Plant Circular RNA Database

Detail information of Os11g0294600_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os11g0294600_circ_g.4
					
						ID in PlantcircBase
						osa_circ_009112
					
						Alias
						Os_ciR3631
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 10787816-10789989  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os11g0294600						
					
						Parent gene annotation
						
							Zinc finger, RING/FYVE/PHD-type domain containing protein. (Os11
t0294600-01);Zinc finger, RING/FYVE/PHD-type domain containing p
rotein. (Os11t0294600-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os11g0294600_circ_g.2 Os11g0294600_circ_g.3 						
					
						Support reads
						2/5
					
						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  
						
							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
						Os11t0294600-01:4
Os11t0294600-02:4

General Information
CircRNA Name	Os11g0294600_circ_g.4
ID in PlantcircBase	osa_circ_009112
Alias	Os_ciR3631
Organism	Oryza sativa
Position	chr11: 10787816-10789989 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, find_circ
Parent gene	Os11g0294600
Parent gene annotation	Zinc finger, RING/FYVE/PHD-type domain containing protein. (Os11 t0294600-01);Zinc finger, RING/FYVE/PHD-type domain containing p rotein. (Os11t0294600-02)
Parent gene strand	-
Alternative splicing	Os11g0294600_circ_g.2 Os11g0294600_circ_g.3
Support reads	2/5
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	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	Os11t0294600-01:4 Os11t0294600-02:4

			
						 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  
						
							GAACAGCAACAGCAGCCCCCCATGCTATCCTGAATGAAAAAGCTTACTCCAGGCTATGAAATAG
CTGCCGTTTAAAACTAAAATTCCGTCTCTCATAGCCctggtcacaaactgggcaggtatcactt
cgctccatccattcaagtatgcaacaaagatggaaatgatgctcacatttagttaaagagcgag
gattttct

									
								

					

						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: 569
Transcript exons: 10787816-10787925,10788540-10788680,10788774-10788948,10
789847-10789989
CTGGTCACAAACTGGGCAGGTATCACTTCGCTCCATCCATTCAAGTATGCAACAAAGATGGAAA
TGATGCTCACATTTAGTTAAAGAGCGAGGATTTTCTGCATCATATTCTTCAAGACAGATTGGGC
AAACATCCTCCTCATCAGGCTTATCTTCAGCGACACATTTTTCACATGATTTGAACTCATCCAC
CTCTAAAGATTCCTCCTGTTGGTCATCGGTTTTGCTCTTCAGGTCTGACTTCTCCAAATCAGGG
TTTTCTGGGACTGGCAAACTAACATCATAAGGCAATGGTGCAGGTGGTGCTCGGTAAGTATCAG
GAGTGGATGTATCCAGATTTGTGTCAACAGCAACTATAGCAGAAGCTGGAGATGATCCATCATA
GGCTGAAGACAATGGTTCATGCTCCTCTTGATTTTGCTGACGATAGATATGAACTGGTGCTCTA
TCTGTCTCAGATCCTCTTGATGAACAGCAACAGCAGCCCCCCATGCTATCCTGAATGAAAAAGC
TTACTCCAGGCTATGAAATAGCTGCCGTTTAAAACTAAAATTCCGTCTCTCATAGCC
						
					

						Genomic sequence
						
							CTGGTCACAAACTGGGCAGGTATCACTTCGCTCCATCCATTCAAGTATGCAACAAAGATGGAAA
TGATGCTCACATTTAGTTAAAGAGCGAGGATTTTCTGCATCATATTCTGGTGAAAGGACAAACA
GAAGTCATGACTGGAGTTTTGTGGTCCGTAAGAAAATAAGCAAATAAGATTTAGAGTATCAATA
AATGTTAATGGAGTGCAAGTACAATGCACATTGTTACCCAATATTGCACCTAGGAATCAACAAA
AGGGTATGTACCAATTGAGAAAAAAGAATATACACAATTGGAACCCTTCATCTCTTTGAGAAGC
AACTATCTAAGATTGGTTGCATATTAAGCACAACACTTCTTAAGGCTTATTTCATATGCAGCAT
GGCCATATACATCCATTAAGGATGTGCATACATATTACATCTATTGAAGGTAAATAAAAGGAGC
ACAAGCAATCCTTTAATTGGTAAATTATAGGTAAGATATCCTAAACCATTATTTCCGAAATTAA
GAATAGTTTCTTTCAGCTAAAAACAAACGGATCAAACATACAGTGTACTTTTACCAGTTTTACT
GTGACAGTAGTAAAATAGCACTACAGCAGGCAGAACACGTGTATCCAATTCTACATTCAACCAG
GTAAAGTTTGTACTCAAACAAATATCCAGTTATTATTATGGCAATCTAAGGAATCGGGTTTTCA
ATGGTCAAAAGAAATACAACCTTCAAGACAGATTGGGCAAACATCCTCCTCATCAGGCTTATCT
TCAGCGACACATTTTTCACATGATTTGAACTCATCCACCTCTAAAGATTCCTCCTGTTGGTCAT
CGGTTTTGCTCTTCAGGTCTGACTTCTCCAAATCTGAAAATGAATTTGAAACTATAAGCTTCCA
CCACTACCATTTGAGGTTAATTCCATTCCTCATGTTCACAGGCTCAAAGGTAGTTAGTTTACCA
GGGTTTTCTGGGACTGGCAAACTAACATCATAAGGCAATGGTGCAGGTGGTGCTCGGTAAGTAT
CAGGAGTGGATGTATCCAGATTTGTGTCAACAGCAACTATAGCAGAAGCTGGAGATGATCCATC
ATAGGCTGAAGACAATGGTTCATGCTCCTCTTGATTTTGCTGACGCTGAACAAAGAAAAGCCAA
ATAACATAAGCCAAATAAAGCGTTGGACAATGCAAACAGTACAAATACCAAGTTATATTATCAA
TTAACTGGCTACACTTGTTTAAAGCTTAAACAAGCTGCACACTTTCTAGAGTTTTCAACTTGAT
ATTGCTGAATCTCAAGTGAATACTCAAATTGGAGAGTCACACTAAAAGAGAAATAAATTCTCCT
GTTGCACTGAAACTACAAAGTTATCTGTAAACTCCTAGCACCACGATGTTATTAATATGTGCAA
GTAACAGAAGCACAATCTGGGCCACTCTCATATGACAGATGATAGATAACTAAATCACGTATTA
ATAGGCAGAAGCATAGAGAAACCAAAATATAAAATTAGAAATATGTCAAAATCTTGAAATGGAT
CGATTTGGTGTTAACGAAATGCACCAACACTAAACTGCAGTTAATGACAAGAACAAGAAAAAAA
CTACCACTTTCAGGTATACCTTTCTACTGGAAAAGTAGAACAGATGTTAGATATACCTAAGATT
AATTTCAGGTTGCATGGTACTGCATAATGTCGCACAAGTTTTTCTCTTTTTTTTTTAGATAAGG
AAGATGGTTACATCCCCAGTCTCTGCATCTAGGATGCACACAACCATCAAGTTTGAGTTTTAAG
AAACAGTCTCAATAAGGGATGGAAACCCCCATGAGAATAAGCAAAGCATGCAGTAAATAGAAGC
ACATAAAGCATGATGCACTAAGTAAAAGCATATTAGGCATGAATCCTATTAGTAGCCTGCCATC
CAAAGTGGGTAAAAAAGGTCCTTGACGATCAACTCCAGGAGTGTGGCTCTTGGTAATAATAGAA
CATTTGAATTAAGATAATGTATCTAAGATAATTCAGGATCTACATACATAGATATGAACTGGTG
CTCTATCTGTCTCAGATCCTCTTGATGAACAGCAACAGCAGCCCCCCATGCTATCCTGAATGAA
AAAGCTTACTCCAGGCTATGAAATAGCTGCCGTTTAAAACTAAAATTCCGTCTCTCATAGCC
						
					

			
		

Sequences
Splice junction sequence	GAACAGCAACAGCAGCCCCCCATGCTATCCTGAATGAAAAAGCTTACTCCAGGCTATGAAATAG CTGCCGTTTAAAACTAAAATTCCGTCTCTCATAGCCctggtcacaaactgggcaggtatcactt cgctccatccattcaagtatgcaacaaagatggaaatgatgctcacatttagttaaagagcgag gattttct
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: 569 Transcript exons: 10787816-10787925,10788540-10788680,10788774-10788948,10 789847-10789989 CTGGTCACAAACTGGGCAGGTATCACTTCGCTCCATCCATTCAAGTATGCAACAAAGATGGAAA TGATGCTCACATTTAGTTAAAGAGCGAGGATTTTCTGCATCATATTCTTCAAGACAGATTGGGC AAACATCCTCCTCATCAGGCTTATCTTCAGCGACACATTTTTCACATGATTTGAACTCATCCAC CTCTAAAGATTCCTCCTGTTGGTCATCGGTTTTGCTCTTCAGGTCTGACTTCTCCAAATCAGGG TTTTCTGGGACTGGCAAACTAACATCATAAGGCAATGGTGCAGGTGGTGCTCGGTAAGTATCAG GAGTGGATGTATCCAGATTTGTGTCAACAGCAACTATAGCAGAAGCTGGAGATGATCCATCATA GGCTGAAGACAATGGTTCATGCTCCTCTTGATTTTGCTGACGATAGATATGAACTGGTGCTCTA TCTGTCTCAGATCCTCTTGATGAACAGCAACAGCAGCCCCCCATGCTATCCTGAATGAAAAAGC TTACTCCAGGCTATGAAATAGCTGCCGTTTAAAACTAAAATTCCGTCTCTCATAGCC
Genomic sequence	CTGGTCACAAACTGGGCAGGTATCACTTCGCTCCATCCATTCAAGTATGCAACAAAGATGGAAA TGATGCTCACATTTAGTTAAAGAGCGAGGATTTTCTGCATCATATTCTGGTGAAAGGACAAACA GAAGTCATGACTGGAGTTTTGTGGTCCGTAAGAAAATAAGCAAATAAGATTTAGAGTATCAATA AATGTTAATGGAGTGCAAGTACAATGCACATTGTTACCCAATATTGCACCTAGGAATCAACAAA AGGGTATGTACCAATTGAGAAAAAAGAATATACACAATTGGAACCCTTCATCTCTTTGAGAAGC AACTATCTAAGATTGGTTGCATATTAAGCACAACACTTCTTAAGGCTTATTTCATATGCAGCAT GGCCATATACATCCATTAAGGATGTGCATACATATTACATCTATTGAAGGTAAATAAAAGGAGC ACAAGCAATCCTTTAATTGGTAAATTATAGGTAAGATATCCTAAACCATTATTTCCGAAATTAA GAATAGTTTCTTTCAGCTAAAAACAAACGGATCAAACATACAGTGTACTTTTACCAGTTTTACT GTGACAGTAGTAAAATAGCACTACAGCAGGCAGAACACGTGTATCCAATTCTACATTCAACCAG GTAAAGTTTGTACTCAAACAAATATCCAGTTATTATTATGGCAATCTAAGGAATCGGGTTTTCA ATGGTCAAAAGAAATACAACCTTCAAGACAGATTGGGCAAACATCCTCCTCATCAGGCTTATCT TCAGCGACACATTTTTCACATGATTTGAACTCATCCACCTCTAAAGATTCCTCCTGTTGGTCAT CGGTTTTGCTCTTCAGGTCTGACTTCTCCAAATCTGAAAATGAATTTGAAACTATAAGCTTCCA CCACTACCATTTGAGGTTAATTCCATTCCTCATGTTCACAGGCTCAAAGGTAGTTAGTTTACCA GGGTTTTCTGGGACTGGCAAACTAACATCATAAGGCAATGGTGCAGGTGGTGCTCGGTAAGTAT CAGGAGTGGATGTATCCAGATTTGTGTCAACAGCAACTATAGCAGAAGCTGGAGATGATCCATC ATAGGCTGAAGACAATGGTTCATGCTCCTCTTGATTTTGCTGACGCTGAACAAAGAAAAGCCAA ATAACATAAGCCAAATAAAGCGTTGGACAATGCAAACAGTACAAATACCAAGTTATATTATCAA TTAACTGGCTACACTTGTTTAAAGCTTAAACAAGCTGCACACTTTCTAGAGTTTTCAACTTGAT ATTGCTGAATCTCAAGTGAATACTCAAATTGGAGAGTCACACTAAAAGAGAAATAAATTCTCCT GTTGCACTGAAACTACAAAGTTATCTGTAAACTCCTAGCACCACGATGTTATTAATATGTGCAA GTAACAGAAGCACAATCTGGGCCACTCTCATATGACAGATGATAGATAACTAAATCACGTATTA ATAGGCAGAAGCATAGAGAAACCAAAATATAAAATTAGAAATATGTCAAAATCTTGAAATGGAT CGATTTGGTGTTAACGAAATGCACCAACACTAAACTGCAGTTAATGACAAGAACAAGAAAAAAA CTACCACTTTCAGGTATACCTTTCTACTGGAAAAGTAGAACAGATGTTAGATATACCTAAGATT AATTTCAGGTTGCATGGTACTGCATAATGTCGCACAAGTTTTTCTCTTTTTTTTTTAGATAAGG AAGATGGTTACATCCCCAGTCTCTGCATCTAGGATGCACACAACCATCAAGTTTGAGTTTTAAG AAACAGTCTCAATAAGGGATGGAAACCCCCATGAGAATAAGCAAAGCATGCAGTAAATAGAAGC ACATAAAGCATGATGCACTAAGTAAAAGCATATTAGGCATGAATCCTATTAGTAGCCTGCCATC CAAAGTGGGTAAAAAAGGTCCTTGACGATCAACTCCAGGAGTGTGGCTCTTGGTAATAATAGAA CATTTGAATTAAGATAATGTATCTAAGATAATTCAGGATCTACATACATAGATATGAACTGGTG CTCTATCTGTCTCAGATCCTCTTGATGAACAGCAACAGCAGCCCCCCATGCTATCCTGAATGAA AAAGCTTACTCCAGGCTATGAAATAGCTGCCGTTTAAAACTAAAATTCCGTCTCTCATAGCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_009547 						
					
						PMCS
						0.326561465

Conservation Information
Conserved circRNAs	osi_circ_009547
PMCS	0.326561465

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10789914-10789935(-)
						
						Potential amino acid sequence
						
							MGGCCCCSSRGSETDRAPVHIYRQQNQEEHEPLSSAYDGSSPASAIVAVDTNLDTSTPDTYRAP
PAPLPYDVSLPVPENPDLEKSDLKSKTDDQQEESLEVDEFKSCEKCVAEDKPDEEDVCPICLEE
YDAENPRSLTKCEHHFHLCCILEWMERSDTCPVCDQGYERRNFSFKRQLFHSLE*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10789914-10789935(-)
Potential amino acid sequence	MGGCCCCSSRGSETDRAPVHIYRQQNQEEHEPLSSAYDGSSPASAIVAVDTNLDTSTPDTYRAP PAPLPYDVSLPVPENPDLEKSDLKSKTDDQQEESLEVDEFKSCEKCVAEDKPDEEDVCPICLEE YDAENPRSLTKCEHHFHLCCILEWMERSDTCPVCDQGYERRNFSFKRQLFHSLE*(-)
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 Os11g0294600_circ_g.4

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