Plant Circular RNA Database

Detail information of Os03g0211800_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0211800_circ_g.1
					
						ID in PlantcircBase
						osa_circ_018473
					
						Alias
						Os_ciR9104
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 5830921-5832353  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0211800						
					
						Parent gene annotation
						
							Similar to GAUT14 (Galacturonosyltransferase 14); polygalacturon
ate 4-alpha-galacturonosyltransferase/ transferase, transferring
 glycosyl groups / transferase, transferring hexosyl groups. (Os
03t0211800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0211800_circ_g.2 Os03g0211800_circ_g.3 Os03g0211800_circ_g.4 						
					
						Support reads
						2/1
					
						Tissues
						root/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
						Os03t0211800-01:2

General Information
CircRNA Name	Os03g0211800_circ_g.1
ID in PlantcircBase	osa_circ_018473
Alias	Os_ciR9104
Organism	Oryza sativa
Position	chr3: 5830921-5832353 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0211800
Parent gene annotation	Similar to GAUT14 (Galacturonosyltransferase 14); polygalacturon ate 4-alpha-galacturonosyltransferase/ transferase, transferring glycosyl groups / transferase, transferring hexosyl groups. (Os 03t0211800-01)
Parent gene strand	-
Alternative splicing	Os03g0211800_circ_g.2 Os03g0211800_circ_g.3 Os03g0211800_circ_g.4
Support reads	2/1
Tissues	root/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	Os03t0211800-01:2

			
						 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  
						
							ACAGGCAATGTATGCCCTTGGGAATAGCAGTTGCAGCATAATGTTTATATAATTGCTCTGCCAG
CCTTAACTTCTTTACTTCCTTATCCATGTTTTCCATctctttcaaccagaaatggtatgtctct
ctgatgtttgtcttcctccaagctgccaagtcaaatatattcatcccatatgcccatgcacatt
catctggg

									
								

					

						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: 891
Transcript exons: 5830921-5831223,5831766-5832353
CTCTTTCAACCAGAAATGGTATGTCTCTCTGATGTTTGTCTTCCTCCAAGCTGCCAAGTCAAAT
ATATTCATCCCATATGCCCATGCACATTCATCTGGGTCAAGACTCCGAGCTATCACAGGGTGGG
AAAAATTGAAATATGTCCTGAAGCGCTTAGACATCACCCAGTTATCTTCTCCTCTGCAGGTCTC
CACAGCACCATTCACCTTCCCTTCGAGATTGATCTTCCAAAGGGGAGACAAATCACGCTGAATA
ACAATGTCGTCATCAAGAAAGACCACCTTGTTGAGGTTCGGAAAAAGCTCAGGCAAATAAATGC
GGAGATGGTTAAGCAGGGATATGTATTTGGGACTTCGAGCCTGCAGCTTTGAAGCAAGCACTCT
CGGACTGTCACTTGCACTAGAAACTGCCGCATGATCTCCATGGTAGTGATTTCTGACTCCACGA
TGGTTTTCTATAGCCTCTAGTACTGGAACATTTTCTCTCGTCAACCAATCAAACTGGTGAACAC
CTTTCACTTCAACTATAGCAGGTGATATAGAATTAAGAGCAAACCAAGAATGCATCCCCGGATA
CGTTTTCTTATCAGTAATAACATGAAATACTACTTTATGAGGTACTGACGAAGATCGGACAGTT
GAGCTCACAACAACTGAAGCAGCAAGGATATTATCACTGGCTAGAATGTAATGTTGGAATGAAT
TATCAGAAAGTAAAGGTAACAGTTCAGGTGGTGGCAACTGTTTCCGAGCATGAGCATTTGAGGA
ATATTCATCAGTAAGACGCAGAGACAGGCAATGTATGCCCTTGGGAATAGCAGTTGCAGCATAA
TGTTTATATAATTGCTCTGCCAGCCTTAACTTCTTTACTTCCTTATCCATGTTTTCCAT
						
					

						Genomic sequence
						
							CTCTTTCAACCAGAAATGGTATGTCTCTCTGATGTTTGTCTTCCTCCAAGCTGCCAAGTCAAAT
ATATTCATCCCATATGCCCATGCACATTCATCTGGGTCAAGACTCCGAGCTATCACAGGGTGGG
AAAAATTGAAATATGTCCTGAAGCGCTTAGACATCACCCAGTTATCTTCTCCTCTGCAGGTCTC
CACAGCACCATTCACCTTCCCTTCGAGATTGATCTTCCAAAGGGGAGACAAATCACGCTGAATA
ACAATGTCGTCATCAAGAAAGACCACCTTGTTGAGGTTCGGAAAAAGCTGTATAAATAAATAAT
ATCATCAGCTAAAGAAAGATGGGTAGGCCATATCTTTCATTTGTCAGTAGCTGTAAAAGTAACA
CAGCTATTATCCAGTTTCAGCCCATTCTAATTTATTGATAACATGGATAGCCCAAAATAAAAAT
AATGGTTTAATCAGATATCAAGGTTATTTTGCTTAGTGATTGCATAACCTAATATTTTCAAATC
AAAGCATATTCAAAACATTCAAGTTGATCCAAGTAAGGACCACTTTTTTTCTCATTTAACTGTA
GACTTTCCACTAAGTTCCTTTGTCCTGTGTAAGAAAGATTGCACCATGACATTTCCAAGCTCAA
TTAATCATCTGATGCCTCCAAGCAGACATTTGCACAACCTAATGCACTCTGTAAATGTGTATCA
TGAGCAGGGGATTTTCACAAAACTGAAATGTCTAAACTGGCAAAATCCTCCAAACATAGAAAAT
ACTAAATAAATTGACATTCCAATGGACCATAATGATGAACTATTATACCGCAATAGAGAATATT
GAGGACAAAGTACCTCAGGCAAATAAATGCGGAGATGGTTAAGCAGGGATATGTATTTGGGACT
TCGAGCCTGCAGCTTTGAAGCAAGCACTCTCGGACTGTCACTTGCACTAGAAACTGCCGCATGA
TCTCCATGGTAGTGATTTCTGACTCCACGATGGTTTTCTATAGCCTCTAGTACTGGAACATTTT
CTCTCGTCAACCAATCAAACTGGTGAACACCTTTCACTTCAACTATAGCAGGTGATATAGAATT
AAGAGCAAACCAAGAATGCATCCCCGGATACGTTTTCTTATCAGTAATAACATGAAATACTACT
TTATGAGGTACTGACGAAGATCGGACAGTTGAGCTCACAACAACTGAAGCAGCAAGGATATTAT
CACTGGCTAGAATGTAATGTTGGAATGAATTATCAGAAAGTAAAGGTAACAGTTCAGGTGGTGG
CAACTGTTTCCGAGCATGAGCATTTGAGGAATATTCATCAGTAAGACGCAGAGACAGGCAATGT
ATGCCCTTGGGAATAGCAGTTGCAGCATAATGTTTATATAATTGCTCTGCCAGCCTTAACTTCT
TTACTTCCTTATCCATGTTTTCCAT
						
					

			
		

Sequences
Splice junction sequence	ACAGGCAATGTATGCCCTTGGGAATAGCAGTTGCAGCATAATGTTTATATAATTGCTCTGCCAG CCTTAACTTCTTTACTTCCTTATCCATGTTTTCCATctctttcaaccagaaatggtatgtctct ctgatgtttgtcttcctccaagctgccaagtcaaatatattcatcccatatgcccatgcacatt catctggg
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: 891 Transcript exons: 5830921-5831223,5831766-5832353 CTCTTTCAACCAGAAATGGTATGTCTCTCTGATGTTTGTCTTCCTCCAAGCTGCCAAGTCAAAT ATATTCATCCCATATGCCCATGCACATTCATCTGGGTCAAGACTCCGAGCTATCACAGGGTGGG AAAAATTGAAATATGTCCTGAAGCGCTTAGACATCACCCAGTTATCTTCTCCTCTGCAGGTCTC CACAGCACCATTCACCTTCCCTTCGAGATTGATCTTCCAAAGGGGAGACAAATCACGCTGAATA ACAATGTCGTCATCAAGAAAGACCACCTTGTTGAGGTTCGGAAAAAGCTCAGGCAAATAAATGC GGAGATGGTTAAGCAGGGATATGTATTTGGGACTTCGAGCCTGCAGCTTTGAAGCAAGCACTCT CGGACTGTCACTTGCACTAGAAACTGCCGCATGATCTCCATGGTAGTGATTTCTGACTCCACGA TGGTTTTCTATAGCCTCTAGTACTGGAACATTTTCTCTCGTCAACCAATCAAACTGGTGAACAC CTTTCACTTCAACTATAGCAGGTGATATAGAATTAAGAGCAAACCAAGAATGCATCCCCGGATA CGTTTTCTTATCAGTAATAACATGAAATACTACTTTATGAGGTACTGACGAAGATCGGACAGTT GAGCTCACAACAACTGAAGCAGCAAGGATATTATCACTGGCTAGAATGTAATGTTGGAATGAAT TATCAGAAAGTAAAGGTAACAGTTCAGGTGGTGGCAACTGTTTCCGAGCATGAGCATTTGAGGA ATATTCATCAGTAAGACGCAGAGACAGGCAATGTATGCCCTTGGGAATAGCAGTTGCAGCATAA TGTTTATATAATTGCTCTGCCAGCCTTAACTTCTTTACTTCCTTATCCATGTTTTCCAT
Genomic sequence	CTCTTTCAACCAGAAATGGTATGTCTCTCTGATGTTTGTCTTCCTCCAAGCTGCCAAGTCAAAT ATATTCATCCCATATGCCCATGCACATTCATCTGGGTCAAGACTCCGAGCTATCACAGGGTGGG AAAAATTGAAATATGTCCTGAAGCGCTTAGACATCACCCAGTTATCTTCTCCTCTGCAGGTCTC CACAGCACCATTCACCTTCCCTTCGAGATTGATCTTCCAAAGGGGAGACAAATCACGCTGAATA ACAATGTCGTCATCAAGAAAGACCACCTTGTTGAGGTTCGGAAAAAGCTGTATAAATAAATAAT ATCATCAGCTAAAGAAAGATGGGTAGGCCATATCTTTCATTTGTCAGTAGCTGTAAAAGTAACA CAGCTATTATCCAGTTTCAGCCCATTCTAATTTATTGATAACATGGATAGCCCAAAATAAAAAT AATGGTTTAATCAGATATCAAGGTTATTTTGCTTAGTGATTGCATAACCTAATATTTTCAAATC AAAGCATATTCAAAACATTCAAGTTGATCCAAGTAAGGACCACTTTTTTTCTCATTTAACTGTA GACTTTCCACTAAGTTCCTTTGTCCTGTGTAAGAAAGATTGCACCATGACATTTCCAAGCTCAA TTAATCATCTGATGCCTCCAAGCAGACATTTGCACAACCTAATGCACTCTGTAAATGTGTATCA TGAGCAGGGGATTTTCACAAAACTGAAATGTCTAAACTGGCAAAATCCTCCAAACATAGAAAAT ACTAAATAAATTGACATTCCAATGGACCATAATGATGAACTATTATACCGCAATAGAGAATATT GAGGACAAAGTACCTCAGGCAAATAAATGCGGAGATGGTTAAGCAGGGATATGTATTTGGGACT TCGAGCCTGCAGCTTTGAAGCAAGCACTCTCGGACTGTCACTTGCACTAGAAACTGCCGCATGA TCTCCATGGTAGTGATTTCTGACTCCACGATGGTTTTCTATAGCCTCTAGTACTGGAACATTTT CTCTCGTCAACCAATCAAACTGGTGAACACCTTTCACTTCAACTATAGCAGGTGATATAGAATT AAGAGCAAACCAAGAATGCATCCCCGGATACGTTTTCTTATCAGTAATAACATGAAATACTACT TTATGAGGTACTGACGAAGATCGGACAGTTGAGCTCACAACAACTGAAGCAGCAAGGATATTAT CACTGGCTAGAATGTAATGTTGGAATGAATTATCAGAAAGTAAAGGTAACAGTTCAGGTGGTGG CAACTGTTTCCGAGCATGAGCATTTGAGGAATATTCATCAGTAAGACGCAGAGACAGGCAATGT ATGCCCTTGGGAATAGCAGTTGCAGCATAATGTTTATATAATTGCTCTGCCAGCCTTAACTTCT TTACTTCCTTATCCATGTTTTCCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004628* 						
					
						PMCS
						0.366823819

Conservation Information
Conserved circRNAs	osi_circ_004628*
PMCS	0.366823819

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5832344-5831170(+)
5832355-5830923(-)
						
						Potential amino acid sequence
						
							MFSISFNQKWYVSLMFVFLQAAKSNIFIPYAHAHSSGSRLRAITGWEKLKYVLKRLDITQLSSP
LQVSTAPFTFPSRLIFQRGDKSR*(+)
MENMDKEVKKLRLAEQLYKHYAATAIPKGIHCLSLRLTDEYSSNAHARKQLPPPELLPLLSDNS
FQHYILASDNILAASVVVSSTVRSSSVPHKVVFHVITDKKTYPGMHSWFALNSISPAIVEVKGV
HQFDWLTRENVPVLEAIENHRGVRNHYHGDHAAVSSASDSPRVLASKLQARSPKYISLLNHLRI
YLPELFPNLNKVVFLDDDIVIQRDLSPLWKINLEGKVNGAVETCRGEDNWVMSKRFRTYFNFSH
PVIARSLDPDECAWAYGMNIFDLAAWRKTNIRETYHFWLKEMENMDKEVKKLRLAEQLYKHYAA
TAIPKGIHCLSLRLTDEYSSNAHARKQLPPPELLPLLSDNSFQHYILASDNILAASVVVSSTVR
SSSVPHKVVFHVITDKKTYPGMHSWFALNSISPAIVEVKGVHQFDWLTRENVPVLEAIENHRGV
RNHYHGDHAAVSSASDSPRVLASKLQARSPKYISLLNHLRIYLPELFPNLNKVVFLDDDIVIQR
DLSPLWKINLEGKVNGAVETCRGEDNWVMSKRFRTYFNFSHPVIARSLDPDECAWAYGMNIFDL
AAWRKTNIRETYHFWLKEMENMDKEVKKLRLAEQLYKHYAATAIPKGIHCLSLRLTDEYSSNAH
ARKQLPPPELLPLLSDNSFQHYILASDNILAASVVVSSTVRSSSVPHKVVFHVITDKKTYPGMH
SWFALNSISPAIVEVKGVHQFDWLTRENVPVLEAIENHRGVRNHYHGDHAAVSSASDSPRVLAS
KLQARSPKYISLLNHLRIYLPELFPNLNKVVFLDDDIVIQRDLSPLWKINLEGKVNGAVETCRG
EDNWVMSKRFRTYFNFSHPVIARSLDPDECAWAYGMNIFDLAAWRKTNIRETYHFWLKEMENMD
KEVKKLRLAEQLYKHYAATAIPKGIHCLSLRLTDEYSSNAHARKQLPPPELLPLLSDNSFQHYI
LASDNILAASVVVSSTVRSSSVPHKVVFHVITDKKTYPGMHSWFALNSISPAIVEVKGVHQFDW
LTRENVPVLEAIENHRGVRNHYHGDHAAVSSASDSPRVLASKLQARSPKYISLLNHLRIYLPEL
FPNLNKVVFLDDDIVIQRDLSPLWKINLEGKVNGAVETCRGEDNWVMSKRFRTYFNFSHPVIAR
SLDPDECAWAYGMNIFDLAAWRKTNIRETYHFWLKE(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5832344-5831170(+) 5832355-5830923(-)
Potential amino acid sequence	MFSISFNQKWYVSLMFVFLQAAKSNIFIPYAHAHSSGSRLRAITGWEKLKYVLKRLDITQLSSP LQVSTAPFTFPSRLIFQRGDKSR*(+) MENMDKEVKKLRLAEQLYKHYAATAIPKGIHCLSLRLTDEYSSNAHARKQLPPPELLPLLSDNS FQHYILASDNILAASVVVSSTVRSSSVPHKVVFHVITDKKTYPGMHSWFALNSISPAIVEVKGV HQFDWLTRENVPVLEAIENHRGVRNHYHGDHAAVSSASDSPRVLASKLQARSPKYISLLNHLRI YLPELFPNLNKVVFLDDDIVIQRDLSPLWKINLEGKVNGAVETCRGEDNWVMSKRFRTYFNFSH PVIARSLDPDECAWAYGMNIFDLAAWRKTNIRETYHFWLKEMENMDKEVKKLRLAEQLYKHYAA TAIPKGIHCLSLRLTDEYSSNAHARKQLPPPELLPLLSDNSFQHYILASDNILAASVVVSSTVR SSSVPHKVVFHVITDKKTYPGMHSWFALNSISPAIVEVKGVHQFDWLTRENVPVLEAIENHRGV RNHYHGDHAAVSSASDSPRVLASKLQARSPKYISLLNHLRIYLPELFPNLNKVVFLDDDIVIQR DLSPLWKINLEGKVNGAVETCRGEDNWVMSKRFRTYFNFSHPVIARSLDPDECAWAYGMNIFDL AAWRKTNIRETYHFWLKEMENMDKEVKKLRLAEQLYKHYAATAIPKGIHCLSLRLTDEYSSNAH ARKQLPPPELLPLLSDNSFQHYILASDNILAASVVVSSTVRSSSVPHKVVFHVITDKKTYPGMH SWFALNSISPAIVEVKGVHQFDWLTRENVPVLEAIENHRGVRNHYHGDHAAVSSASDSPRVLAS KLQARSPKYISLLNHLRIYLPELFPNLNKVVFLDDDIVIQRDLSPLWKINLEGKVNGAVETCRG EDNWVMSKRFRTYFNFSHPVIARSLDPDECAWAYGMNIFDLAAWRKTNIRETYHFWLKEMENMD KEVKKLRLAEQLYKHYAATAIPKGIHCLSLRLTDEYSSNAHARKQLPPPELLPLLSDNSFQHYI LASDNILAASVVVSSTVRSSSVPHKVVFHVITDKKTYPGMHSWFALNSISPAIVEVKGVHQFDW LTRENVPVLEAIENHRGVRNHYHGDHAAVSSASDSPRVLASKLQARSPKYISLLNHLRIYLPEL FPNLNKVVFLDDDIVIQRDLSPLWKINLEGKVNGAVETCRGEDNWVMSKRFRTYFNFSHPVIAR SLDPDECAWAYGMNIFDLAAWRKTNIRETYHFWLKE(-)
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 Os03g0211800_circ_g.1

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