Plant Circular RNA Database

Detail information of Os02g0161200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0161200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_013211
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 3301691-3302732  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0161200						
					
						Parent gene annotation
						
							Zinc finger, CCCH-type domain containing protein. (Os02t0161200-
01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0161200_circ_g.2 						
					
						Support reads
						1
					
						Tissues
						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
						Os02t0161251-01:1
Os02t0161200-01:4
Os02t0161251-01:1

General Information
CircRNA Name	Os02g0161200_circ_g.3
ID in PlantcircBase	osa_circ_013211
Alias	NA
Organism	Oryza sativa
Position	chr2: 3301691-3302732 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0161200
Parent gene annotation	Zinc finger, CCCH-type domain containing protein. (Os02t0161200- 01)
Parent gene strand	+
Alternative splicing	Os02g0161200_circ_g.2
Support reads	1
Tissues	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	Os02t0161251-01:1 Os02t0161200-01:4 Os02t0161251-01:1

			
						 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  
						
							AACAAGTAAGGGGACTGAGGCAACCAAGTCTTTATATTTGAAGAAGAAATTATGGGAAGATGAA
AAAAGTAAGCTAGGAGCCAACATTTTCACAGAAAAGgtcattttggatgagaagatagatgaag
tgcgcaagatctctagcaaagttaatgatcttgaggtgcagcttagaagggagaaagatgaatg
ccataggt

									
								

					

						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: 522
Transcript exons: 3301691-3301788,3301878-3301949,3302058-3302230,3302554-
3302732
GTCATTTTGGATGAGAAGATAGATGAAGTGCGCAAGATCTCTAGCAAAGTTAATGATCTTGAGG
TGCAGCTTAGAAGGGAGAAAGATGAATGCCATAGGATGACCTCAAAGATGAAGAAGTTTATTAA
AGCTCATGCTCGGTTTTTGAAGGCACAAGAAGAAGTGAAAAGGTCACAAGCTCGTTTCGAGAGG
CTTGGTGATTTGCTTGCTTCAGATATTTTGAAGCGTGGTGCTAATGAAGAGGGGTCCAGTGTCA
ATGAAGACCTAAACGAAAGGAGTCCTAATACTGCAGCAACTAAAAAGAGATCAATCCCATACTC
AACAAGTGAAGAAGCGAAAGCTGTGAAGAAGAGAAGAGAGCGAGACTCTGATACAATGACTAGG
TCAGATAAATATAGGTCAGATGTTACAGATTTTGATAAAACAAGTAAGGGGACTGAGGCAACCA
AGTCTTTATATTTGAAGAAGAAATTATGGGAAGATGAAAAAAGTAAGCTAGGAGCCAACATTTT
CACAGAAAAG
						
					

						Genomic sequence
						
							GTCATTTTGGATGAGAAGATAGATGAAGTGCGCAAGATCTCTAGCAAAGTTAATGATCTTGAGG
TGCAGCTTAGAAGGGAGAAAGATGAATGCCATAGGTACTTAAGCAATGTTTCCACATGACAATG
GCACATTATCTTGACAGTATTATCCAATAGTTCTATATTGTTTTTCTATACCTTTGTAGGATGA
CCTCAAAGATGAAGAAGTTTATTAAAGCTCATGCTCGGTTTTTGAAGGCACAAGAAGAAGTGAA
AAGGTGCTTTATGTTTTCATCATGTTTGGCCTTGTAATGCTAGTACACACCAGATTACTCCTTT
TTGCATAACTATCAATCAATAAGTGTTCACCAATTGGAGTTATGCAGGTCACAAGCTCGTTTCG
AGAGGCTTGGTGATTTGCTTGCTTCAGATATTTTGAAGCGTGGTGCTAATGAAGAGGGGTCCAG
TGTCAATGAAGACCTAAACGAAAGGAGTCCTAATACTGCAGCAACTAAAAAGAGATCAATCCCA
TACTCAACAAGTGAAGAAGCGAAAGCTGGTATGTAGCTTAGTTTCTCGGGACACTCTGATTGCC
AGGTTGTGATTTGTACAATATGGATCTTGGTGTTATGCAGCATCCAACTTTCCCCTTCTGTTAA
ACTGATATATGTACCTCTTTATGGAGTAACCAGTCGATCCTAGTATGAAGTAGTTCAAATGTTC
CTTTATTTAATATTAAGCATTAAAATTGATGTGCTTAGTTTTCTTACAGTAGCACTGAAGGATG
CCTAGTTTCTTTTATAATTGGATTTTAATTCTTTCTGCAAATTGCTGAAGAAGTGTCTTAATTA
TGTACTTAAACCTAATTGCTTGTCTCCTCAGTGAAGAAGAGAAGAGAGCGAGACTCTGATACAA
TGACTAGGTCAGATAAATATAGGTCAGATGTTACAGATTTTGATAAAACAAGTAAGGGGACTGA
GGCAACCAAGTCTTTATATTTGAAGAAGAAATTATGGGAAGATGAAAAAAGTAAGCTAGGAGCC
AACATTTTCACAGAAAAG
						
					

			
		

Sequences
Splice junction sequence	AACAAGTAAGGGGACTGAGGCAACCAAGTCTTTATATTTGAAGAAGAAATTATGGGAAGATGAA AAAAGTAAGCTAGGAGCCAACATTTTCACAGAAAAGgtcattttggatgagaagatagatgaag tgcgcaagatctctagcaaagttaatgatcttgaggtgcagcttagaagggagaaagatgaatg ccataggt
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: 522 Transcript exons: 3301691-3301788,3301878-3301949,3302058-3302230,3302554- 3302732 GTCATTTTGGATGAGAAGATAGATGAAGTGCGCAAGATCTCTAGCAAAGTTAATGATCTTGAGG TGCAGCTTAGAAGGGAGAAAGATGAATGCCATAGGATGACCTCAAAGATGAAGAAGTTTATTAA AGCTCATGCTCGGTTTTTGAAGGCACAAGAAGAAGTGAAAAGGTCACAAGCTCGTTTCGAGAGG CTTGGTGATTTGCTTGCTTCAGATATTTTGAAGCGTGGTGCTAATGAAGAGGGGTCCAGTGTCA ATGAAGACCTAAACGAAAGGAGTCCTAATACTGCAGCAACTAAAAAGAGATCAATCCCATACTC AACAAGTGAAGAAGCGAAAGCTGTGAAGAAGAGAAGAGAGCGAGACTCTGATACAATGACTAGG TCAGATAAATATAGGTCAGATGTTACAGATTTTGATAAAACAAGTAAGGGGACTGAGGCAACCA AGTCTTTATATTTGAAGAAGAAATTATGGGAAGATGAAAAAAGTAAGCTAGGAGCCAACATTTT CACAGAAAAG
Genomic sequence	GTCATTTTGGATGAGAAGATAGATGAAGTGCGCAAGATCTCTAGCAAAGTTAATGATCTTGAGG TGCAGCTTAGAAGGGAGAAAGATGAATGCCATAGGTACTTAAGCAATGTTTCCACATGACAATG GCACATTATCTTGACAGTATTATCCAATAGTTCTATATTGTTTTTCTATACCTTTGTAGGATGA CCTCAAAGATGAAGAAGTTTATTAAAGCTCATGCTCGGTTTTTGAAGGCACAAGAAGAAGTGAA AAGGTGCTTTATGTTTTCATCATGTTTGGCCTTGTAATGCTAGTACACACCAGATTACTCCTTT TTGCATAACTATCAATCAATAAGTGTTCACCAATTGGAGTTATGCAGGTCACAAGCTCGTTTCG AGAGGCTTGGTGATTTGCTTGCTTCAGATATTTTGAAGCGTGGTGCTAATGAAGAGGGGTCCAG TGTCAATGAAGACCTAAACGAAAGGAGTCCTAATACTGCAGCAACTAAAAAGAGATCAATCCCA TACTCAACAAGTGAAGAAGCGAAAGCTGGTATGTAGCTTAGTTTCTCGGGACACTCTGATTGCC AGGTTGTGATTTGTACAATATGGATCTTGGTGTTATGCAGCATCCAACTTTCCCCTTCTGTTAA ACTGATATATGTACCTCTTTATGGAGTAACCAGTCGATCCTAGTATGAAGTAGTTCAAATGTTC CTTTATTTAATATTAAGCATTAAAATTGATGTGCTTAGTTTTCTTACAGTAGCACTGAAGGATG CCTAGTTTCTTTTATAATTGGATTTTAATTCTTTCTGCAAATTGCTGAAGAAGTGTCTTAATTA TGTACTTAAACCTAATTGCTTGTCTCCTCAGTGAAGAAGAGAAGAGAGCGAGACTCTGATACAA TGACTAGGTCAGATAAATATAGGTCAGATGTTACAGATTTTGATAAAACAAGTAAGGGGACTGA GGCAACCAAGTCTTTATATTTGAAGAAGAAATTATGGGAAGATGAAAAAAGTAAGCTAGGAGCC AACATTTTCACAGAAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003667* 						
					
						PMCS
						0.346660964

Conservation Information
Conserved circRNAs	osi_circ_003667*
PMCS	0.346660964

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3301880-3302729(+)
3301788-3302708(-)
3301697-3301913(-)
						
						Potential amino acid sequence
						
							MTSKMKKFIKAHARFLKAQEEVKRSQARFERLGDLLASDILKRGANEEGSSVNEDLNERSPNTA
ATKKRSIPYSTSEEAKAVKKRRERDSDTMTRSDKYRSDVTDFDKTSKGTEATKSLYLKKKLWED
EKSKLGANIFTEKVILDEKIDEVRKISSKVNDLEVQLRREKDECHRMTSKMKKFIKAHARFLKA
QEEVKRSQARFERLGDLLASDILKRGANEEGSSVNEDLNERSPNTAATKKRSIPYSTSEEAKAV
KKRRERDSDTMTRSDKYRSDVTDFDKTSKGTEATKSLYLKKKLWEDEKSKLGANIFTEKVILDE
KIDEVRKISSKVNDLEVQLRREKDECHRMTSKMKKFIKAHARFLKAQEEVKRSQARFERLGDLL
ASDILKRGANEEGSSVNEDLNERSPNTAATKKRSIPYSTSEEAKAVKKRRERDSDTMTRSDKYR
SDVTDFDKTSKGTEATKSLYLKKKLWEDEKSKLGANIFTEKVILDEKIDEVRKISSKVNDLEVQ
LRREKDECHRMTSKMKKFIKAHARFLKAQEEVKRSQARFERLGDLLASDILKRGANEEGSSVNE
DLNERSPNTAATKKRSIPYSTSEEAKAVKKRRERDSDTMTRSDKYRSDVTDFDKTSKGTEATKS
LYLKKKLWEDEKSKLGANIFTEK(+)
MAFIFLPSKLHLKIINFARDLAHFIYLLIQNDLFCENVGS*(-)
MTFSVKMLAPSLLFSSSHNFFFKYKDLVASVPLLVLSKSVTSDLYLSDLVIVSESRSLLFFTAF
ASSLVEYGIDLFLVAAVLGLLSFRSSLTLDPSSLAPRFKISEASKSPSLSKRACDLFTSSCAFK
NRA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3301880-3302729(+) 3301788-3302708(-) 3301697-3301913(-)
Potential amino acid sequence	MTSKMKKFIKAHARFLKAQEEVKRSQARFERLGDLLASDILKRGANEEGSSVNEDLNERSPNTA ATKKRSIPYSTSEEAKAVKKRRERDSDTMTRSDKYRSDVTDFDKTSKGTEATKSLYLKKKLWED EKSKLGANIFTEKVILDEKIDEVRKISSKVNDLEVQLRREKDECHRMTSKMKKFIKAHARFLKA QEEVKRSQARFERLGDLLASDILKRGANEEGSSVNEDLNERSPNTAATKKRSIPYSTSEEAKAV KKRRERDSDTMTRSDKYRSDVTDFDKTSKGTEATKSLYLKKKLWEDEKSKLGANIFTEKVILDE KIDEVRKISSKVNDLEVQLRREKDECHRMTSKMKKFIKAHARFLKAQEEVKRSQARFERLGDLL ASDILKRGANEEGSSVNEDLNERSPNTAATKKRSIPYSTSEEAKAVKKRRERDSDTMTRSDKYR SDVTDFDKTSKGTEATKSLYLKKKLWEDEKSKLGANIFTEKVILDEKIDEVRKISSKVNDLEVQ LRREKDECHRMTSKMKKFIKAHARFLKAQEEVKRSQARFERLGDLLASDILKRGANEEGSSVNE DLNERSPNTAATKKRSIPYSTSEEAKAVKKRRERDSDTMTRSDKYRSDVTDFDKTSKGTEATKS LYLKKKLWEDEKSKLGANIFTEK(+) MAFIFLPSKLHLKIINFARDLAHFIYLLIQNDLFCENVGS(-) MTFSVKMLAPSLLFSSSHNFFFKYKDLVASVPLLVLSKSVTSDLYLSDLVIVSESRSLLFFTAF ASSLVEYGIDLFLVAAVLGLLSFRSSLTLDPSSLAPRFKISEASKSPSLSKRACDLFTSSCAFK NRA(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0161200_circ_g.3

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