Plant Circular RNA Database

Detail information of BGIOSGA006535_circ_g.4

			
						 General Information
					
						CircRNA Name
						BGIOSGA006535_circ_g.4
					
						ID in PlantcircBase
						osi_circ_003890
					
						Alias
						2:15998211|16010280
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr2: 15998211-16010280  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA006535						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							BGIOSGA006535_circ_g.1 BGIOSGA006535_circ_g.2 BGIOSGA006535_circ_g.3 BGIOSGA006535_circ_g.5 BGIOSGA006535_circ_g.6 BGIOSGA006535_circ_g.7 BGIOSGA006535_circ_g.8 BGIOSGA006535_circ_g.9 BGIOSGA006535_circ_g.10 BGIOSGA006535_circ_g.11 BGIOSGA006535_circ_g.12 BGIOSGA006535_circ_g.13 BGIOSGA006535_circ_g.14 BGIOSGA006535_circ_g.15 BGIOSGA006535_circ_g.16 BGIOSGA006535_circ_g.17 BGIOSGA006535_circ_g.18 BGIOSGA006535_circ_g.19 BGIOSGA006535_circ_g.20 BGIOSGA006535_circ_g.21 BGIOSGA006535_circ_g.22 BGIOSGA006535_circ_g.23 						
					
						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
						BGIOSGA006535-TA:14

General Information
CircRNA Name	BGIOSGA006535_circ_g.4
ID in PlantcircBase	osi_circ_003890
Alias	2:15998211\|16010280
Organism	Oryza sativa ssp. indica
Position	chr2: 15998211-16010280 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA006535
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	BGIOSGA006535_circ_g.1 BGIOSGA006535_circ_g.2 BGIOSGA006535_circ_g.3 BGIOSGA006535_circ_g.5 BGIOSGA006535_circ_g.6 BGIOSGA006535_circ_g.7 BGIOSGA006535_circ_g.8 BGIOSGA006535_circ_g.9 BGIOSGA006535_circ_g.10 BGIOSGA006535_circ_g.11 BGIOSGA006535_circ_g.12 BGIOSGA006535_circ_g.13 BGIOSGA006535_circ_g.14 BGIOSGA006535_circ_g.15 BGIOSGA006535_circ_g.16 BGIOSGA006535_circ_g.17 BGIOSGA006535_circ_g.18 BGIOSGA006535_circ_g.19 BGIOSGA006535_circ_g.20 BGIOSGA006535_circ_g.21 BGIOSGA006535_circ_g.22 BGIOSGA006535_circ_g.23
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	BGIOSGA006535-TA:14

			
						 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  
						
							TGTACATAAGAGGAGATTCAAGTGGCGGTTTATGTTAATTCAGACATACTTCTTGTATAACGGA
TTTCTTCCGGACATGTCATTCAGGAACATCCCAATGcttgaatacccatcatcagagccacgtg
gccgagcccatgtaccacctgtccgtctggatctcatagaatgagctggttggtgagctgggct
agttctga

						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	TGTACATAAGAGGAGATTCAAGTGGCGGTTTATGTTAATTCAGACATACTTCTTGTATAACGGA TTTCTTCCGGACATGTCATTCAGGAACATCCCAATGcttgaatacccatcatcagagccacgtg gccgagcccatgtaccacctgtccgtctggatctcatagaatgagctggttggtgagctgggct agttctga
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
						
							16010275-15998213(-)
16010108-15998279(+)
						
					

						Potential amino acid sequence
						
							MFLNDMSGRNPLYKKAYVFFSSPIQKELVTQIKKDSSVLPRIGALSEMNLEYFAIDSQGFTTDH
ERALEELFSENALDSHKYNACLNTMATRISTVFASMREFPRVHYRVAKTIDASVTTTLRDLVPT
KLAAAVWNCLSKLKTSIPDYPQTETCELLIVDRSVDQIAPIIHEWTYDAMCHDLLCMDGNKYVH
EVPSKNGSSTEKKDVLLEDHDPIWVELRHAHIADASERLHDKMSNFVSKNKAAQLQQARTGGEI
SNRDLQKMVQALPQYSDQIEKLSLHVEIAGKLNSIIREQGLRDVGQLEQDLVFGDAGTKELINF
LRTQLGVSRENKLRLLMIYAAINPEKFESDKGEKLMQLAGLSTDDMIAVSNMRCLCGPDTKKSS
GGGFTLKFDVHKKKHGLRKERTGEESTWALSRFYPVLEDLIEKLSKGELPKDEYYCMNDPSPSF
HGLPMSSSVRTSPAHQPAHSMRSRRTGGTWARPRGSDDGYSSIGMFLNDMSGRNPLYKKAYVFF
SSPIQKELVTQIKKDSSVLPRIGALSEMNLEYFAIDSQGFTTDHERALEELFSENALDSHKYNA
CLNTMATRISTVFASMREFPRVHYRVAKTIDASVTTTLRDLVPTKLAAAVWNCLSKLKTSIPDY
PQTETCELLIVDRSVDQIAPIIHEWTYDAMCHDLLCMDGNKYVHEVPSKNGSSTEKKDVLLEDH
DPIWVELRHAHIADASERLHDKMSNFVSKNKAAQLQQARTGGEISNRDLQKMVQALPQYSDQIE
KLSLHVEIAGKLNSIIREQGLRDVGQLEQDLVFGDAGTKELINFLRTQLGVSRENKLRLLMIYA
AINPEKFESDKGEKLMQLAGLSTDDMIAVSNMRCLCGPDTKKSSGGGFTLKFDVHKKKHGLRKE
RTGEESTWALSRFYPVLEDLIEKLSKGELPKDEYYCMNDPSPSFHGLPMSSSVRTSPAHQPAHS
MRSRRTGGTWARPRGSDDGYSSIGMFLNDMSGRNPLYKKAYVFFSSPIQKELVTQIKKDSSVLP
RIGALSEMNLEYFAIDSQGFTTDHERALEELFSENALDSHKYNACLNTMATRISTVFASMREFP
RVHYRVAKTIDASVTTTLRDLVPTKLAAAVWNCLSKLKTSIPDYPQTETCELLIVDRSVDQIAP
IIHEWTYDAMCHDLLCMDGNKYVHEVPSKNGSSTEKKDVLLEDHDPIWVELRHAHIADASERLH
DKMSNFVSKNKAAQLQQARTGGEISNRDLQKMVQALPQYSDQIEKLSLHVEIAGKLNSIIREQG
LRDVGQLEQDLVFGDAGTKELINFLRTQLGVSRENKLRLLMIYAAINPEKFESDKGEKLMQLAG
LSTDDMIAVSNMRCLCGPDTKKSSGGGFTLKFDVHKKKHGLRKERTGEESTWALSRFYPVLEDL
IEKLSKGELPKDEYYCMNDPSPSFHGLPMSSSVRTSPAHQPAHSMRSRRTGGTWARPRGSDDGY
SSIGMFLNDMSGRNPLYKKAYVFFSSPIQKELVTQIKKDSSVLPRIGALSEMNLEYFAIDSQGF
TTDHERALEELFSENALDSHKYNACLNTMATRISTVFASMREFPRVHYRVAKTIDASVTTTLRD
LVPTKLAAAVWNCLSKLKTSIPDYPQTETCELLIVDRSVDQIAPIIHEWTYDAMCHDLLCMDGN
KYVHEVPSKNGSSTEKKDVLLEDHDPIWVELRHAHIADASERLHDKMSNFVSKNKAAQLQQART
GGEISNRDLQKMVQALPQYSDQIEKLSLHVEIAGKLNSIIREQGLRDVGQLEQDLVFGDAGTKE
LINFLRTQLGVSRENKLRLLMIYAAINPEKFESDKGEKLMQLAGLSTDDMIAVSNMRCLCGPDT
KKSSGGGFTLKFDVHKKKHGLRKERTGEESTWALSRFYPVLEDLIEKLSKGELPKDEYYCMNDP
SPSFHGLPMSSSVRTSPAHQPAHSMRSRRTGGTWARPRGSDDGYS(-)
MGELKNTYAFLYNGFLPDMSFRNIPMLEYPSSEPRGRAHVPPVRLDLIE*(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	16010275-15998213(-) 16010108-15998279(+)
Potential amino acid sequence	MFLNDMSGRNPLYKKAYVFFSSPIQKELVTQIKKDSSVLPRIGALSEMNLEYFAIDSQGFTTDH ERALEELFSENALDSHKYNACLNTMATRISTVFASMREFPRVHYRVAKTIDASVTTTLRDLVPT KLAAAVWNCLSKLKTSIPDYPQTETCELLIVDRSVDQIAPIIHEWTYDAMCHDLLCMDGNKYVH EVPSKNGSSTEKKDVLLEDHDPIWVELRHAHIADASERLHDKMSNFVSKNKAAQLQQARTGGEI SNRDLQKMVQALPQYSDQIEKLSLHVEIAGKLNSIIREQGLRDVGQLEQDLVFGDAGTKELINF LRTQLGVSRENKLRLLMIYAAINPEKFESDKGEKLMQLAGLSTDDMIAVSNMRCLCGPDTKKSS GGGFTLKFDVHKKKHGLRKERTGEESTWALSRFYPVLEDLIEKLSKGELPKDEYYCMNDPSPSF HGLPMSSSVRTSPAHQPAHSMRSRRTGGTWARPRGSDDGYSSIGMFLNDMSGRNPLYKKAYVFF SSPIQKELVTQIKKDSSVLPRIGALSEMNLEYFAIDSQGFTTDHERALEELFSENALDSHKYNA CLNTMATRISTVFASMREFPRVHYRVAKTIDASVTTTLRDLVPTKLAAAVWNCLSKLKTSIPDY PQTETCELLIVDRSVDQIAPIIHEWTYDAMCHDLLCMDGNKYVHEVPSKNGSSTEKKDVLLEDH DPIWVELRHAHIADASERLHDKMSNFVSKNKAAQLQQARTGGEISNRDLQKMVQALPQYSDQIE KLSLHVEIAGKLNSIIREQGLRDVGQLEQDLVFGDAGTKELINFLRTQLGVSRENKLRLLMIYA AINPEKFESDKGEKLMQLAGLSTDDMIAVSNMRCLCGPDTKKSSGGGFTLKFDVHKKKHGLRKE RTGEESTWALSRFYPVLEDLIEKLSKGELPKDEYYCMNDPSPSFHGLPMSSSVRTSPAHQPAHS MRSRRTGGTWARPRGSDDGYSSIGMFLNDMSGRNPLYKKAYVFFSSPIQKELVTQIKKDSSVLP RIGALSEMNLEYFAIDSQGFTTDHERALEELFSENALDSHKYNACLNTMATRISTVFASMREFP RVHYRVAKTIDASVTTTLRDLVPTKLAAAVWNCLSKLKTSIPDYPQTETCELLIVDRSVDQIAP IIHEWTYDAMCHDLLCMDGNKYVHEVPSKNGSSTEKKDVLLEDHDPIWVELRHAHIADASERLH DKMSNFVSKNKAAQLQQARTGGEISNRDLQKMVQALPQYSDQIEKLSLHVEIAGKLNSIIREQG LRDVGQLEQDLVFGDAGTKELINFLRTQLGVSRENKLRLLMIYAAINPEKFESDKGEKLMQLAG LSTDDMIAVSNMRCLCGPDTKKSSGGGFTLKFDVHKKKHGLRKERTGEESTWALSRFYPVLEDL IEKLSKGELPKDEYYCMNDPSPSFHGLPMSSSVRTSPAHQPAHSMRSRRTGGTWARPRGSDDGY SSIGMFLNDMSGRNPLYKKAYVFFSSPIQKELVTQIKKDSSVLPRIGALSEMNLEYFAIDSQGF TTDHERALEELFSENALDSHKYNACLNTMATRISTVFASMREFPRVHYRVAKTIDASVTTTLRD LVPTKLAAAVWNCLSKLKTSIPDYPQTETCELLIVDRSVDQIAPIIHEWTYDAMCHDLLCMDGN KYVHEVPSKNGSSTEKKDVLLEDHDPIWVELRHAHIADASERLHDKMSNFVSKNKAAQLQQART GGEISNRDLQKMVQALPQYSDQIEKLSLHVEIAGKLNSIIREQGLRDVGQLEQDLVFGDAGTKE LINFLRTQLGVSRENKLRLLMIYAAINPEKFESDKGEKLMQLAGLSTDDMIAVSNMRCLCGPDT KKSSGGGFTLKFDVHKKKHGLRKERTGEESTWALSRFYPVLEDLIEKLSKGELPKDEYYCMNDP SPSFHGLPMSSSVRTSPAHQPAHSMRSRRTGGTWARPRGSDDGYS(-) MGELKNTYAFLYNGFLPDMSFRNIPMLEYPSSEPRGRAHVPPVRLDLIE*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA006535_circ_g.4

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