Plant Circular RNA Database

Detail information of BGIOSGA015509_circ_g.2

			
						 General Information
					
						CircRNA Name
						BGIOSGA015509_circ_g.2
					
						ID in PlantcircBase
						osi_circ_005331
					
						Alias
						4:6304364|6312978
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr4: 6304364-6312978  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA015509						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							BGIOSGA015509_circ_g.3 BGIOSGA015509_circ_g.4 						
					
						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  
						
							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
						BGIOSGA015509-TA:11

General Information
CircRNA Name	BGIOSGA015509_circ_g.2
ID in PlantcircBase	osi_circ_005331
Alias	4:6304364\|6312978
Organism	Oryza sativa ssp. indica
Position	chr4: 6304364-6312978 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA015509
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	BGIOSGA015509_circ_g.3 BGIOSGA015509_circ_g.4
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	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	BGIOSGA015509-TA:11

			
						 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  
						
							TTAAAAGCTCTTCTGCAACCAGCTCAAATTCTGATATTGGATTTTCAGACAACCCAAAGCTGAT
GCTACCCTTGCTAAGTAGTCTAATTTGGCCTGTGACctcagccaatgaaagcaaaaaggggaaa
gaagcacagccatcattgtggattgcatttgttgaccggtatgtgatgtcactctcaccaatct
tgactctg

						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
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TTAAAAGCTCTTCTGCAACCAGCTCAAATTCTGATATTGGATTTTCAGACAACCCAAAGCTGAT GCTACCCTTGCTAAGTAGTCTAATTTGGCCTGTGACctcagccaatgaaagcaaaaaggggaaa gaagcacagccatcattgtggattgcatttgttgaccggtatgtgatgtcactctcaccaatct tgactctg
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	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							6312881-6304366(-)
6304421-6312881(-)
6312942-6304541(+)
						
					

						Potential amino acid sequence
						
							MSDSVIKVYGAFRMYVKVLLMWDSEIQIDGGGKDVVLASMLEARNLVVLRHGSVISSNAALGVY
GQGLLNLTGPGDGIKARRLFLSLFYNIEVGPGSFVQAPLDDAVQSSLDALSRCESKTCPSELIT
PPDDCHVNNSLSFTLQICRVEDITVSGIVRGSIIHIHRARTVTVTNNGTISASELGCKEGIGKG
KFLKYGAGGGAGHGGRGGIGIYNGMRSEGGPQYGSADLPCELGSGSGSSESTDNTAGGGLIVVG
SMKWPLSKLLIYGSLSSDGESHRGTKKNSNGTYKGGIGGGSGGTILLFLQGLLLERNSSLSASG
GNGGLIGGGGGGGGRIHFHWSNIATGDEYVQIASVNGLVASSGGSGNDDGHFGETGTVTGKKCP
VGLYGTFCTECPIGTYKNVVGSDSSLCMPCSLDSLPNRADFIYVRGGVTEPSCPYKCISSKYKM
PNCYTPLEELIYTFGGPWSFAIILSFTIILLALVLSALRVKIGESDITYRSTNAIHNDGCASFP
FLLSLAEVTGQIRLLSKGSISFGLSENPISEFELVAEELLMSDSVIKVYGAFRMYVKVLLMWDS
EIQIDGGGKDVVLASMLEARNLVVLRHGSVISSNAALGVYGQGLLNLTGPGDGIKARRLFLSLF
YNIEVGPGSFVQAPLDDAVQSSLDALSRCESKTCPSELITPPDDCHVNNSLSFTLQICRVEDIT
VSGIVRGSIIHIHRARTVTVTNNGTISASELGCKEGIGKGKFLKYGAGGGAGHGGRGGIGIYNG
MRSEGGPQYGSADLPCELGSGSGSSESTDNTAGGGLIVVGSMKWPLSKLLIYGSLSSDGESHRG
TKKNSNGTYKGGIGGGSGGTILLFLQGLLLERNSSLSASGGNGGLIGGGGGGGGRIHFHWSNIA
TGDEYVQIASVNGLVASSGGSGNDDGHFGETGTVTGKKCPVGLYGTFCTECPIGTYKNVVGSDS
SLCMPCSLDSLPNRADFIYVRGGVTEPSCPYKCISSKYKMPNCYTPLEELIYTFGGPWSFAIIL
SFTIILLALVLSALRVKIGESDITYRSTNAIHNDGCASFPFLLSLAEVTGQIRLLSKGSISFGL
SENPISEFELVAEELLMSDSVIKVYGAFRMYVKVLLMWDSEIQIDGGGKDVVLASMLEARNLVV
LRHGSVISSNAALGVYGQGLLNLTGPGDGIKARRLFLSLFYNIEVGPGSFVQAPLDDAVQSSLD
ALSRCESKTCPSELITPPDDCHVNNSLSFTLQICRVEDITVSGIVRGSIIHIHRARTVTVTNNG
TISASELGCKEGIGKGKFLKYGAGGGAGHGGRGGIGIYNGMRSEGGPQYGSADLPCELGSGSGS
SESTDNTAGGGLIVVGSMKWPLSKLLIYGSLSSDGESHRGTKKNSNGTYKGGIGGGSGGTILLF
LQGLLLERNSSLSASGGNGGLIGGGGGGGGRIHFHWSNIATGDEYVQIASVNGLVASSGGSGND
DGHFGETGTVTGKKCPVGLYGTFCTECPIGTYKNVVGSDSSLCMPCSLDSLPNRADFIYVRGGV
TEPSCPYKCISSKYKMPNCYTPLEELIYTFGGPWSFAIILSFTIILLALVLSALRVKIGESDIT
YRSTNAIHNDGCASFPFLLSLAEVTGQIRLLSKGSISFGLSENPISEFELVAEELLMSDSVIKV
YGAFRMYVKVLLMWDSEIQIDGGGKDVVLASMLEARNLVVLRHGSVISSNAALGVYGQGLLNLT
GPGDGIKARRLFLSLFYNIEVGPGSFVQAPLDDAVQSSLDALSRCESKTCPSELITPPDDCHVN
NSLSFTLQICRVEDITVSGIVRGSIIHIHRARTVTVTNNGTISASELGCKEGIGKGKFLKYGAG
GGAGHGGRGGIGIYNGMRSEGGPQYGSADLPCELGSGSGSSESTDNTAGGGLIVVGSMKWPLSK
LLIYGSLSSDGESHRGTKKNSNGTYKGGIGGGSGGTILLFLQGLLLERNSSLSASGGNGGLIGG
GGGGGGRIHFHWSNIATGDEYVQIASVNGLVASSGGSGNDDGHFGETGTVTGKKCPVGLYGTFC
TECPIGTYKNVVGSDSSLCMPCSLDSLPNRADFIYVRGGVTEPSCPYKCISSKYKMPNCYTPLE
ELIYTFGGPWSFAIILSFTIILLALVLSALRVKIGESDITYRSTNAIHNDGCASFPFLLSLAE(
-)
MQSTMMAVLLSPFCFHWLRSQAKLDYLARVASALGCLKIQYQNLSWLQKSF*(-)
MLPLLSSLIWPVTSANESKKGKEAQPSLWIAFVDRYVMSLSPILTLRALKTSAKRIMVKDRIIA
KDQGPPKV*(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	6312881-6304366(-) 6304421-6312881(-) 6312942-6304541(+)
Potential amino acid sequence	MSDSVIKVYGAFRMYVKVLLMWDSEIQIDGGGKDVVLASMLEARNLVVLRHGSVISSNAALGVY GQGLLNLTGPGDGIKARRLFLSLFYNIEVGPGSFVQAPLDDAVQSSLDALSRCESKTCPSELIT PPDDCHVNNSLSFTLQICRVEDITVSGIVRGSIIHIHRARTVTVTNNGTISASELGCKEGIGKG KFLKYGAGGGAGHGGRGGIGIYNGMRSEGGPQYGSADLPCELGSGSGSSESTDNTAGGGLIVVG SMKWPLSKLLIYGSLSSDGESHRGTKKNSNGTYKGGIGGGSGGTILLFLQGLLLERNSSLSASG GNGGLIGGGGGGGGRIHFHWSNIATGDEYVQIASVNGLVASSGGSGNDDGHFGETGTVTGKKCP VGLYGTFCTECPIGTYKNVVGSDSSLCMPCSLDSLPNRADFIYVRGGVTEPSCPYKCISSKYKM PNCYTPLEELIYTFGGPWSFAIILSFTIILLALVLSALRVKIGESDITYRSTNAIHNDGCASFP FLLSLAEVTGQIRLLSKGSISFGLSENPISEFELVAEELLMSDSVIKVYGAFRMYVKVLLMWDS EIQIDGGGKDVVLASMLEARNLVVLRHGSVISSNAALGVYGQGLLNLTGPGDGIKARRLFLSLF YNIEVGPGSFVQAPLDDAVQSSLDALSRCESKTCPSELITPPDDCHVNNSLSFTLQICRVEDIT VSGIVRGSIIHIHRARTVTVTNNGTISASELGCKEGIGKGKFLKYGAGGGAGHGGRGGIGIYNG MRSEGGPQYGSADLPCELGSGSGSSESTDNTAGGGLIVVGSMKWPLSKLLIYGSLSSDGESHRG TKKNSNGTYKGGIGGGSGGTILLFLQGLLLERNSSLSASGGNGGLIGGGGGGGGRIHFHWSNIA TGDEYVQIASVNGLVASSGGSGNDDGHFGETGTVTGKKCPVGLYGTFCTECPIGTYKNVVGSDS SLCMPCSLDSLPNRADFIYVRGGVTEPSCPYKCISSKYKMPNCYTPLEELIYTFGGPWSFAIIL SFTIILLALVLSALRVKIGESDITYRSTNAIHNDGCASFPFLLSLAEVTGQIRLLSKGSISFGL SENPISEFELVAEELLMSDSVIKVYGAFRMYVKVLLMWDSEIQIDGGGKDVVLASMLEARNLVV LRHGSVISSNAALGVYGQGLLNLTGPGDGIKARRLFLSLFYNIEVGPGSFVQAPLDDAVQSSLD ALSRCESKTCPSELITPPDDCHVNNSLSFTLQICRVEDITVSGIVRGSIIHIHRARTVTVTNNG TISASELGCKEGIGKGKFLKYGAGGGAGHGGRGGIGIYNGMRSEGGPQYGSADLPCELGSGSGS SESTDNTAGGGLIVVGSMKWPLSKLLIYGSLSSDGESHRGTKKNSNGTYKGGIGGGSGGTILLF LQGLLLERNSSLSASGGNGGLIGGGGGGGGRIHFHWSNIATGDEYVQIASVNGLVASSGGSGND DGHFGETGTVTGKKCPVGLYGTFCTECPIGTYKNVVGSDSSLCMPCSLDSLPNRADFIYVRGGV TEPSCPYKCISSKYKMPNCYTPLEELIYTFGGPWSFAIILSFTIILLALVLSALRVKIGESDIT YRSTNAIHNDGCASFPFLLSLAEVTGQIRLLSKGSISFGLSENPISEFELVAEELLMSDSVIKV YGAFRMYVKVLLMWDSEIQIDGGGKDVVLASMLEARNLVVLRHGSVISSNAALGVYGQGLLNLT GPGDGIKARRLFLSLFYNIEVGPGSFVQAPLDDAVQSSLDALSRCESKTCPSELITPPDDCHVN NSLSFTLQICRVEDITVSGIVRGSIIHIHRARTVTVTNNGTISASELGCKEGIGKGKFLKYGAG GGAGHGGRGGIGIYNGMRSEGGPQYGSADLPCELGSGSGSSESTDNTAGGGLIVVGSMKWPLSK LLIYGSLSSDGESHRGTKKNSNGTYKGGIGGGSGGTILLFLQGLLLERNSSLSASGGNGGLIGG GGGGGGRIHFHWSNIATGDEYVQIASVNGLVASSGGSGNDDGHFGETGTVTGKKCPVGLYGTFC TECPIGTYKNVVGSDSSLCMPCSLDSLPNRADFIYVRGGVTEPSCPYKCISSKYKMPNCYTPLE ELIYTFGGPWSFAIILSFTIILLALVLSALRVKIGESDITYRSTNAIHNDGCASFPFLLSLAE( -) MQSTMMAVLLSPFCFHWLRSQAKLDYLARVASALGCLKIQYQNLSWLQKSF(-) MLPLLSSLIWPVTSANESKKGKEAQPSLWIAFVDRYVMSLSPILTLRALKTSAKRIMVKDRIIA KDQGPPKV(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA015509_circ_g.2

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