Plant Circular RNA Database

Detail information of BGIOSGA009895_circ_ig.6

			
						 General Information
					
						CircRNA Name
						BGIOSGA009895_circ_ig.6
					
						ID in PlantcircBase
						osi_circ_013549
					
						Alias
						Chr03:32313192_32313379(MH63RS2), Chr03:32064595_32064781(ZS97RS2), Chr03:32313192_32313379(MH63RS2)
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr3: 33638122-33638308  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						CIRI2, find_circ, CIRI2, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							BGIOSGA009895_circ_ig.1 BGIOSGA009895_circ_ig.2 BGIOSGA009895_circ_ig.3 BGIOSGA009895_circ_ig.4 BGIOSGA009895_circ_ig.5 BGIOSGA009895_circ_ig.7 BGIOSGA009895_circ_ig.8 						
					
						Support reads
						NA
					
						Tissues
						root, leaf, panicle
					
						Exon boundary  
						
							NA-NA							"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-AA							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
						NA

General Information
CircRNA Name	BGIOSGA009895_circ_ig.6
ID in PlantcircBase	osi_circ_013549
Alias	Chr03:32313192_32313379(MH63RS2), Chr03:32064595_32064781(ZS97RS2), Chr03:32313192_32313379(MH63RS2)
Organism	Oryza sativa ssp. indica
Position	chr3: 33638122-33638308 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	ig-circRNA
Identification method	CIRI2, find_circ, CIRI2, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	BGIOSGA009895_circ_ig.1 BGIOSGA009895_circ_ig.2 BGIOSGA009895_circ_ig.3 BGIOSGA009895_circ_ig.4 BGIOSGA009895_circ_ig.5 BGIOSGA009895_circ_ig.7 BGIOSGA009895_circ_ig.8
Support reads	NA
Tissues	root, leaf, panicle
Exon boundary	NA-NA "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-AA 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	NA

			
						 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  
						
							TTGAGCGAAAGCTCTGGCCTCACGTTTCCCTAGAGTGGCAGGCATTGCGTGAGGCTGGCTTCAC
AGAGCAGCGAATACTGTCCGCTTCCAACGggtggtgtggacgttgccgtatggctgcgggcctg
ggttggcagtgccatagatggcccgcccgttccaagttgcgtagttgggccggcggggc

						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
						
							GGTGGTGTGGACGTTGCCGTATGGCTGCGGGCCTGGGTTGGCAGTGCCATAGATGGCCCGCCCG
TTCCAAGTTGCGTAGTTGGGCCGGCGGGGCTTGAGCGAAAGCTCTGGCCTCACGTTTCCCTAGA
GTGGCAGGCATTGCGTGAGGCTGGCTTCACAGAGCAGCGAATACTGTCCGCTTCCAACG

Sequences
Splice junction sequence	TTGAGCGAAAGCTCTGGCCTCACGTTTCCCTAGAGTGGCAGGCATTGCGTGAGGCTGGCTTCAC AGAGCAGCGAATACTGTCCGCTTCCAACGggtggtgtggacgttgccgtatggctgcgggcctg ggttggcagtgccatagatggcccgcccgttccaagttgcgtagttgggccggcggggc
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	GGTGGTGTGGACGTTGCCGTATGGCTGCGGGCCTGGGTTGGCAGTGCCATAGATGGCCCGCCCG TTCCAAGTTGCGTAGTTGGGCCGGCGGGGCTTGAGCGAAAGCTCTGGCCTCACGTTTCCCTAGA GTGGCAGGCATTGCGTGAGGCTGGCTTCACAGAGCAGCGAATACTGTCCGCTTCCAACG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_021490 osa_circ_021475 osa_circ_021469 osa_circ_021464 
osa_circ_021476 osa_circ_021493 osa_circ_021498 osa_circ_021460 
osa_circ_021474 osa_circ_021456 osa_circ_021482 osa_circ_021499 
osa_circ_021463 osa_circ_021514 osa_circ_021500 osa_circ_021517 
osa_circ_021487 osa_circ_021443 osa_circ_021486 osa_circ_021438 
osa_circ_021523 osa_circ_021518 osa_circ_021431 osa_circ_021426 
osa_circ_021522 osa_circ_021492 osa_circ_021519 osa_circ_021455 
osa_circ_021448 osa_circ_021491 osa_circ_021419 osa_circ_021418 
osa_circ_021391 osa_circ_021396 osa_circ_021425 osa_circ_021392 
osa_circ_021393 osa_circ_021384 osa_circ_021454 osa_circ_021395 
osa_circ_021394 osa_circ_021473 osa_circ_021383 osa_circ_021378 
osa_circ_021433 osa_circ_021459 osa_circ_021440 osa_circ_021549 
osa_circ_021548 zma_circ_009869 osa_circ_021541 osa_circ_021540 
osa_circ_021420 osa_circ_021428 osa_circ_021377 osa_circ_021390 
osa_circ_021417 						
					
						PMCS

Conservation Information
Conserved circRNAs	osa_circ_021490 osa_circ_021475 osa_circ_021469 osa_circ_021464 osa_circ_021476 osa_circ_021493 osa_circ_021498 osa_circ_021460 osa_circ_021474 osa_circ_021456 osa_circ_021482 osa_circ_021499 osa_circ_021463 osa_circ_021514 osa_circ_021500 osa_circ_021517 osa_circ_021487 osa_circ_021443 osa_circ_021486 osa_circ_021438 osa_circ_021523 osa_circ_021518 osa_circ_021431 osa_circ_021426 osa_circ_021522 osa_circ_021492 osa_circ_021519 osa_circ_021455 osa_circ_021448 osa_circ_021491 osa_circ_021419 osa_circ_021418 osa_circ_021391 osa_circ_021396 osa_circ_021425 osa_circ_021392 osa_circ_021393 osa_circ_021384 osa_circ_021454 osa_circ_021395 osa_circ_021394 osa_circ_021473 osa_circ_021383 osa_circ_021378 osa_circ_021433 osa_circ_021459 osa_circ_021440 osa_circ_021549 osa_circ_021548 zma_circ_009869 osa_circ_021541 osa_circ_021540 osa_circ_021420 osa_circ_021428 osa_circ_021377 osa_circ_021390 osa_circ_021417
PMCS

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhou et al., 2021

circRNA

Detail information of BGIOSGA009895_circ_ig.6

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