Plant Circular RNA Database

Detail information of Os02g0285800_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0285800_circ_g.3
					
						ID in PlantcircBase
						osa_circ_014291
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 10740470-10744102  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0285800						
					
						Parent gene annotation
						
							Similar to GTP-binding protein typA (Tyrosine phosphorylated pro
tein A). (Os02t0285800-01);Similar to predicted protein. (Os02t0
285800-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0285800_circ_g.1 Os02g0285800_circ_g.2 Os02g0285800_circ_g.4 Os02g0285800_circ_g.5 Os02g0285800_circ_g.6 Os02g0285800_circ_g.7 Os02g0285800_circ_g.8 Os02g0285800_circ_g.9 Os02g0285800_circ_g.10 Os02g0285800_circ_g.11 Os02g0285800_circ_g.12 Os02g0285800_circ_g.13 						
					
						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
						Os02t0285800-02:7
Os02t0285800-01:9

General Information
CircRNA Name	Os02g0285800_circ_g.3
ID in PlantcircBase	osa_circ_014291
Alias	NA
Organism	Oryza sativa
Position	chr2: 10740470-10744102 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0285800
Parent gene annotation	Similar to GTP-binding protein typA (Tyrosine phosphorylated pro tein A). (Os02t0285800-01);Similar to predicted protein. (Os02t0 285800-02)
Parent gene strand	+
Alternative splicing	Os02g0285800_circ_g.1 Os02g0285800_circ_g.2 Os02g0285800_circ_g.4 Os02g0285800_circ_g.5 Os02g0285800_circ_g.6 Os02g0285800_circ_g.7 Os02g0285800_circ_g.8 Os02g0285800_circ_g.9 Os02g0285800_circ_g.10 Os02g0285800_circ_g.11 Os02g0285800_circ_g.12 Os02g0285800_circ_g.13
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	Os02t0285800-02:7 Os02t0285800-01:9

			
						 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  
						
							CTCAATTGCTAACAGGCGGAGAGAAGGATTTGAGTTTATGATTGGACCTCCAAAGGTCATTAAC
AAGACAGTTGATGGAAAGCTGCAAGAGCCTTATGAGctgggaagagtggtcaagcaactagaag
agatgtgaggaatatagcaattgttgctcatgtcgatcatggaaagacaactctggtggattca
atgttaag

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CTGGGAAGAGTGGTCAAGCAACTAGAAGAGATGTGAGGAATATAGCAATTGTTGCTCATGTCGA
TCATGGAAAGACAACTCTGGTGGATTCAATGTTAAGGCAAGCCAAGGTACATTCTAGAAGCTTC
TTGTTCCATTCTGAGATTAATTTCAAAATTTTAATGCTAAGGAAAGCTTTACTCTGTAGGGAAG
AATATGTACTTCATGAAAACACCTTAGAACGAACGACAAACTATTTGTGAAAATTATTTCTGTT
CAACCACAAGGTTGTGCTGAAAATCAATAGTGCATTTACCATTTCTGTTGCTGTTTAAATTATG
CAGGTTTTCCGAGACAATCAAGTTGTACAGGAAAGAATAATGGACTCAAATGATCTGGAGAGGG
AAAGGGGAATCACTATACTTAGCAAAAACACTTCGATAACTTATAAGGGTACTAAAATCAACAT
CATCGATACTCCTGGACATTCAGATTTCGGTGGGGAGGTGGAACGCGTTCTCAACATGGTGGAA
GGAGTTCTCCTAGTGGTACTAGCTACTGTTGCGGTTAAATGTTATATAAGAAGATTGGCTTACT
TCTTATTTGATGCTTAAAACATATTCTATTGGCTTCTTTTGCGCTTCATTGTTCAATAAGTGTT
TTGATGCCATCACATCTTGACATGCCTTATGTCTATCAAAAATTGTAACACACTGCATATAGGG
TACTGATTCCATGTTCTGCTGCATGCTACACAAGTTCCTATGGAACTGATTTTTCAAACAGTGT
TCTAATGTGAATTGAGAAAACGAGCTAAAATCATTCTATTAACATAATCCTCTATGCTTCGTAG
GTTGATTCTGTAGAGGGACCTATGCCACAGACAAGATTTGTTCTGAAGAAAGCTCTAGAATTCG
GACATGCTGTTGTAGTGGTTGTAAACAAGATTGACAGACCTACTGCTCGTCCTGAGTTTGTGGT
GAATTCAACATTTGAGCTATTTATCGAATTAAATGCAACTGATGAACAGGTAAATAGTTTTGTC
CATACTTTTGTTCATTGATTTGTTCTCTTCCTATTCCTTATGTTCTTGTTTTGCTGCAATATGT
CAGTGTGATTTTCAAACAGTCTATGCAAGTGGTATTAAAGGGAAGGCTGGGTTATCTCCAGAAA
ATTTGGGTGACGATCTTGGACCCCTTTTTGAGGCAATCCTTAGATGCATACCAGAGCCACGTAT
TGAGAAAGACGGTGCACTGCAATTGCTTGTGAGTAATAAACTTGGGGATTATATTGTCATGTAC
TTAACTTGTGGCTATGACTTTGCATAATACTTTATATGCAGCCATCGTGATTGTTTTCTTGGAT
GCATCTGTAATTTCGGATTTTCTCTCAAAATGGCAACTTACACACTGTATCACTACATTTTTTT
CTTCTGTTTGTTTCTTACTGTTATTTTCAACTATGGTAAAGCTTGAACTTTGGGATGCTTAACT
CCATACAGTTGGGAGTAATTACTCCCAAGATGCTGAAAGCCATGCCATGGATACTAGGTTATGT
AATTATAGTTGGAAATGACTGAAATCTGATAGCTAACTAGCCAAGATCAGCAATCAGTATCTTG
TGTACTTGGACAGCTAAGGAAACTCCTACATGATTAATATTCACCGATCAATTTGCAATAACTG
CCACATTCGTAAATGAACATATGTTCAAATTTCTAAGATTATTTTCCATGCAAAGTTACATCAA
CTAGTGTTGAAGTCTAGACACTTACCAGGCACATAATATGAGTACGTTAGCTATTTTGTTCTTC
TCTACATCACTTTATTGTTTGTTAGAAAGTTTGATTTGTCTTCTTGTGAGCAAATTTCTGCGGA
GCTGCCTTTCTGACTTTGACAAATCTATTTTTCTGATAATAGATTATCAGAACTTCTCTTTCAT
TATTTGTAGTCCTGTGTACTAATTCCACAATGCTGACTGATGTATAGGTGTCTAATACTGAATA
TGATGAACATAAAGGACGGATAGCGATTGGGCGACTGCATGCAGGAGAACTGCAGCGAGGCATG
GAAGTGAAGGTACAAATTTGTTCTTTTTGTGCATGTAGTGCAAATGCCAATATTCCAACAAAGA
TTAAAAAGAACAACAGGGTAGCATCAAAGATATGTGCAACCTTTCCAAAATTTAGATTTAAATC
TCTCATACTCTTTGCATGAGCAACCATTGCAGTCTTGGTTAATGGTTCACTTTTGAAGTTTCTT
TAGATTTGATCTTTTTTTCAAATTACATCTAGGCACATCTGTCACCTTTTTTTTGTTTGCAAGA
CAAAGGGAAAAAATATCTTTTCTTATGACAGCAATATAGCTTCTACTGATTTCAAGATATTTTG
CAGGTTTGTACACCAGATGATGCTTGTAGAATTAGCAAAATAAGTGAGCTTTTCGTTTATCAGA
ACTTCAGCCGAGTTCCAGTTGATAATGTTAGTGCTGGTGACATTTGTGCAGTATGTGGAATCAA
TGATATCATGGTTGGTGTTTTTTAACAATTTATTCAAGCTTTCTGGTTTACATTTATCTTAAGA
GCACGATAATTATAAAATCTGTTATTCTTTGAACTCTGCAGATTGGGGAAACCATAGCAGATAA
AGTTTCTGGAACACCCTTGCCCACCATCAAAATAGAGGAACCGACAGTCAGAATGTCTTTTTCC
ATCAACACTTCACCTTTTGTCGGTAAAGAGGTATGGATAAACTCCATTGTATCTCTACTGTCTA
GCAGTCTAGCATGGCCTGCTTGAAAAAGAGAGTTGAAAAATGCCTAAGCTAGATGTTGATATAA
TGCTTTGAATTCAAATGATAAAAAAAATCGATGTCTAAATTGCAACTATGTGGTCATTCCAAGT
TGTTAGACTAAATATTATTTTATTTTGACAATTGAAATGATCTGCCATTGCTGGATGCTTAGAA
AGTATCAAATCATGATTGTAGTTCACAGAATGCAGATTTTGCTCTATTGTGCTTTAAAGTGGCA
TGAAGTGAATGCTGTCAAATTGGAGTCAAATTAAAGTGCCACAAAGTGAATGCTGTCTCAAAAA
AAAGTGAATGCTGTCAAATTATATTCAAATCTCTTTTGTCAAATTGAACTTGTTTAATCTAAAA
TCGATTGAATGTCTTGCCTTCTTGCAAGTTATTTAAATTAAGATTATCCATAGTGGCACTTTTC
CACCACATTTGCTGTAATGGTACCAATGCCATGTTTGTAAATATAATGTTGCTAGTTTTCTTCC
TTTTCTGGAATGCTGAAATATTTGTCCGTTCTCACTGGATTTATCACAGGGGAAATATGTCACA
AGCCGTAATCTCCGTGATAGGTTATATCGTGAGCTTGAAAGGAACTTAGCTATGAAAGTAGAAG
ACGGGGAAACTGCTGATACATTTCTTGTTAGTGGCAGAGGCACACTGCACCTCACTATATTGAT
AGAAAACATGTAAGCATTTATTATCATATTCAGTGATTCCAGAATGACATGTACTTCTGGCATT
TTCTTGAAAGAACCTCAATTGCTAACAGGCGGAGAGAAGGATTTGAGTTTATGATTGGACCTCC
AAAGGTCATTAACAAGACAGTTGATGGAAAGCTGCAAGAGCCTTATGAG
						
					

			
		

Sequences
Splice junction sequence	CTCAATTGCTAACAGGCGGAGAGAAGGATTTGAGTTTATGATTGGACCTCCAAAGGTCATTAAC AAGACAGTTGATGGAAAGCTGCAAGAGCCTTATGAGctgggaagagtggtcaagcaactagaag agatgtgaggaatatagcaattgttgctcatgtcgatcatggaaagacaactctggtggattca atgttaag
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CTGGGAAGAGTGGTCAAGCAACTAGAAGAGATGTGAGGAATATAGCAATTGTTGCTCATGTCGA TCATGGAAAGACAACTCTGGTGGATTCAATGTTAAGGCAAGCCAAGGTACATTCTAGAAGCTTC TTGTTCCATTCTGAGATTAATTTCAAAATTTTAATGCTAAGGAAAGCTTTACTCTGTAGGGAAG AATATGTACTTCATGAAAACACCTTAGAACGAACGACAAACTATTTGTGAAAATTATTTCTGTT CAACCACAAGGTTGTGCTGAAAATCAATAGTGCATTTACCATTTCTGTTGCTGTTTAAATTATG CAGGTTTTCCGAGACAATCAAGTTGTACAGGAAAGAATAATGGACTCAAATGATCTGGAGAGGG AAAGGGGAATCACTATACTTAGCAAAAACACTTCGATAACTTATAAGGGTACTAAAATCAACAT CATCGATACTCCTGGACATTCAGATTTCGGTGGGGAGGTGGAACGCGTTCTCAACATGGTGGAA GGAGTTCTCCTAGTGGTACTAGCTACTGTTGCGGTTAAATGTTATATAAGAAGATTGGCTTACT TCTTATTTGATGCTTAAAACATATTCTATTGGCTTCTTTTGCGCTTCATTGTTCAATAAGTGTT TTGATGCCATCACATCTTGACATGCCTTATGTCTATCAAAAATTGTAACACACTGCATATAGGG TACTGATTCCATGTTCTGCTGCATGCTACACAAGTTCCTATGGAACTGATTTTTCAAACAGTGT TCTAATGTGAATTGAGAAAACGAGCTAAAATCATTCTATTAACATAATCCTCTATGCTTCGTAG GTTGATTCTGTAGAGGGACCTATGCCACAGACAAGATTTGTTCTGAAGAAAGCTCTAGAATTCG GACATGCTGTTGTAGTGGTTGTAAACAAGATTGACAGACCTACTGCTCGTCCTGAGTTTGTGGT GAATTCAACATTTGAGCTATTTATCGAATTAAATGCAACTGATGAACAGGTAAATAGTTTTGTC CATACTTTTGTTCATTGATTTGTTCTCTTCCTATTCCTTATGTTCTTGTTTTGCTGCAATATGT CAGTGTGATTTTCAAACAGTCTATGCAAGTGGTATTAAAGGGAAGGCTGGGTTATCTCCAGAAA ATTTGGGTGACGATCTTGGACCCCTTTTTGAGGCAATCCTTAGATGCATACCAGAGCCACGTAT TGAGAAAGACGGTGCACTGCAATTGCTTGTGAGTAATAAACTTGGGGATTATATTGTCATGTAC TTAACTTGTGGCTATGACTTTGCATAATACTTTATATGCAGCCATCGTGATTGTTTTCTTGGAT GCATCTGTAATTTCGGATTTTCTCTCAAAATGGCAACTTACACACTGTATCACTACATTTTTTT CTTCTGTTTGTTTCTTACTGTTATTTTCAACTATGGTAAAGCTTGAACTTTGGGATGCTTAACT CCATACAGTTGGGAGTAATTACTCCCAAGATGCTGAAAGCCATGCCATGGATACTAGGTTATGT AATTATAGTTGGAAATGACTGAAATCTGATAGCTAACTAGCCAAGATCAGCAATCAGTATCTTG TGTACTTGGACAGCTAAGGAAACTCCTACATGATTAATATTCACCGATCAATTTGCAATAACTG CCACATTCGTAAATGAACATATGTTCAAATTTCTAAGATTATTTTCCATGCAAAGTTACATCAA CTAGTGTTGAAGTCTAGACACTTACCAGGCACATAATATGAGTACGTTAGCTATTTTGTTCTTC TCTACATCACTTTATTGTTTGTTAGAAAGTTTGATTTGTCTTCTTGTGAGCAAATTTCTGCGGA GCTGCCTTTCTGACTTTGACAAATCTATTTTTCTGATAATAGATTATCAGAACTTCTCTTTCAT TATTTGTAGTCCTGTGTACTAATTCCACAATGCTGACTGATGTATAGGTGTCTAATACTGAATA TGATGAACATAAAGGACGGATAGCGATTGGGCGACTGCATGCAGGAGAACTGCAGCGAGGCATG GAAGTGAAGGTACAAATTTGTTCTTTTTGTGCATGTAGTGCAAATGCCAATATTCCAACAAAGA TTAAAAAGAACAACAGGGTAGCATCAAAGATATGTGCAACCTTTCCAAAATTTAGATTTAAATC TCTCATACTCTTTGCATGAGCAACCATTGCAGTCTTGGTTAATGGTTCACTTTTGAAGTTTCTT TAGATTTGATCTTTTTTTCAAATTACATCTAGGCACATCTGTCACCTTTTTTTTGTTTGCAAGA CAAAGGGAAAAAATATCTTTTCTTATGACAGCAATATAGCTTCTACTGATTTCAAGATATTTTG CAGGTTTGTACACCAGATGATGCTTGTAGAATTAGCAAAATAAGTGAGCTTTTCGTTTATCAGA ACTTCAGCCGAGTTCCAGTTGATAATGTTAGTGCTGGTGACATTTGTGCAGTATGTGGAATCAA TGATATCATGGTTGGTGTTTTTTAACAATTTATTCAAGCTTTCTGGTTTACATTTATCTTAAGA GCACGATAATTATAAAATCTGTTATTCTTTGAACTCTGCAGATTGGGGAAACCATAGCAGATAA AGTTTCTGGAACACCCTTGCCCACCATCAAAATAGAGGAACCGACAGTCAGAATGTCTTTTTCC ATCAACACTTCACCTTTTGTCGGTAAAGAGGTATGGATAAACTCCATTGTATCTCTACTGTCTA GCAGTCTAGCATGGCCTGCTTGAAAAAGAGAGTTGAAAAATGCCTAAGCTAGATGTTGATATAA TGCTTTGAATTCAAATGATAAAAAAAATCGATGTCTAAATTGCAACTATGTGGTCATTCCAAGT TGTTAGACTAAATATTATTTTATTTTGACAATTGAAATGATCTGCCATTGCTGGATGCTTAGAA AGTATCAAATCATGATTGTAGTTCACAGAATGCAGATTTTGCTCTATTGTGCTTTAAAGTGGCA TGAAGTGAATGCTGTCAAATTGGAGTCAAATTAAAGTGCCACAAAGTGAATGCTGTCTCAAAAA AAAGTGAATGCTGTCAAATTATATTCAAATCTCTTTTGTCAAATTGAACTTGTTTAATCTAAAA TCGATTGAATGTCTTGCCTTCTTGCAAGTTATTTAAATTAAGATTATCCATAGTGGCACTTTTC CACCACATTTGCTGTAATGGTACCAATGCCATGTTTGTAAATATAATGTTGCTAGTTTTCTTCC TTTTCTGGAATGCTGAAATATTTGTCCGTTCTCACTGGATTTATCACAGGGGAAATATGTCACA AGCCGTAATCTCCGTGATAGGTTATATCGTGAGCTTGAAAGGAACTTAGCTATGAAAGTAGAAG ACGGGGAAACTGCTGATACATTTCTTGTTAGTGGCAGAGGCACACTGCACCTCACTATATTGAT AGAAAACATGTAAGCATTTATTATCATATTCAGTGATTCCAGAATGACATGTACTTCTGGCATT TTCTTGAAAGAACCTCAATTGCTAACAGGCGGAGAGAAGGATTTGAGTTTATGATTGGACCTCC AAAGGTCATTAACAAGACAGTTGATGGAAAGCTGCAAGAGCCTTATGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.131362212

Conservation Information
Conserved circRNAs	NA
PMCS	0.131362212

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10740563-10740502(+)
10740539-10744098(-)
						
						Potential amino acid sequence
						
							MLRQAKVFRDNQVVQERIMDSNDLERERGITILSKNTSITYKGTKINIIDTPGHSDFGGEVERV
LNMVEGVLLVVDSVEGPMPQTRFVLKKALEFGHAVVVVVNKIDRPTARPEFVVNSTFELFIELN
ATDEQCDFQTVYASGIKGKAGLSPENLGDDLGPLFEAILRCIPEPRIEKDGALQLLVSNTEYDE
HKGRIAIGRLHAGELQRGMEVKVCTPDDACRISKISELFVYQNFSRVPVDNVSAGDICAVCGIN
DIMIGETIADKVSGTPLPTIKIEEPTVRMSFSINTSPFVGKEGKYVTSRNLRDRLYRELERNLA
MKVEDGETADTFLVSGRGTLHLTILIENMRREGFEFMIGPPKVINKTVDGKLQEPYELGRVVKQ
LEEM*(+)
MIDMSNNCYIPHISSSCLTTLPSS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10740563-10740502(+) 10740539-10744098(-)
Potential amino acid sequence	MLRQAKVFRDNQVVQERIMDSNDLERERGITILSKNTSITYKGTKINIIDTPGHSDFGGEVERV LNMVEGVLLVVDSVEGPMPQTRFVLKKALEFGHAVVVVVNKIDRPTARPEFVVNSTFELFIELN ATDEQCDFQTVYASGIKGKAGLSPENLGDDLGPLFEAILRCIPEPRIEKDGALQLLVSNTEYDE HKGRIAIGRLHAGELQRGMEVKVCTPDDACRISKISELFVYQNFSRVPVDNVSAGDICAVCGIN DIMIGETIADKVSGTPLPTIKIEEPTVRMSFSINTSPFVGKEGKYVTSRNLRDRLYRELERNLA MKVEDGETADTFLVSGRGTLHLTILIENMRREGFEFMIGPPKVINKTVDGKLQEPYELGRVVKQ LEEM(+) MIDMSNNCYIPHISSSCLTTLPSS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0285800_circ_g.3

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