGGTTATACCCAGTTGCC
ATTGCTTTGTCAAAAGACAAAATAAACAGGCTATGGGATTTCACAGCACATAGATGGATAGAGG
GATTGATTACATTACAGGAAACTGAGAATGCGCTAAGAAGTTCCAGGGACCGGCTTATGAAGCC
AGGAACATTTGTCCTTAGATTTCCTACTACCCGAAGCTGGCCACATCCAGATGCCGGTAGCCTG
GTTGTTACCTATGTTGGCTCCGATAACTCAATTCATCATAGACTTTTGTCTCTTGATGTCAG
						
						Genomic sequence
						
							AAACCAAATATTAATATCAAAGCAACTGCTCCAAGAGGGTGCTGACATTTGGAGTATAATCTCA
AAGAACAATGAACGTGCTCTTTGGTCATCTGCAGTTCCTGAAATGAAAGCAAAATTTTTGGAAA
TAGTCCATCCTTCCAACAGGGGTTTGTCGGAGCAGGTAAAACTGTTTTACTTGAACATAAGAGT
GTTAAATCTTACCTAAAGCTCTAAGGTGCACTTTTGAAAATAGCACAAATCAAGATATTTAATT
TCATGCAATATATTTTTTTCAGGATTTTGAGGTTTTAAGAGGAATTGCTGGTTGTGGTGATGAC
ATTGGAAGAGACGAGTTTGATAAGCTATGGTCCTGGTTATACCCAGTTGCCATTGCTTTGTCAA
AAGACAAAATAAACAGGCTATGGGATTTCACAGCACATAGATGGATAGAGGGATTGATTACATT
ACAGGAAACTGAGAATGCGCTAAGAAGTTCCAGGGACCGGCTTATGAAGCCAGGAACATTTGTC
CTTAGATTTCCTACTACCCGAAGCTGGCCACATCCAGATGCCGGTAGCCTGGTTGTTACCTATG
TTGGCTCCGATAACTCAATTCATCATAGACTTTTGTCTCTTGATGTCAG

Sequences
Splice junction sequence	CTACCCGAAGCTGGCCACATCCAGATGCCGGTAGCCTGGTTGTTACCTATGTTGGCTCCGATAA CTCAATTCATCATAGACTTTTGTCTCTTGATGTCAGaaaccaaatattaatatcaaagcaactg ctccaagagggtgctgacatttggagtataatctcaaagaacaatgaacgtgctctttggtcat ctgcagtt
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: 131 Transcript exons: 22481457-22481491,22481986-22482081 AAACCAAATATTAATATCAAAGCAACTGCTCCAAGCCGAAGCTGGCCACATCCAGATGCCGGTA GCCTGGTTGTTACCTATGTTGGCTCCGATAACTCAATTCATCATAGACTTTTGTCTCTTGATGT CAG Transcript length: 510 Transcript exons: 22481457-22481619,22481735-22482081 AAACCAAATATTAATATCAAAGCAACTGCTCCAAGAGGGTGCTGACATTTGGAGTATAATCTCA AAGAACAATGAACGTGCTCTTTGGTCATCTGCAGTTCCTGAAATGAAAGCAAAATTTTTGGAAA TAGTCCATCCTTCCAACAGGGGTTTGTCGGAGCAGGATTTTGAGGTTTTAAGAGGAATTGCTGG TTGTGGTGATGACATTGGAAGAGACGAGTTTGATAAGCTATGGTCCTGGTTATACCCAGTTGCC ATTGCTTTGTCAAAAGACAAAATAAACAGGCTATGGGATTTCACAGCACATAGATGGATAGAGG GATTGATTACATTACAGGAAACTGAGAATGCGCTAAGAAGTTCCAGGGACCGGCTTATGAAGCC AGGAACATTTGTCCTTAGATTTCCTACTACCCGAAGCTGGCCACATCCAGATGCCGGTAGCCTG GTTGTTACCTATGTTGGCTCCGATAACTCAATTCATCATAGACTTTTGTCTCTTGATGTCAG
Genomic sequence	AAACCAAATATTAATATCAAAGCAACTGCTCCAAGAGGGTGCTGACATTTGGAGTATAATCTCA AAGAACAATGAACGTGCTCTTTGGTCATCTGCAGTTCCTGAAATGAAAGCAAAATTTTTGGAAA TAGTCCATCCTTCCAACAGGGGTTTGTCGGAGCAGGTAAAACTGTTTTACTTGAACATAAGAGT GTTAAATCTTACCTAAAGCTCTAAGGTGCACTTTTGAAAATAGCACAAATCAAGATATTTAATT TCATGCAATATATTTTTTTCAGGATTTTGAGGTTTTAAGAGGAATTGCTGGTTGTGGTGATGAC ATTGGAAGAGACGAGTTTGATAAGCTATGGTCCTGGTTATACCCAGTTGCCATTGCTTTGTCAA AAGACAAAATAAACAGGCTATGGGATTTCACAGCACATAGATGGATAGAGGGATTGATTACATT ACAGGAAACTGAGAATGCGCTAAGAAGTTCCAGGGACCGGCTTATGAAGCCAGGAACATTTGTC CTTAGATTTCCTACTACCCGAAGCTGGCCACATCCAGATGCCGGTAGCCTGGTTGTTACCTATG TTGGCTCCGATAACTCAATTCATCATAGACTTTTGTCTCTTGATGTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_008721 						
					
						PMCS
						0.554246185

Conservation Information
Conserved circRNAs	osi_circ_008721
PMCS	0.554246185

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22481564-22482078(+)
22482007-22481467(+)
22481831-22482057(-)
22481550-22482080(-)
						
						Potential amino acid sequence
						
							MKAKFLEIVHPSNRGLSEQDFEVLRGIAGCGDDIGRDEFDKLWSWLYPVAIALSKDKINRLWDF
TAHRWIEGLITLQETENALRSSRDRLMKPGTFVLRFPTTRSWPHPDAGSLVVTYVGSDNSIHHR
LLSLDVRNQILISKQLLQEGADIWSIISKNNERALWSSAVPEMKAKFLEIVHPSNRGLSEQDFE
VLRGIAGCGDDIGRDEFDKLWSWLYPVAIALSKDKINRLWDFTAHRWIEGLITLQETENALRSS
RDRLMKPGTFVLRFPTTRSWPHPDAGSLVVTYVGSDNSIHHRLLSLDVRNQILISKQLLQEGAD
IWSIISKNNERALWSSAVPEMKAKFLEIVHPSNRGLSEQDFEVLRGIAGCGDDIGRDEFDKLWS
WLYPVAIALSKDKINRLWDFTAHRWIEGLITLQETENALRSSRDRLMKPGTFVLRFPTTRSWPH
PDAGSLVVTYVGSDNSIHHRLLSLDVRNQILISKQLLQEGADIWSIISKNNERALWSSAVPEMK
AKFLEIVHPSNRGLSEQDFEVLRGIAGCGDDIGRDEFDKLWSWLYPVAIALSKDKINRLWDFTA
HRWIEGLITLQETENALRSSRDRLMKPGTFVLRFPTTRSWPHPDAGSLVVTYVGSDNSIHHRLL
SLDV(+)
MPVAWLLPMLAPITQFIIDFCLLMSETKY*(+)
MATGYNQDHSLSNSSLPMSSPQPAIPLKTSKSCSDKPLLEGWTISKNFAFISGTADDQRARSLF
FEIILQMSAPSWSSCFDINIWFLTSRDKSL*(-)
MTKEHVHCSLRLYSKCQHPLGAVALILIFGF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22481564-22482078(+) 22482007-22481467(+) 22481831-22482057(-) 22481550-22482080(-)
Potential amino acid sequence	MKAKFLEIVHPSNRGLSEQDFEVLRGIAGCGDDIGRDEFDKLWSWLYPVAIALSKDKINRLWDF TAHRWIEGLITLQETENALRSSRDRLMKPGTFVLRFPTTRSWPHPDAGSLVVTYVGSDNSIHHR LLSLDVRNQILISKQLLQEGADIWSIISKNNERALWSSAVPEMKAKFLEIVHPSNRGLSEQDFE VLRGIAGCGDDIGRDEFDKLWSWLYPVAIALSKDKINRLWDFTAHRWIEGLITLQETENALRSS RDRLMKPGTFVLRFPTTRSWPHPDAGSLVVTYVGSDNSIHHRLLSLDVRNQILISKQLLQEGAD IWSIISKNNERALWSSAVPEMKAKFLEIVHPSNRGLSEQDFEVLRGIAGCGDDIGRDEFDKLWS WLYPVAIALSKDKINRLWDFTAHRWIEGLITLQETENALRSSRDRLMKPGTFVLRFPTTRSWPH PDAGSLVVTYVGSDNSIHHRLLSLDVRNQILISKQLLQEGADIWSIISKNNERALWSSAVPEMK AKFLEIVHPSNRGLSEQDFEVLRGIAGCGDDIGRDEFDKLWSWLYPVAIALSKDKINRLWDFTA HRWIEGLITLQETENALRSSRDRLMKPGTFVLRFPTTRSWPHPDAGSLVVTYVGSDNSIHHRLL SLDV(+) MPVAWLLPMLAPITQFIIDFCLLMSETKY(+) MATGYNQDHSLSNSSLPMSSPQPAIPLKTSKSCSDKPLLEGWTISKNFAFISGTADDQRARSLF FEIILQMSAPSWSSCFDINIWFLTSRDKSL(-) MTKEHVHCSLRLYSKCQHPLGAVALILIFGF*(-)
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 Os10g0567300_circ_g.2

Address

Any questions?

Supported by