Plant Circular RNA Database

Detail information of Os03g0180300_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os03g0180300_circ_g.4
					
						ID in PlantcircBase
						osa_circ_018206
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 4205500-4208385  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0180300						
					
						Parent gene annotation
						
							Similar to Ataxin-2 C-terminal region family protein, expressed.
 (Os03t0180300-01);Similar to Ataxin-2 C-terminal region family 
protein, expressed. (Os03t0180300-02);Hypothetical conserved gen
e. (Os03t0180300-03);Hypothetical conserved gene. (Os03t0180300-
04)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0180300_circ_g.3 Os03g0180300_circ_g.5 						
					
						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
						Os03t0180300-04:2
Os03t0180300-03:2
Os03t0180300-01:4
Os03t0180300-02:4

General Information
CircRNA Name	Os03g0180300_circ_g.4
ID in PlantcircBase	osa_circ_018206
Alias	NA
Organism	Oryza sativa
Position	chr3: 4205500-4208385 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0180300
Parent gene annotation	Similar to Ataxin-2 C-terminal region family protein, expressed. (Os03t0180300-01);Similar to Ataxin-2 C-terminal region family protein, expressed. (Os03t0180300-02);Hypothetical conserved gen e. (Os03t0180300-03);Hypothetical conserved gene. (Os03t0180300- 04)
Parent gene strand	+
Alternative splicing	Os03g0180300_circ_g.3 Os03g0180300_circ_g.5
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	Os03t0180300-04:2 Os03t0180300-03:2 Os03t0180300-01:4 Os03t0180300-02:4

			
						 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  
						
							CTTATGGTTGAACTTGTCTGTGATGACAGCAAACATGTTTTTGGAATCAAAGGATGAAGCTCAT
GATTTTGCAAGCCTACGGCATGCGCTTCTGGAACAGgaataggaagaatatctccagcaagact
ttcatctgcttatcatcagtatgtccatcgaagagagaacattaagtttgataaacaagaccac
tgcgttaa

									
								

					

						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
						
							GAATAGGAAGAATATCTCCAGCAAGACTTTCATCTGCTTATCATCAGTATGTCCATCGAAGAGA
GAACATTAAGTTTGATAAACAAGACCACTGCGTTAAATCCAAATGCACAAGAATTTGTACCTTC
ATCCCTCAGATCTATCAATGATGTTTCAAATAGATCAGACACATCCAGGATTTCTGTATCAGGA
TCCTCCAAAGACACTATTGCAGATCAACAAGATCCTGTTATACCAAGTAACCCTGATGAAGAAG
CACATCGGTACTGGCAAGAACAGCTTCCAGATGATATTACCCCTGATTTCAAAGTTCTGGGACA
AGATGAGATGCCTGGACCTGATAATATTTCACTCACTGGCTTGTCAATAAATGATAGCATTGGT
GCTTCACTATTTTCTCCAAACCAGACATCGAATTTGCAACACCGTGCTTCTCCTTTTATTAGGG
ACACTCTGAGCACACGATCAAAGATCGAGTTTCCTAGCCCAACTTATGTAGAAGAACAGTCAAG
AGCTACTATTATGAGTCCAACTGCAAGCGCTATGAGTCCAACTGCGGCTCCGTGGGTAAAAACA
GTAAGAAATGGTGTGCAATACAATGCAAACAGAAGGGATGCCAGCCATTACAATGGAGATTCTA
GCATTGGTATAGTGTTGATTTCATGGGTGTAATTTTATTCACTGAAGGTAGTAGTATGAACCCT
AACCTTTAGAATTTTCAGGAGCTCCAGTGCAAAACCTTACTGATGCATACTTCGGAAGCAGGCG
CAGCTTTAGCTCAACTATGGATATCATGAGTCAGCTGGAGGTCTGTTTTTCTTCTGATATTCAT
CTCAATTTTAAATCTACCAATTTTTTCTCTCTCCAACTGTGCCTTGGGGCTTGGACAGTTGAAC
TACATATGAATCATAACTGGCATGCTCATCATATATTACAGAAAATTTCATAACAAGCAAAATG
CTTCATAGTTCTTTTGTTTTTTTTTTAAAAAAAAACCATCAAACTACTTTCACTATATGGTTTT
ACATCAACTCCAGACAAGTTGTAACCTGAGCAAAGATGTCTGACAAAACAATACTTTGAACATT
TGGCAATAGTCCTTGATTGAATGAATGCTAGACTATTGAGTGGATCTTGCTTCCTGTCACCCAA
TTCATACAAGTATACAGCATTATAACACTTTTTAGTTCCAGATTATTAACATTGTAGTATGATA
CTGATCTATAAATAATGAGACCCCATTTAATGATCCACCGATATGTTTTTCTTCAATCAACTGA
AGTTTGCACGTTCAATACTGAATATTCCATGTCATTTTTGGCATCTGGGCTGTATTATTGTTTT
TTTACTCTTTATAATCAGGAACATATGTTCAGTTTGATTTTTAAACTGGTGGCACTCTGTAATG
ACCTCATGTGTTTGTCCGAGACTTAATGAATGAAATAGATATTTGAAATTTGTGACTTTGAAGT
ATATTTGTTTGAGTCAATCTGATGTTAATATAAGGAAAAGCTTGGTGGACTTCTAGTGACTGAA
AACTATTTGAACCCACTGATTCTCCTAATCTACAACCTATTAATTATTTCTTCTCATAAAAGTC
ACTCAGGCAACTGATTTAGAACATTATATTGTTGTTGGACAGCTTAAACTGTCCATGCTAATTA
TGATTCTACTGGGGCTGTTTACTTTCTTGCCAAAATTAACCCTACCAAATTTTGGCAAAGCAAG
GTAACAATTCAACATTGACATAAATTGCCTCAACTACCAAAGTTGGTAATTCTAGAATCTTCCT
CACAAAAACTTGGCAAAGGTAGCAAACCAAATACAACTTTTACACATCTCAACCAATTTGGTAA
GGTTGATTTTGAGATTGAAGTGAACAGCCCTGAAATGGCATTATGTTCTCAAAATTATCACTTG
CATTCAACTTTGAATACGACTATAGTCTAGAAACTAGGTGGGATTCTATATGTAGATGACTATG
ATGAGCGAGGATTATTTCTTGAGCCCATTCATTATAGAAACTGATATAACAACAATGCCACTGT
TGGTTCTCTGTTTTAGATACCACATAGAAGTGGTTGAATCATCAACATAGTGTCCGAGACTTAA
TCAGTCTCATTCATTCTGGATCAGATTAGTCTCTTAGCGAAACTCCCCTACTTTTTTACTATAA
GTTCAAGAAATATTTGCTTGGAAATACCATGTCGCGGCCATGTCTGTTGACGATTTTCTTCCAT
TTGGCCATGCTTGATGGGAATGACTAAGATATGATTACATGCATGATGTCTGCTTCAAGCATTT
ATTTAATATTATCATATGTTCATTAGCAGAATAAAGTTGATGGACGATTCAATCAGAATCTGAG
GTCACTGTCGTTTGGACATTCAAGTCCTCCATCACCAGCATCATATGGTCAAAATGGTCTTGCA
AACTATAACAAAGAAGCTTTTGGTCTGGCAAACAATACATATAGATCCCACTCAGCTGTACTCG
CAGATGATATACTTTCCCCTTCAGCTGGTCGGGAACATATTTCTCTGGATGCTCCTAGGGGGAG
GTACAATACAACTAATTTGCCTGTTTCTGGTCTTGGTTCAAGCAGAGGCTCTCAGTTCATGGCA
AGCTCATTCAATGGCAATCATGACATAGTCTCAAACAACACCCTGCAAAATATAGCTGGAGTTC
AAACAGGACCTGCTTGGCTTGAAGCTGATACTGCAGGTAGTGTTGAATTATAATGCATGTTTTT
TCATGGACCTATCACAGCATACATGCCTATTTACCTTATGGTTGAACTTGTCTGTGATGACAGC
AAACATGTTTTTGGAATCAAAGGATGAAGCTCATGATTTTGCAAGCCTACGGCATGCGCTTCTG
GAACAG
						
					

			
		

Sequences
Splice junction sequence	CTTATGGTTGAACTTGTCTGTGATGACAGCAAACATGTTTTTGGAATCAAAGGATGAAGCTCAT GATTTTGCAAGCCTACGGCATGCGCTTCTGGAACAGgaataggaagaatatctccagcaagact ttcatctgcttatcatcagtatgtccatcgaagagagaacattaagtttgataaacaagaccac tgcgttaa
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	GAATAGGAAGAATATCTCCAGCAAGACTTTCATCTGCTTATCATCAGTATGTCCATCGAAGAGA GAACATTAAGTTTGATAAACAAGACCACTGCGTTAAATCCAAATGCACAAGAATTTGTACCTTC ATCCCTCAGATCTATCAATGATGTTTCAAATAGATCAGACACATCCAGGATTTCTGTATCAGGA TCCTCCAAAGACACTATTGCAGATCAACAAGATCCTGTTATACCAAGTAACCCTGATGAAGAAG CACATCGGTACTGGCAAGAACAGCTTCCAGATGATATTACCCCTGATTTCAAAGTTCTGGGACA AGATGAGATGCCTGGACCTGATAATATTTCACTCACTGGCTTGTCAATAAATGATAGCATTGGT GCTTCACTATTTTCTCCAAACCAGACATCGAATTTGCAACACCGTGCTTCTCCTTTTATTAGGG ACACTCTGAGCACACGATCAAAGATCGAGTTTCCTAGCCCAACTTATGTAGAAGAACAGTCAAG AGCTACTATTATGAGTCCAACTGCAAGCGCTATGAGTCCAACTGCGGCTCCGTGGGTAAAAACA GTAAGAAATGGTGTGCAATACAATGCAAACAGAAGGGATGCCAGCCATTACAATGGAGATTCTA GCATTGGTATAGTGTTGATTTCATGGGTGTAATTTTATTCACTGAAGGTAGTAGTATGAACCCT AACCTTTAGAATTTTCAGGAGCTCCAGTGCAAAACCTTACTGATGCATACTTCGGAAGCAGGCG CAGCTTTAGCTCAACTATGGATATCATGAGTCAGCTGGAGGTCTGTTTTTCTTCTGATATTCAT CTCAATTTTAAATCTACCAATTTTTTCTCTCTCCAACTGTGCCTTGGGGCTTGGACAGTTGAAC TACATATGAATCATAACTGGCATGCTCATCATATATTACAGAAAATTTCATAACAAGCAAAATG CTTCATAGTTCTTTTGTTTTTTTTTTAAAAAAAAACCATCAAACTACTTTCACTATATGGTTTT ACATCAACTCCAGACAAGTTGTAACCTGAGCAAAGATGTCTGACAAAACAATACTTTGAACATT TGGCAATAGTCCTTGATTGAATGAATGCTAGACTATTGAGTGGATCTTGCTTCCTGTCACCCAA TTCATACAAGTATACAGCATTATAACACTTTTTAGTTCCAGATTATTAACATTGTAGTATGATA CTGATCTATAAATAATGAGACCCCATTTAATGATCCACCGATATGTTTTTCTTCAATCAACTGA AGTTTGCACGTTCAATACTGAATATTCCATGTCATTTTTGGCATCTGGGCTGTATTATTGTTTT TTTACTCTTTATAATCAGGAACATATGTTCAGTTTGATTTTTAAACTGGTGGCACTCTGTAATG ACCTCATGTGTTTGTCCGAGACTTAATGAATGAAATAGATATTTGAAATTTGTGACTTTGAAGT ATATTTGTTTGAGTCAATCTGATGTTAATATAAGGAAAAGCTTGGTGGACTTCTAGTGACTGAA AACTATTTGAACCCACTGATTCTCCTAATCTACAACCTATTAATTATTTCTTCTCATAAAAGTC ACTCAGGCAACTGATTTAGAACATTATATTGTTGTTGGACAGCTTAAACTGTCCATGCTAATTA TGATTCTACTGGGGCTGTTTACTTTCTTGCCAAAATTAACCCTACCAAATTTTGGCAAAGCAAG GTAACAATTCAACATTGACATAAATTGCCTCAACTACCAAAGTTGGTAATTCTAGAATCTTCCT CACAAAAACTTGGCAAAGGTAGCAAACCAAATACAACTTTTACACATCTCAACCAATTTGGTAA GGTTGATTTTGAGATTGAAGTGAACAGCCCTGAAATGGCATTATGTTCTCAAAATTATCACTTG CATTCAACTTTGAATACGACTATAGTCTAGAAACTAGGTGGGATTCTATATGTAGATGACTATG ATGAGCGAGGATTATTTCTTGAGCCCATTCATTATAGAAACTGATATAACAACAATGCCACTGT TGGTTCTCTGTTTTAGATACCACATAGAAGTGGTTGAATCATCAACATAGTGTCCGAGACTTAA TCAGTCTCATTCATTCTGGATCAGATTAGTCTCTTAGCGAAACTCCCCTACTTTTTTACTATAA GTTCAAGAAATATTTGCTTGGAAATACCATGTCGCGGCCATGTCTGTTGACGATTTTCTTCCAT TTGGCCATGCTTGATGGGAATGACTAAGATATGATTACATGCATGATGTCTGCTTCAAGCATTT ATTTAATATTATCATATGTTCATTAGCAGAATAAAGTTGATGGACGATTCAATCAGAATCTGAG GTCACTGTCGTTTGGACATTCAAGTCCTCCATCACCAGCATCATATGGTCAAAATGGTCTTGCA AACTATAACAAAGAAGCTTTTGGTCTGGCAAACAATACATATAGATCCCACTCAGCTGTACTCG CAGATGATATACTTTCCCCTTCAGCTGGTCGGGAACATATTTCTCTGGATGCTCCTAGGGGGAG GTACAATACAACTAATTTGCCTGTTTCTGGTCTTGGTTCAAGCAGAGGCTCTCAGTTCATGGCA AGCTCATTCAATGGCAATCATGACATAGTCTCAAACAACACCCTGCAAAATATAGCTGGAGTTC AAACAGGACCTGCTTGGCTTGAAGCTGATACTGCAGGTAGTGTTGAATTATAATGCATGTTTTT TCATGGACCTATCACAGCATACATGCCTATTTACCTTATGGTTGAACTTGTCTGTGATGACAGC AAACATGTTTTTGGAATCAAAGGATGAAGCTCATGATTTTGCAAGCCTACGGCATGCGCTTCTG GAACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.425114459

Conservation Information
Conserved circRNAs	NA
PMCS	0.425114459

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4205549-4205502(+)
4208340-4205569(+)
						
						Potential amino acid sequence
						
							MSIEERTLSLINKTTALNPNAQEFVPSSLRSINDVSNRSDTSRISVSGSSKDTIADQQDPVIPS
NPDEEAHRYWQEQLPDDITPDFKVLGQDEMPGPDNISLTGLSINDSIGASLFSPNQTSNLQHRA
SPFIRDTLSTRSKIEFPSPTYVEEQSRATIMSPTASAMSPTAAPWVKTVRNGVQYNANRRDASH
YNGDSSIGAPVQNLTDAYFGSRRSFSSTMDIMSQLENKVDGRFNQNLRSLSFGHSSPPSPASYG
QNGLANYNKEAFGLANNTYRSHSAVLADDILSPSAGREHISLDAPRGRYNTTNLPVSGLGSSRG
SQFMASSFNGNHDIVSNNTLQNIAGVQTGPAWLEADTAANMFLESKDEAHDFASLRHALLEQE*
(+)
MKLMILQAYGMRFWNRNRKNISSKTFICLSSVCPSKREH*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4205549-4205502(+) 4208340-4205569(+)
Potential amino acid sequence	MSIEERTLSLINKTTALNPNAQEFVPSSLRSINDVSNRSDTSRISVSGSSKDTIADQQDPVIPS NPDEEAHRYWQEQLPDDITPDFKVLGQDEMPGPDNISLTGLSINDSIGASLFSPNQTSNLQHRA SPFIRDTLSTRSKIEFPSPTYVEEQSRATIMSPTASAMSPTAAPWVKTVRNGVQYNANRRDASH YNGDSSIGAPVQNLTDAYFGSRRSFSSTMDIMSQLENKVDGRFNQNLRSLSFGHSSPPSPASYG QNGLANYNKEAFGLANNTYRSHSAVLADDILSPSAGREHISLDAPRGRYNTTNLPVSGLGSSRG SQFMASSFNGNHDIVSNNTLQNIAGVQTGPAWLEADTAANMFLESKDEAHDFASLRHALLEQE* (+) MKLMILQAYGMRFWNRNRKNISSKTFICLSSVCPSKREH*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0180300_circ_g.4

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