Plant Circular RNA Database

Detail information of Os01g0844800_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0844800_circ_g.1
					
						ID in PlantcircBase
						osa_circ_004806
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 36283090-36283964  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0844800						
					
						Parent gene annotation
						
							Similar to Pumilio RBD (Fragment). (Os01t0844800-01);Hypothetica
l conserved gene. (Os01t0844800-02);Similar to predicted protein
. (Os01t0844800-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0844800_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
						Os01t0844800-02:3
Os01t0844800-01:4
Os01t0844800-03:4

General Information
CircRNA Name	Os01g0844800_circ_g.1
ID in PlantcircBase	osa_circ_004806
Alias	NA
Organism	Oryza sativa
Position	chr1: 36283090-36283964 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0844800
Parent gene annotation	Similar to Pumilio RBD (Fragment). (Os01t0844800-01);Hypothetica l conserved gene. (Os01t0844800-02);Similar to predicted protein . (Os01t0844800-03)
Parent gene strand	+
Alternative splicing	Os01g0844800_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	Os01t0844800-02:3 Os01t0844800-01:4 Os01t0844800-03:4

			
						 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  
						
							GCATTGCACTGATCCAAAAACACAGGAAATAGTCATGGATGAAATATTGCAATCTGTGTGCATG
TTGGCACAAGATCAATATGGAAATTATGTTGTTCAGcgctgaccaatacggaagccgtttcata
cagcaaaaacttgaaaccgcaacagttgaggaaaaagacatggtttttaaggagatcatgcctc
aggctctc

						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: 574
Transcript exons: 36283090-36283231,36283363-36283470,36283555-36283767,36
283854-36283964
CGCTGACCAATACGGAAGCCGTTTCATACAGCAAAAACTTGAAACCGCAACAGTTGAGGAAAAA
GACATGGTTTTTAAGGAGATCATGCCTCAGGCTCTCTCGTTGATGACCGATGTATTTGGGAACT
ACGTGGTGCAGAAGTTCTTTGAGCACGGGAGTGCAGCACAGCGTAGGGAGCTGGCTGATCAACT
ATTTGGACATGTGTTAGCTCTCAGCCTTCAGATGTATGGATGCCGAGTTATCCAAAAGGCAATA
GAAGTGGTTGACCTGGACCAGAAGACAAAAATGGTTACTGAGCTTGATGGCCATATCATGAGAT
GCGTGCGTGATCAAAATGGAAACCATGTTATCCAAAAATGTATTGAATGTGTACCGGAAGATTC
GATTCAGTTTATCATCTCAACATTCTATGGTCAAGTTGTTCCATTATCCACTCATCCCTATGGC
TGCAGAGTCATACAGAGAGTACTGGAGCATTGCACTGATCCAAAAACACAGGAAATAGTCATGG
ATGAAATATTGCAATCTGTGTGCATGTTGGCACAAGATCAATATGGAAATTATGTTGTTCAG
						
						Genomic sequence
						
							CGCTGACCAATACGGAAGCCGTTTCATACAGCAAAAACTTGAAACCGCAACAGTTGAGGAAAAA
GACATGGTTTTTAAGGAGATCATGCCTCAGGCTCTCTCGTTGATGACCGATGTATTTGGGAACT
ACGTGGTGCAGAAGGTTTTTTTTTTTTCTGAAACTTAGTGGTGCTTCTCATTAGGGAGCTGGGC
CGACCATTTTTTTTCTCATAGTACTTTGTCTTTTAAGGTTTGTTTAGCAGCGTCATGACTTAAC
CTGTGTTTTCTACATAGTTCTTTGAGCACGGGAGTGCAGCACAGCGTAGGGAGCTGGCTGATCA
ACTATTTGGACATGTGTTAGCTCTCAGCCTTCAGATGTATGGATGCCGAGTTATCCAAAAGGTA
CTGCATGGCTTGGCTCTGTTTCTTTTTTGTGAAAAAAAATATTCTTATCTTTCAATGATATTTA
TATTCACATTACTGAAGGCAATAGAAGTGGTTGACCTGGACCAGAAGACAAAAATGGTTACTGA
GCTTGATGGCCATATCATGAGATGCGTGCGTGATCAAAATGGAAACCATGTTATCCAAAAATGT
ATTGAATGTGTACCGGAAGATTCGATTCAGTTTATCATCTCAACATTCTATGGTCAAGTTGTTC
CATTATCCACTCATCCCTATGGCTGCAGAGTCATACAGGTTCACCATTGAGTTCTTACATTTAT
ATGTGGTTCTTCTGTCTCTAATATTATCTTGTGTAAACTCACAATTTCTTTTGTATTCAGAGAG
TACTGGAGCATTGCACTGATCCAAAAACACAGGAAATAGTCATGGATGAAATATTGCAATCTGT
GTGCATGTTGGCACAAGATCAATATGGAAATTATGTTGTTCAG

Sequences
Splice junction sequence	GCATTGCACTGATCCAAAAACACAGGAAATAGTCATGGATGAAATATTGCAATCTGTGTGCATG TTGGCACAAGATCAATATGGAAATTATGTTGTTCAGcgctgaccaatacggaagccgtttcata cagcaaaaacttgaaaccgcaacagttgaggaaaaagacatggtttttaaggagatcatgcctc aggctctc
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: 574 Transcript exons: 36283090-36283231,36283363-36283470,36283555-36283767,36 283854-36283964 CGCTGACCAATACGGAAGCCGTTTCATACAGCAAAAACTTGAAACCGCAACAGTTGAGGAAAAA GACATGGTTTTTAAGGAGATCATGCCTCAGGCTCTCTCGTTGATGACCGATGTATTTGGGAACT ACGTGGTGCAGAAGTTCTTTGAGCACGGGAGTGCAGCACAGCGTAGGGAGCTGGCTGATCAACT ATTTGGACATGTGTTAGCTCTCAGCCTTCAGATGTATGGATGCCGAGTTATCCAAAAGGCAATA GAAGTGGTTGACCTGGACCAGAAGACAAAAATGGTTACTGAGCTTGATGGCCATATCATGAGAT GCGTGCGTGATCAAAATGGAAACCATGTTATCCAAAAATGTATTGAATGTGTACCGGAAGATTC GATTCAGTTTATCATCTCAACATTCTATGGTCAAGTTGTTCCATTATCCACTCATCCCTATGGC TGCAGAGTCATACAGAGAGTACTGGAGCATTGCACTGATCCAAAAACACAGGAAATAGTCATGG ATGAAATATTGCAATCTGTGTGCATGTTGGCACAAGATCAATATGGAAATTATGTTGTTCAG
Genomic sequence	CGCTGACCAATACGGAAGCCGTTTCATACAGCAAAAACTTGAAACCGCAACAGTTGAGGAAAAA GACATGGTTTTTAAGGAGATCATGCCTCAGGCTCTCTCGTTGATGACCGATGTATTTGGGAACT ACGTGGTGCAGAAGGTTTTTTTTTTTTCTGAAACTTAGTGGTGCTTCTCATTAGGGAGCTGGGC CGACCATTTTTTTTCTCATAGTACTTTGTCTTTTAAGGTTTGTTTAGCAGCGTCATGACTTAAC CTGTGTTTTCTACATAGTTCTTTGAGCACGGGAGTGCAGCACAGCGTAGGGAGCTGGCTGATCA ACTATTTGGACATGTGTTAGCTCTCAGCCTTCAGATGTATGGATGCCGAGTTATCCAAAAGGTA CTGCATGGCTTGGCTCTGTTTCTTTTTTGTGAAAAAAAATATTCTTATCTTTCAATGATATTTA TATTCACATTACTGAAGGCAATAGAAGTGGTTGACCTGGACCAGAAGACAAAAATGGTTACTGA GCTTGATGGCCATATCATGAGATGCGTGCGTGATCAAAATGGAAACCATGTTATCCAAAAATGT ATTGAATGTGTACCGGAAGATTCGATTCAGTTTATCATCTCAACATTCTATGGTCAAGTTGTTC CATTATCCACTCATCCCTATGGCTGCAGAGTCATACAGGTTCACCATTGAGTTCTTACATTTAT ATGTGGTTCTTCTGTCTCTAATATTATCTTGTGTAAACTCACAATTTCTTTTGTATTCAGAGAG TACTGGAGCATTGCACTGATCCAAAAACACAGGAAATAGTCATGGATGAAATATTGCAATCTGT GTGCATGTTGGCACAAGATCAATATGGAAATTATGTTGTTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.3503988

Conservation Information
Conserved circRNAs	NA
PMCS	0.3503988

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							36283158-36283092(+)
36283904-36283092(+)
36283178-36283734(-)
						
						Potential amino acid sequence
						
							MVFKEIMPQALSLMTDVFGNYVVQKFFEHGSAAQRRELADQLFGHVLALSLQMYGCRVIQKAIE
VVDLDQKTKMVTELDGHIMRCVRDQNGNHVIQKCIECVPEDSIQFIISTFYGQVVPLSTHPYGC
RVIQRVLEHCTDPKTQEIVMDEILQSVCMLAQDQYGNYVVQR*(+)
MKYCNLCACWHKINMEIMLFSADQYGSRFIQQKLETATVEEKDMVFKEIMPQALSLMTDVFGNY
VVQKFFEHGSAAQRRELADQLFGHVLALSLQMYGCRVIQKAIEVVDLDQKTKMVTELDGHIMRC
VRDQNGNHVIQKCIECVPEDSIQFIISTFYGQVVPLSTHPYGCRVIQRVLEHCTDPKTQEIVMD
EILQSVCMLAQDQYGNYVVQR*(+)
MISLKTMSFSSTVAVSSFCCMKRLPYWSALNNIISILILCQHAHRLQYFIHDYFLCFWISAMLQ
YSLYDSAAIGMSG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	36283158-36283092(+) 36283904-36283092(+) 36283178-36283734(-)
Potential amino acid sequence	MVFKEIMPQALSLMTDVFGNYVVQKFFEHGSAAQRRELADQLFGHVLALSLQMYGCRVIQKAIE VVDLDQKTKMVTELDGHIMRCVRDQNGNHVIQKCIECVPEDSIQFIISTFYGQVVPLSTHPYGC RVIQRVLEHCTDPKTQEIVMDEILQSVCMLAQDQYGNYVVQR(+) MKYCNLCACWHKINMEIMLFSADQYGSRFIQQKLETATVEEKDMVFKEIMPQALSLMTDVFGNY VVQKFFEHGSAAQRRELADQLFGHVLALSLQMYGCRVIQKAIEVVDLDQKTKMVTELDGHIMRC VRDQNGNHVIQKCIECVPEDSIQFIISTFYGQVVPLSTHPYGCRVIQRVLEHCTDPKTQEIVMD EILQSVCMLAQDQYGNYVVQR(+) MISLKTMSFSSTVAVSSFCCMKRLPYWSALNNIISILILCQHAHRLQYFIHDYFLCFWISAMLQ YSLYDSAAIGMSG*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0844800_circ_g.1

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