Plant Circular RNA Database

Detail information of BGIOSGA009895_circ_ig.4

			
						 General Information
					
						CircRNA Name
						BGIOSGA009895_circ_ig.4
					
						ID in PlantcircBase
						osi_circ_013547
					
						Alias
						Chr03:32313174_32313432(MH63RS2)
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr3: 33638104-33638361  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						CIRI2
					
						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.5 BGIOSGA009895_circ_ig.6 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  
						
							CT-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.4
ID in PlantcircBase	osi_circ_013547
Alias	Chr03:32313174_32313432(MH63RS2)
Organism	Oryza sativa ssp. indica
Position	chr3: 33638104-33638361 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	ig-circRNA
Identification method	CIRI2
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.5 BGIOSGA009895_circ_ig.6 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	CT-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  
						
							GCGTGAGGCTGGCTTCACAGAGCAGCGAATACTGTCCGCTTCCAACGGTGGAAGGATAACGGGC
CGCCGCACTGCTGGCCCGCTTGGGTCTCGCAGCCTAcccgagcgggggcattaaggtggtgtgg
acgttgccgtatggctgcgggcctgggttggcagtgccatagatggcccgcccgttccaagttg
cgtagttg

						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
						
							CCCGAGCGGGGGCATTAAGGTGGTGTGGACGTTGCCGTATGGCTGCGGGCCTGGGTTGGCAGTG
CCATAGATGGCCCGCCCGTTCCAAGTTGCGTAGTTGGGCCGGCGGGGCTTGAGCGAAAGCTCTG
GCCTCACGTTTCCCTAGAGTGGCAGGCATTGCGTGAGGCTGGCTTCACAGAGCAGCGAATACTG
TCCGCTTCCAACGGTGGAAGGATAACGGGCCGCCGCACTGCTGGCCCGCTTGGGTCTCGCAGCC
TA

Sequences
Splice junction sequence	GCGTGAGGCTGGCTTCACAGAGCAGCGAATACTGTCCGCTTCCAACGGTGGAAGGATAACGGGC CGCCGCACTGCTGGCCCGCTTGGGTCTCGCAGCCTAcccgagcgggggcattaaggtggtgtgg acgttgccgtatggctgcgggcctgggttggcagtgccatagatggcccgcccgttccaagttg cgtagttg
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	CCCGAGCGGGGGCATTAAGGTGGTGTGGACGTTGCCGTATGGCTGCGGGCCTGGGTTGGCAGTG CCATAGATGGCCCGCCCGTTCCAAGTTGCGTAGTTGGGCCGGCGGGGCTTGAGCGAAAGCTCTG GCCTCACGTTTCCCTAGAGTGGCAGGCATTGCGTGAGGCTGGCTTCACAGAGCAGCGAATACTG TCCGCTTCCAACGGTGGAAGGATAACGGGCCGCCGCACTGCTGGCCCGCTTGGGTCTCGCAGCC TA

			
				
						 Conservation Information
					

				
						Conserved circRNAs
						
							osa_circ_021470 osa_circ_021479 osa_circ_021478 osa_circ_021457 
osa_circ_021458 osa_circ_021450 osa_circ_021453 osa_circ_021480 
osa_circ_021484 osa_circ_021485 osa_circ_021427 osa_circ_021489 
osa_circ_031531 osa_circ_031533 osa_circ_031532 osa_circ_031548 
osa_circ_031542 osa_circ_021495 osa_circ_031534 osa_circ_021494 
osa_circ_021444 osa_circ_021504 osa_circ_021422 osa_circ_021503 
osa_circ_021387 osa_circ_021449 osa_circ_021406 osa_circ_021405 
osa_circ_021505 osa_circ_021424 osa_circ_031511 osa_circ_031508 
osa_circ_021441 osa_circ_021506 osa_circ_031506 osa_circ_021407 
osa_circ_021461 osa_circ_021436 osa_circ_021415 osa_circ_031499 
osa_circ_021437 osa_circ_021404 osa_circ_031530 osa_circ_031541 
osa_circ_021386 osa_circ_021429 osa_circ_021421 osa_circ_021379 
osa_circ_021403 osa_circ_021435 osa_circ_021430 osa_circ_021507 
osa_circ_031543 osa_circ_031502 osa_circ_031555 osa_circ_031518 
osa_circ_031535 osa_circ_021434 osa_circ_031529 osa_circ_031517 
osa_circ_021423 osa_circ_031528 osa_circ_031547 osa_circ_031559 
osa_circ_031527 osa_circ_021402 osa_circ_021401 osa_circ_021400 
osa_circ_007399 osa_circ_007419 osa_circ_007416 osa_circ_007398 
osa_circ_007400 ecr_circ_000793 osa_circ_007520 						
					

						PMCS
						
					

			
		

Conservation Information
Conserved circRNAs	osa_circ_021470 osa_circ_021479 osa_circ_021478 osa_circ_021457 osa_circ_021458 osa_circ_021450 osa_circ_021453 osa_circ_021480 osa_circ_021484 osa_circ_021485 osa_circ_021427 osa_circ_021489 osa_circ_031531 osa_circ_031533 osa_circ_031532 osa_circ_031548 osa_circ_031542 osa_circ_021495 osa_circ_031534 osa_circ_021494 osa_circ_021444 osa_circ_021504 osa_circ_021422 osa_circ_021503 osa_circ_021387 osa_circ_021449 osa_circ_021406 osa_circ_021405 osa_circ_021505 osa_circ_021424 osa_circ_031511 osa_circ_031508 osa_circ_021441 osa_circ_021506 osa_circ_031506 osa_circ_021407 osa_circ_021461 osa_circ_021436 osa_circ_021415 osa_circ_031499 osa_circ_021437 osa_circ_021404 osa_circ_031530 osa_circ_031541 osa_circ_021386 osa_circ_021429 osa_circ_021421 osa_circ_021379 osa_circ_021403 osa_circ_021435 osa_circ_021430 osa_circ_021507 osa_circ_031543 osa_circ_031502 osa_circ_031555 osa_circ_031518 osa_circ_031535 osa_circ_021434 osa_circ_031529 osa_circ_031517 osa_circ_021423 osa_circ_031528 osa_circ_031547 osa_circ_031559 osa_circ_031527 osa_circ_021402 osa_circ_021401 osa_circ_021400 osa_circ_007399 osa_circ_007419 osa_circ_007416 osa_circ_007398 osa_circ_007400 ecr_circ_000793 osa_circ_007520
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.4

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