Plant Circular RNA Database

Detail information of BGIOSGA015918_circ_g.1

			
						 General Information
					
						CircRNA Name
						BGIOSGA015918_circ_g.1
					
						ID in PlantcircBase
						osi_circ_005317
					
						Alias
						4:4585307|4588022
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr4: 4585307-4588022  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA015918						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							BGIOSGA015918_circ_g.2 BGIOSGA015918_circ_g.3 BGIOSGA015918_circ_g.4 BGIOSGA015918_circ_g.5 BGIOSGA015918_circ_g.6 						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						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
						BGIOSGA015918-TA:5

General Information
CircRNA Name	BGIOSGA015918_circ_g.1
ID in PlantcircBase	osi_circ_005317
Alias	4:4585307\|4588022
Organism	Oryza sativa ssp. indica
Position	chr4: 4585307-4588022 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA015918
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	BGIOSGA015918_circ_g.2 BGIOSGA015918_circ_g.3 BGIOSGA015918_circ_g.4 BGIOSGA015918_circ_g.5 BGIOSGA015918_circ_g.6
Support reads	NA
Tissues	leaf
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	BGIOSGA015918-TA:5

			
						 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  
						
							GCCATCATTATCTTTTGAGGTGGTCCAACGTGTTGTTGAAATATTGAAGCTCTTCAACACTAGG
ACGTGCCAACTGGTTCTTGGTGCAGGTGCAATGCAGgtacatctagtgcaagcagctgaagtta
aaagaatagttgaatggatcatgggaaacctcgaggggagcttaagttctgatgcttcaaattc
tgtacaaa

									
								

					

						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
						
							GTACATCTAGTGCAAGCAGCTGAAGTTAAAAGAATAGTTGAATGGATCATGGGAAACCTCGAGG
GGAGCTTAAGTTCTGATGCTTCAAATTCTGTACAAAAGCACAGTGGCTCGGTTTCTGATTTTTC
CCAAGAAAATGACCACGGTGTCACTTCACGGGTGTCTAATACTCTTACCAGGAGTAATTCTAAG
TTTCCCTTCTTTCAAGGAAAAACGAATGACATGTCCAGTACAAATTCAATAAAGAATGTCCGGT
AAGTTAAGGTGCAACTAGTTATTAAATCTTGCATTCACATGGGCTAGATATCATATACATCCGC
ATCAAAACTCTATGGAAAAACATATTTGAACTTTTTTTTAGGTTTGGAATAAAAATATTTTTAT
GAATAGATCCAAAATTAAAAATTAGGAGCTACAAAAGTTATATATAGAATCCATCCGAATATAG
TTTTTGTTACTTTCTGTTTTTCTGGTTATTCTGAAATTTGAAATTAATAATTACAAAATCGTAC
CTGACATGGACTTTTGTTGTAATCTGAACCACTGTAATTTCGTCCCACCTTGAGGAATGGCTAG
ATTTTATTTTTCACCTTTTTCTGATAAATGCGAAAAATACCTCAGTTTGCCTAAAAGAACCTCC
CTTTGTCCCAAAATATAGCTAGTTCTAAAGTTTTTCACTTCTATATTTTGGGACACCCTTTTGT
ACTCTAGAAGTAGCTATAGTTTGGGACAAAAAATTGAATGCTAGAAGTAGCTATATTTTGGGAT
GGAGGGAGTAGATATGCTTTTTATGTTATGTTAGCTGATGTCATGGTAGTGCTGTGGACAGATT
CAATACAAAATTAGAATATTGGGTCAAATTCTAGGCTTTACCTCTTTTATATCATAATTATATT
TGACAACACAATTGCTCTCTAATATTTGCCTTTGGTACAGAGCTGATGTCTTGAGAGAAAACAC
AGAAGCTGTTTTTGCTGCATGTGATGCTGCCCATGGACGATGGGCTAAACTTCTTGGTGTTCGT
GCTGCCCTTCACCCCAAATTAAGACTTCAGGAGTTCTTGATCATCTATAATGTAACAGAAGAAT
TTGTAGCTGCCACTGAAAAGGTTATTTCTTTTCCTGTTTGAAAAATATGCACAAACGCTCATTA
TGCTCATCACTGCATACATGCAAGTTATGACTTTATTGTATCTTCTTATTCCTGTAGATTGGAG
GCAGGTTGGGTTACAACATCCGTGGAATTGTACAACAACAATCAAAGCAATTTGTTGACTATCA
GCATACTGTCCGGGTGAGTGATAAAATTTGTTGACTATCAGCATTTGTTGAATTCTACAATGGT
AAACAACTTGCATGAGTTTACTGATGATGAAAAATTAAAAGGCCATTCTTCAAATGTCATCTAT
AAGGAGAGAATAATATTAAATATAAGACTACAAAGCATCATTGTACACAAACTTCAATGGATAA
TTGTGCTATTTTGAAAGAATATAAATCACTCAACTTTATCCCTGACCCCTCAGTTATAGATATC
CATCAAATTGAATATAATGCTGTACCTTTATTATGCTTTTTAATTGGAGAATATTACTTGCGGA
AAGTGCATTTCACCATCAAATACCCTGAGTAAAATGGTAGTGCAAACGGAGAATGTAAGGCTTA
AACAAGTACTTCCTCCGGTTCACAATGTAAGTCATTCTAGCATTTCCCACATTCATATTGAAAA
ATATGAATGTGGGAATTTCAATATGAATGTGGGAAATGCTAGAATGACTTACATTGTGAAACGG
AGGGAGTACTACTCAACAATTGACACTATAGTTTGTGAAACAATTAACATTATTAGGTGTCACT
GCTGCTTTTTTTTGCTACTCAACAATCATCATAAATACAAATTTCAAGGTTGTGCAAACAACTG
TGATTTGGATTTCAGACTGATATGTACTTTGTCTGCAGTTGATGCACAACTTATAGTATTTTTG
TGCACTAAAACTTCTAATATTCTTTTGAAGATGGCAAAAATCAAGGCAGTTCTTGACCAAGAGA
CATGGGTTGCTATTGATGTTCCAGAAGAGTTCCAAGCAATTGTTCTATCACTATCATCCACTTA
TTCCGTTGCTAATGGCATGGAGATGCCTAGCACTGATGACAGCTCAAAGCTCCATGAAAATCGG
GTTACAAGTCAAGAACCAGTAAATTCAGCTGAAAATAATACTGATAATGGCAACGCAGTATCTA
CTTCTCCTTCGACTGAAAACAATGTTGGGCATGCTAGATCAACACAGCAAACCATTGTGCATGG
GGGTGTAGGCTATCATATGGTAAACTGGTTAGTCATCTATATTTTCTACTTAATAGTTCAGGTC
AAGTTGCATTCTCTTCTTGCGCACCTTGCAGTGTTGCAACGTGACACTTTTATTTCCCAACATT
TTGATAGCTAGAGTCGTAAACCATCCCTCTATTGATTTGTGGTCAACCTTGTTTTATTTGTTGT
GTCTTTTTGTTAACTTGTGTTCTCATTACGTGAGATTCTCAATTTAAATCATGTTCACCCTTGC
AGTGGTTTGATATTGTTGAAGATGTTATCGGAATATGTTGACATCAGTAAATGCTTGCCATCAT
TATCTTTTGAGGTGGTCCAACGTGTTGTTGAAATATTGAAGCTCTTCAACACTAGGACGTGCCA
ACTGGTTCTTGGTGCAGGTGCAATGCAG
						
					

			
		

Sequences
Splice junction sequence	GCCATCATTATCTTTTGAGGTGGTCCAACGTGTTGTTGAAATATTGAAGCTCTTCAACACTAGG ACGTGCCAACTGGTTCTTGGTGCAGGTGCAATGCAGgtacatctagtgcaagcagctgaagtta aaagaatagttgaatggatcatgggaaacctcgaggggagcttaagttctgatgcttcaaattc tgtacaaa
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	GTACATCTAGTGCAAGCAGCTGAAGTTAAAAGAATAGTTGAATGGATCATGGGAAACCTCGAGG GGAGCTTAAGTTCTGATGCTTCAAATTCTGTACAAAAGCACAGTGGCTCGGTTTCTGATTTTTC CCAAGAAAATGACCACGGTGTCACTTCACGGGTGTCTAATACTCTTACCAGGAGTAATTCTAAG TTTCCCTTCTTTCAAGGAAAAACGAATGACATGTCCAGTACAAATTCAATAAAGAATGTCCGGT AAGTTAAGGTGCAACTAGTTATTAAATCTTGCATTCACATGGGCTAGATATCATATACATCCGC ATCAAAACTCTATGGAAAAACATATTTGAACTTTTTTTTAGGTTTGGAATAAAAATATTTTTAT GAATAGATCCAAAATTAAAAATTAGGAGCTACAAAAGTTATATATAGAATCCATCCGAATATAG TTTTTGTTACTTTCTGTTTTTCTGGTTATTCTGAAATTTGAAATTAATAATTACAAAATCGTAC CTGACATGGACTTTTGTTGTAATCTGAACCACTGTAATTTCGTCCCACCTTGAGGAATGGCTAG ATTTTATTTTTCACCTTTTTCTGATAAATGCGAAAAATACCTCAGTTTGCCTAAAAGAACCTCC CTTTGTCCCAAAATATAGCTAGTTCTAAAGTTTTTCACTTCTATATTTTGGGACACCCTTTTGT ACTCTAGAAGTAGCTATAGTTTGGGACAAAAAATTGAATGCTAGAAGTAGCTATATTTTGGGAT GGAGGGAGTAGATATGCTTTTTATGTTATGTTAGCTGATGTCATGGTAGTGCTGTGGACAGATT CAATACAAAATTAGAATATTGGGTCAAATTCTAGGCTTTACCTCTTTTATATCATAATTATATT TGACAACACAATTGCTCTCTAATATTTGCCTTTGGTACAGAGCTGATGTCTTGAGAGAAAACAC AGAAGCTGTTTTTGCTGCATGTGATGCTGCCCATGGACGATGGGCTAAACTTCTTGGTGTTCGT GCTGCCCTTCACCCCAAATTAAGACTTCAGGAGTTCTTGATCATCTATAATGTAACAGAAGAAT TTGTAGCTGCCACTGAAAAGGTTATTTCTTTTCCTGTTTGAAAAATATGCACAAACGCTCATTA TGCTCATCACTGCATACATGCAAGTTATGACTTTATTGTATCTTCTTATTCCTGTAGATTGGAG GCAGGTTGGGTTACAACATCCGTGGAATTGTACAACAACAATCAAAGCAATTTGTTGACTATCA GCATACTGTCCGGGTGAGTGATAAAATTTGTTGACTATCAGCATTTGTTGAATTCTACAATGGT AAACAACTTGCATGAGTTTACTGATGATGAAAAATTAAAAGGCCATTCTTCAAATGTCATCTAT AAGGAGAGAATAATATTAAATATAAGACTACAAAGCATCATTGTACACAAACTTCAATGGATAA TTGTGCTATTTTGAAAGAATATAAATCACTCAACTTTATCCCTGACCCCTCAGTTATAGATATC CATCAAATTGAATATAATGCTGTACCTTTATTATGCTTTTTAATTGGAGAATATTACTTGCGGA AAGTGCATTTCACCATCAAATACCCTGAGTAAAATGGTAGTGCAAACGGAGAATGTAAGGCTTA AACAAGTACTTCCTCCGGTTCACAATGTAAGTCATTCTAGCATTTCCCACATTCATATTGAAAA ATATGAATGTGGGAATTTCAATATGAATGTGGGAAATGCTAGAATGACTTACATTGTGAAACGG AGGGAGTACTACTCAACAATTGACACTATAGTTTGTGAAACAATTAACATTATTAGGTGTCACT GCTGCTTTTTTTTGCTACTCAACAATCATCATAAATACAAATTTCAAGGTTGTGCAAACAACTG TGATTTGGATTTCAGACTGATATGTACTTTGTCTGCAGTTGATGCACAACTTATAGTATTTTTG TGCACTAAAACTTCTAATATTCTTTTGAAGATGGCAAAAATCAAGGCAGTTCTTGACCAAGAGA CATGGGTTGCTATTGATGTTCCAGAAGAGTTCCAAGCAATTGTTCTATCACTATCATCCACTTA TTCCGTTGCTAATGGCATGGAGATGCCTAGCACTGATGACAGCTCAAAGCTCCATGAAAATCGG GTTACAAGTCAAGAACCAGTAAATTCAGCTGAAAATAATACTGATAATGGCAACGCAGTATCTA CTTCTCCTTCGACTGAAAACAATGTTGGGCATGCTAGATCAACACAGCAAACCATTGTGCATGG GGGTGTAGGCTATCATATGGTAAACTGGTTAGTCATCTATATTTTCTACTTAATAGTTCAGGTC AAGTTGCATTCTCTTCTTGCGCACCTTGCAGTGTTGCAACGTGACACTTTTATTTCCCAACATT TTGATAGCTAGAGTCGTAAACCATCCCTCTATTGATTTGTGGTCAACCTTGTTTTATTTGTTGT GTCTTTTTGTTAACTTGTGTTCTCATTACGTGAGATTCTCAATTTAAATCATGTTCACCCTTGC AGTGGTTTGATATTGTTGAAGATGTTATCGGAATATGTTGACATCAGTAAATGCTTGCCATCAT TATCTTTTGAGGTGGTCCAACGTGTTGTTGAAATATTGAAGCTCTTCAACACTAGGACGTGCCA ACTGGTTCTTGGTGCAGGTGCAATGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_023093* 						
					
						PMCS

Conservation Information
Conserved circRNAs	osa_circ_023093*
PMCS

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							4585314-4587932(-)
4585358-4587625(-)
4585356-4588019(+)
						
					

						Potential amino acid sequence
						
							MYLHCTCTKNQLARPSVEELQYFNNTLDHLKR*(-)
MIHSTILLTSAACTRCTCIAPAPRTSWHVLVLKSFNISTTRWTTSKDNDGKHLLMSTYSDNIFN
NIKPQFTI*(-)
MGNLEGSLSSDASNSVQKHSGSVSDFSQENDHGVTSRVSNTLTRSNSKFPFFQGKTNDMSSTNS
IKNVRADVLRENTEAVFAACDAAHGRWAKLLGVRAALHPKLRLQEFLIIYNVTEEFVAATEKIG
GRLGYNIRGIVQQQSKQFVDYQHTVRMAKIKAVLDQETWVAIDVPEEFQAIVLSLSSTYSVANG
MEMPSTDDSSKLHENRVTSQEPVNSAENNTDNGNAVSTSPSTENNVGHARSTQQTIVHGGVGYH
MVNCGLILLKMLSEYVDISKCLPSLSFEVVQRVVEILKLFNTRTCQLVLGAGAMQVHLVQAAEV
KRIVEWIMGNLEGSLSSDASNSVQKHSGSVSDFSQENDHGVTSRVSNTLTRSNSKFPFFQGKTN
DMSSTNSIKNVRADVLRENTEAVFAACDAAHGRWAKLLGVRAALHPKLRLQEFLIIYNVTEEFV
AATEKIGGRLGYNIRGIVQQQSKQFVDYQHTVRMAKIKAVLDQETWVAIDVPEEFQAIVLSLSS
TYSVANGMEMPSTDDSSKLHENRVTSQEPVNSAENNTDNGNAVSTSPSTENNVGHARSTQQTIV
HGGVGYHMVNCGLILLKMLSEYVDISKCLPSLSFEVVQRVVEILKLFNTRTCQLVLGAGAMQVH
LVQAAEVKRIVEWIMGNLEGSLSSDASNSVQKHSGSVSDFSQENDHGVTSRVSNTLTRSNSKFP
FFQGKTNDMSSTNSIKNVRADVLRENTEAVFAACDAAHGRWAKLLGVRAALHPKLRLQEFLIIY
NVTEEFVAATEKIGGRLGYNIRGIVQQQSKQFVDYQHTVRMAKIKAVLDQETWVAIDVPEEFQA
IVLSLSSTYSVANGMEMPSTDDSSKLHENRVTSQEPVNSAENNTDNGNAVSTSPSTENNVGHAR
STQQTIVHGGVGYHMVNCGLILLKMLSEYVDISKCLPSLSFEVVQRVVEILKLFNTRTCQLVLG
AGAMQVHLVQAAEVKRIVEWIMGNLEGSLSSDASNSVQKHSGSVSDFSQENDHGVTSRVSNTLT
RSNSKFPFFQGKTNDMSSTNSIKNVRADVLRENTEAVFAACDAAHGRWAKLLGVRAALHPKLRL
QEFLIIYNVTEEFVAATEKIGGRLGYNIRGIVQQQSKQFVDYQHTVRMAKIKAVLDQETWVAID
VPEEFQAIVLSLSSTYSVANGMEMPSTDDSSKLHENRVTSQEPVNSAENNTDNGNAVSTSPSTE
NNVGHARSTQQTIVHGGVGYHMVNCGLILLKMLSEYVDISKCLPSLSFEVVQRVVEILKLFNTR
TCQLVLGAGAMQ(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	4585314-4587932(-) 4585358-4587625(-) 4585356-4588019(+)
Potential amino acid sequence	MYLHCTCTKNQLARPSVEELQYFNNTLDHLKR(-) MIHSTILLTSAACTRCTCIAPAPRTSWHVLVLKSFNISTTRWTTSKDNDGKHLLMSTYSDNIFN NIKPQFTI(-) MGNLEGSLSSDASNSVQKHSGSVSDFSQENDHGVTSRVSNTLTRSNSKFPFFQGKTNDMSSTNS IKNVRADVLRENTEAVFAACDAAHGRWAKLLGVRAALHPKLRLQEFLIIYNVTEEFVAATEKIG GRLGYNIRGIVQQQSKQFVDYQHTVRMAKIKAVLDQETWVAIDVPEEFQAIVLSLSSTYSVANG MEMPSTDDSSKLHENRVTSQEPVNSAENNTDNGNAVSTSPSTENNVGHARSTQQTIVHGGVGYH MVNCGLILLKMLSEYVDISKCLPSLSFEVVQRVVEILKLFNTRTCQLVLGAGAMQVHLVQAAEV KRIVEWIMGNLEGSLSSDASNSVQKHSGSVSDFSQENDHGVTSRVSNTLTRSNSKFPFFQGKTN DMSSTNSIKNVRADVLRENTEAVFAACDAAHGRWAKLLGVRAALHPKLRLQEFLIIYNVTEEFV AATEKIGGRLGYNIRGIVQQQSKQFVDYQHTVRMAKIKAVLDQETWVAIDVPEEFQAIVLSLSS TYSVANGMEMPSTDDSSKLHENRVTSQEPVNSAENNTDNGNAVSTSPSTENNVGHARSTQQTIV HGGVGYHMVNCGLILLKMLSEYVDISKCLPSLSFEVVQRVVEILKLFNTRTCQLVLGAGAMQVH LVQAAEVKRIVEWIMGNLEGSLSSDASNSVQKHSGSVSDFSQENDHGVTSRVSNTLTRSNSKFP FFQGKTNDMSSTNSIKNVRADVLRENTEAVFAACDAAHGRWAKLLGVRAALHPKLRLQEFLIIY NVTEEFVAATEKIGGRLGYNIRGIVQQQSKQFVDYQHTVRMAKIKAVLDQETWVAIDVPEEFQA IVLSLSSTYSVANGMEMPSTDDSSKLHENRVTSQEPVNSAENNTDNGNAVSTSPSTENNVGHAR STQQTIVHGGVGYHMVNCGLILLKMLSEYVDISKCLPSLSFEVVQRVVEILKLFNTRTCQLVLG AGAMQVHLVQAAEVKRIVEWIMGNLEGSLSSDASNSVQKHSGSVSDFSQENDHGVTSRVSNTLT RSNSKFPFFQGKTNDMSSTNSIKNVRADVLRENTEAVFAACDAAHGRWAKLLGVRAALHPKLRL QEFLIIYNVTEEFVAATEKIGGRLGYNIRGIVQQQSKQFVDYQHTVRMAKIKAVLDQETWVAID VPEEFQAIVLSLSSTYSVANGMEMPSTDDSSKLHENRVTSQEPVNSAENNTDNGNAVSTSPSTE NNVGHARSTQQTIVHGGVGYHMVNCGLILLKMLSEYVDISKCLPSLSFEVVQRVVEILKLFNTR TCQLVLGAGAMQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA015918_circ_g.1

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