Plant Circular RNA Database

Detail information of Os04g0131900_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os04g0131900_circ_g.2
					
						ID in PlantcircBase
						osa_circ_022963
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 1995132-1996835  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os04g0131900						
					
						Parent gene annotation
						
							Similar to UDP-glucose:sterol glucosyltransferase (EC 2.4.1.173)
. (Os04t0131900-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os04g0131900_circ_g.1 						
					
						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
						Os04t0131900-01:4

General Information
CircRNA Name	Os04g0131900_circ_g.2
ID in PlantcircBase	osa_circ_022963
Alias	NA
Organism	Oryza sativa
Position	chr4: 1995132-1996835 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os04g0131900
Parent gene annotation	Similar to UDP-glucose:sterol glucosyltransferase (EC 2.4.1.173) . (Os04t0131900-01)
Parent gene strand	-
Alternative splicing	Os04g0131900_circ_g.1
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	Os04t0131900-01:4

			
						 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  
						
							CTTGATCTTTCCAGATTAGATGGACCAGCAGTTTCATTGGTTATTTCAACATTATTAATCCCAC
CTGGCATAGTGCTTGATCTGGGGAGGCCCCTGTCATcatatgctggagggttagcaatgatagc
atccactttgaaaggaataccagtgtcaggatcaggctccttgcacgcaggtagcaaagagaat
ataatttc

									
								

					

						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: 708
Transcript exons: 1995132-1995302,1995397-1995508,1995650-1995892,1996654-
1996835
CATATGCTGGAGGGTTAGCAATGATAGCATCCACTTTGAAAGGAATACCAGTGTCAGGATCAGG
CTCCTTGCACGCAGGTAGCAAAGAGAATATAATTTCTTTCATCTGTTTCCTCTGAATAGGAATT
TCTGAAGGACCAGAAGGCAAGAATCCTTTATTCTTCACCATGTATTCAGCAAGTATTTTTGGAT
CACCGCCAAGAGGGAAAAACTCCAGACCAGCCGTTAGAACGAACTCCTTAAAGTTTGCATGGGT
TGCCAATCTCACACGGTGTCCATAATCCTGTAAGCGTTTGCCTATAGCAATGAATGGCTGAACA
TCACCTCTTGTGCCCACAATAAGAATAACAATATCCATAGGAGGCCTCACAGATATGTCTGCTC
CATCCAATGGTTCCTCAACAGTAACATCACTATAGCCATCATATGCTACACCATCAGTTGTACT
TGTTTCCAGAGAACTTGGCACATCAACCACCACAGTTCCATCATCTTTCACTGTAGCTATCCGA
TTTAGCATTTCGAGCTTCTTTTTTAGGGAAATTTTATCATCAAATAACTGTTTAGTAGGATCAT
CAGCTGGATTGTTTTGTCGACGCCTCTCTGTTCTTGATCTTTCCAGATTAGATGGACCAGCAGT
TTCATTGGTTATTTCAACATTATTAATCCCACCTGGCATAGTGCTTGATCTGGGGAGGCCCCTG
TCAT
						
					

						Genomic sequence
						
							CATATGCTGGAGGGTTAGCAATGATAGCATCCACTTTGAAAGGAATACCAGTGTCAGGATCAGG
CTCCTTGCACGCAGGTAGCAAAGAGAATATAATTTCTTTCATCTGTTTCCTCTGAATAGGAATT
TCTGAAGGACCAGAAGGCAAGAATCCTTTATTCTTCACCATGTCTGCTCAAATATGAATATACC
AAATATATTAATCATCGTGACGTAGAAACTGAAAAAAAATCAACTATGTGAATACAAGGATTTA
TTTTCATACATTCAGCAAGTATTTTTGGATCACCGCCAAGAGGGAAAAACTCCAGACCAGCCGT
TAGAACGAACTCCTTAAAGTTTGCATGGGTTGCCAATCTCACACGGTGTCCATAATCCTAAAAA
AAACAGGTAATGGATAATCCTAGTCATACAGAAACCATGTATTTAGAAACATTAAGCTTGAGAA
GCAAAATAGTTCACCTGATGAGAGATAAAATAATGTGAAATTAACAAACAATGGTAGCTTTTGA
TCTAACCTGTAAGCGTTTGCCTATAGCAATGAATGGCTGAACATCACCTCTTGTGCCCACAATA
AGAATAACAATATCCATAGGAGGCCTCACAGATATGTCTGCTCCATCCAATGGTTCCTCAACAG
TAACATCACTATAGCCATCATATGCTACACCATCAGTTGTACTTGTTTCCAGAGAACTTGGCAC
ATCAACCACCACAGTTCCATCATCTTTCACTGTAGCTATCCGATTTAGCATTTCGAGCTACAAT
AAAATGTAAAATATCACAAAAAACTGTTGAACAACATCAAGCATCCAGATACAAAAGAGTACAT
CTGGCACTGAGTTCCTGACTATTCGAAGCTACCATGCAGTGTATCACAATACACAATTGTTGTG
AAAAAAAGGCTGAATTGGCTGCATAATAATCTGAATAATCAACTATTTTTCAATCAGTTGGAAT
GTTTCTCAAGTTTAATCGTAAAATAGACTTTACTCCCTAATTACAGTGAACTAATCTCTGATCT
CATGTAGTAGTGTTTGCTTTGGAGATGAAGCAGTGAAGCACAAAATACAACATGTCAAGCTTAG
CAAGTGCTGTTTTTAAGTGGTTATAACATGTCATAATTTTCATGTTTTAATTGACTTTAGTTAT
AAATAAATAAATTAGTAGAGCATAACTATCAAAATTCTGATTAATCAGCAGTATCACACATAAT
CGTTTAACAGATATAGCTATCTTAGCCCTCACCTCTGCAACAGGCTCCTAGCCCTTTTTCACAA
TGCTGCATTATACTAAAATGTATCAAATTCAGATATAGCTATCTTGTCCGCGCTCAGAAGATAA
GGCTAACAGTTCACGTGACTGTTCAAAATGGCTTCTCTTATATGAACATATACATGCTCCAAAT
TTCAAAGGTCAAATGCATGAAGAAAAGGAAGCTACAAGGGTAAATAGATGAAACAGGGTGCATT
GCAAATGAAGGAAAGGCAAGACATAGGCAACAGGACTATGTTATCCGCACCTTCTTTTTTAGGG
AAATTTTATCATCAAATAACTGTTTAGTAGGATCATCAGCTGGATTGTTTTGTCGACGCCTCTC
TGTTCTTGATCTTTCCAGATTAGATGGACCAGCAGTTTCATTGGTTATTTCAACATTATTAATC
CCACCTGGCATAGTGCTTGATCTGGGGAGGCCCCTGTCAT
						
					

			
		

Sequences
Splice junction sequence	CTTGATCTTTCCAGATTAGATGGACCAGCAGTTTCATTGGTTATTTCAACATTATTAATCCCAC CTGGCATAGTGCTTGATCTGGGGAGGCCCCTGTCATcatatgctggagggttagcaatgatagc atccactttgaaaggaataccagtgtcaggatcaggctccttgcacgcaggtagcaaagagaat ataatttc
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: 708 Transcript exons: 1995132-1995302,1995397-1995508,1995650-1995892,1996654- 1996835 CATATGCTGGAGGGTTAGCAATGATAGCATCCACTTTGAAAGGAATACCAGTGTCAGGATCAGG CTCCTTGCACGCAGGTAGCAAAGAGAATATAATTTCTTTCATCTGTTTCCTCTGAATAGGAATT TCTGAAGGACCAGAAGGCAAGAATCCTTTATTCTTCACCATGTATTCAGCAAGTATTTTTGGAT CACCGCCAAGAGGGAAAAACTCCAGACCAGCCGTTAGAACGAACTCCTTAAAGTTTGCATGGGT TGCCAATCTCACACGGTGTCCATAATCCTGTAAGCGTTTGCCTATAGCAATGAATGGCTGAACA TCACCTCTTGTGCCCACAATAAGAATAACAATATCCATAGGAGGCCTCACAGATATGTCTGCTC CATCCAATGGTTCCTCAACAGTAACATCACTATAGCCATCATATGCTACACCATCAGTTGTACT TGTTTCCAGAGAACTTGGCACATCAACCACCACAGTTCCATCATCTTTCACTGTAGCTATCCGA TTTAGCATTTCGAGCTTCTTTTTTAGGGAAATTTTATCATCAAATAACTGTTTAGTAGGATCAT CAGCTGGATTGTTTTGTCGACGCCTCTCTGTTCTTGATCTTTCCAGATTAGATGGACCAGCAGT TTCATTGGTTATTTCAACATTATTAATCCCACCTGGCATAGTGCTTGATCTGGGGAGGCCCCTG TCAT
Genomic sequence	CATATGCTGGAGGGTTAGCAATGATAGCATCCACTTTGAAAGGAATACCAGTGTCAGGATCAGG CTCCTTGCACGCAGGTAGCAAAGAGAATATAATTTCTTTCATCTGTTTCCTCTGAATAGGAATT TCTGAAGGACCAGAAGGCAAGAATCCTTTATTCTTCACCATGTCTGCTCAAATATGAATATACC AAATATATTAATCATCGTGACGTAGAAACTGAAAAAAAATCAACTATGTGAATACAAGGATTTA TTTTCATACATTCAGCAAGTATTTTTGGATCACCGCCAAGAGGGAAAAACTCCAGACCAGCCGT TAGAACGAACTCCTTAAAGTTTGCATGGGTTGCCAATCTCACACGGTGTCCATAATCCTAAAAA AAACAGGTAATGGATAATCCTAGTCATACAGAAACCATGTATTTAGAAACATTAAGCTTGAGAA GCAAAATAGTTCACCTGATGAGAGATAAAATAATGTGAAATTAACAAACAATGGTAGCTTTTGA TCTAACCTGTAAGCGTTTGCCTATAGCAATGAATGGCTGAACATCACCTCTTGTGCCCACAATA AGAATAACAATATCCATAGGAGGCCTCACAGATATGTCTGCTCCATCCAATGGTTCCTCAACAG TAACATCACTATAGCCATCATATGCTACACCATCAGTTGTACTTGTTTCCAGAGAACTTGGCAC ATCAACCACCACAGTTCCATCATCTTTCACTGTAGCTATCCGATTTAGCATTTCGAGCTACAAT AAAATGTAAAATATCACAAAAAACTGTTGAACAACATCAAGCATCCAGATACAAAAGAGTACAT CTGGCACTGAGTTCCTGACTATTCGAAGCTACCATGCAGTGTATCACAATACACAATTGTTGTG AAAAAAAGGCTGAATTGGCTGCATAATAATCTGAATAATCAACTATTTTTCAATCAGTTGGAAT GTTTCTCAAGTTTAATCGTAAAATAGACTTTACTCCCTAATTACAGTGAACTAATCTCTGATCT CATGTAGTAGTGTTTGCTTTGGAGATGAAGCAGTGAAGCACAAAATACAACATGTCAAGCTTAG CAAGTGCTGTTTTTAAGTGGTTATAACATGTCATAATTTTCATGTTTTAATTGACTTTAGTTAT AAATAAATAAATTAGTAGAGCATAACTATCAAAATTCTGATTAATCAGCAGTATCACACATAAT CGTTTAACAGATATAGCTATCTTAGCCCTCACCTCTGCAACAGGCTCCTAGCCCTTTTTCACAA TGCTGCATTATACTAAAATGTATCAAATTCAGATATAGCTATCTTGTCCGCGCTCAGAAGATAA GGCTAACAGTTCACGTGACTGTTCAAAATGGCTTCTCTTATATGAACATATACATGCTCCAAAT TTCAAAGGTCAAATGCATGAAGAAAAGGAAGCTACAAGGGTAAATAGATGAAACAGGGTGCATT GCAAATGAAGGAAAGGCAAGACATAGGCAACAGGACTATGTTATCCGCACCTTCTTTTTTAGGG AAATTTTATCATCAAATAACTGTTTAGTAGGATCATCAGCTGGATTGTTTTGTCGACGCCTCTC TGTTCTTGATCTTTCCAGATTAGATGGACCAGCAGTTTCATTGGTTATTTCAACATTATTAATC CCACCTGGCATAGTGCTTGATCTGGGGAGGCCCCTGTCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.347894376

Conservation Information
Conserved circRNAs	NA
PMCS	0.347894376

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1995163-1996778(-)
1996808-1995134(-)
						
						Potential amino acid sequence
						
							MLSLLTLQHMMTGASPDQALCQVGLIMLK*(-)
MPGGINNVEITNETAGPSNLERSRTERRRQNNPADDPTKQLFDDKISLKKKLEMLNRIATVKDD
GTVVVDVPSSLETSTTDGVAYDGYSDVTVEEPLDGADISVRPPMDIVILIVGTRGDVQPFIAIG
KRLQDYGHRVRLATHANFKEFVLTAGLEFFPLGGDPKILAEYMVKNKGFLPSGPSEIPIQRKQM
KEIIFSLLPACKEPDPDTGIPFKVDAIIANPPAYDDRGLPRSSTMPGGINNVEITNETAGPSNL
ERSRTERRRQNNPADDPTKQLFDDKISLKKKLEMLNRIATVKDDGTVVVDVPSSLETSTTDGVA
YDGYSDVTVEEPLDGADISVRPPMDIVILIVGTRGDVQPFIAIGKRLQDYGHRVRLATHANFKE
FVLTAGLEFFPLGGDPKILAEYMVKNKGFLPSGPSEIPIQRKQMKEIIFSLLPACKEPDPDTGI
PFKVDAIIANPPAYDDRGLPRSSTMPGGINNVEITNETAGPSNLERSRTERRRQNNPADDPTKQ
LFDDKISLKKKLEMLNRIATVKDDGTVVVDVPSSLETSTTDGVAYDGYSDVTVEEPLDGADISV
RPPMDIVILIVGTRGDVQPFIAIGKRLQDYGHRVRLATHANFKEFVLTAGLEFFPLGGDPKILA
EYMVKNKGFLPSGPSEIPIQRKQMKEIIFSLLPACKEPDPDTGIPFKVDAIIANPPAYDDRGLP
RSSTMPGGINNVEITNETAGPSNLERSRTERRRQNNPADDPTKQLFDDKISLKKKLEMLNRIAT
VKDDGTVVVDVPSSLETSTTDGVAYDGYSDVTVEEPLDGADISVRPPMDIVILIVGTRGDVQPF
IAIGKRLQDYGHRVRLATHANFKEFVLTAGLEFFPLGGDPKILAEYMVKNKGFLPSGPSEIPIQ
RKQMKEIIFSLLPACKEPDPDTGIPFKVDAIIANPPAY(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1995163-1996778(-) 1996808-1995134(-)
Potential amino acid sequence	MLSLLTLQHMMTGASPDQALCQVGLIMLK*(-) MPGGINNVEITNETAGPSNLERSRTERRRQNNPADDPTKQLFDDKISLKKKLEMLNRIATVKDD GTVVVDVPSSLETSTTDGVAYDGYSDVTVEEPLDGADISVRPPMDIVILIVGTRGDVQPFIAIG KRLQDYGHRVRLATHANFKEFVLTAGLEFFPLGGDPKILAEYMVKNKGFLPSGPSEIPIQRKQM KEIIFSLLPACKEPDPDTGIPFKVDAIIANPPAYDDRGLPRSSTMPGGINNVEITNETAGPSNL ERSRTERRRQNNPADDPTKQLFDDKISLKKKLEMLNRIATVKDDGTVVVDVPSSLETSTTDGVA YDGYSDVTVEEPLDGADISVRPPMDIVILIVGTRGDVQPFIAIGKRLQDYGHRVRLATHANFKE FVLTAGLEFFPLGGDPKILAEYMVKNKGFLPSGPSEIPIQRKQMKEIIFSLLPACKEPDPDTGI PFKVDAIIANPPAYDDRGLPRSSTMPGGINNVEITNETAGPSNLERSRTERRRQNNPADDPTKQ LFDDKISLKKKLEMLNRIATVKDDGTVVVDVPSSLETSTTDGVAYDGYSDVTVEEPLDGADISV RPPMDIVILIVGTRGDVQPFIAIGKRLQDYGHRVRLATHANFKEFVLTAGLEFFPLGGDPKILA EYMVKNKGFLPSGPSEIPIQRKQMKEIIFSLLPACKEPDPDTGIPFKVDAIIANPPAYDDRGLP RSSTMPGGINNVEITNETAGPSNLERSRTERRRQNNPADDPTKQLFDDKISLKKKLEMLNRIAT VKDDGTVVVDVPSSLETSTTDGVAYDGYSDVTVEEPLDGADISVRPPMDIVILIVGTRGDVQPF IAIGKRLQDYGHRVRLATHANFKEFVLTAGLEFFPLGGDPKILAEYMVKNKGFLPSGPSEIPIQ RKQMKEIIFSLLPACKEPDPDTGIPFKVDAIIANPPAY(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os04g0131900_circ_g.2

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