Plant Circular RNA Database

Detail information of GLYMA_07G148100_circ_g.2

			
						 General Information
					
						CircRNA Name
						GLYMA_07G148100_circ_g.2
					
						ID in PlantcircBase
						gma_circ_008456
					
						Alias
						novel_circ_000101
					
						Organism
						
							Glycine max						
					
						Position
						
							chr7: 17805317-17805555  JBrowse»						
					
						Reference genome
						
							v2.0.38						
					
						Type  
						
							ie-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							GLYMA_07G148100						
					
						Parent gene annotation
						
							hypothetical protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						root
					
						Exon boundary  
						
							No-No							"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  
						
							GG-CC							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
						KRH49336:1
KRH49348:1
KRH49346:1
KRH49329:1
KRH49338:1
KRH49327:1
KRH49349:1
KRH49347:1
KRH49341:1
KRH49326:1
KRH49339:1
KRH49337:1
KRH49328:1
KRH49331:1
KRH49330:1
KRH49335:1
KRH49333:1
KRH49334:1
KRH49340:1
KRH49345:1
KRH49343:1
KRH49344:1
KRH49342:1
KRH49350:1
KRH49332:1

General Information
CircRNA Name	GLYMA_07G148100_circ_g.2
ID in PlantcircBase	gma_circ_008456
Alias	novel_circ_000101
Organism	Glycine max
Position	chr7: 17805317-17805555 JBrowse»
Reference genome	v2.0.38
Type	ie-circRNA
Identification method	find_circ
Parent gene	GLYMA_07G148100
Parent gene annotation	hypothetical protein
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	root
Exon boundary	No-No "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	GG-CC 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	KRH49336:1 KRH49348:1 KRH49346:1 KRH49329:1 KRH49338:1 KRH49327:1 KRH49349:1 KRH49347:1 KRH49341:1 KRH49326:1 KRH49339:1 KRH49337:1 KRH49328:1 KRH49331:1 KRH49330:1 KRH49335:1 KRH49333:1 KRH49334:1 KRH49340:1 KRH49345:1 KRH49343:1 KRH49344:1 KRH49342:1 KRH49350:1 KRH49332:1

			
						 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  
						
							AACTACGAAGAGCATTCTCTGCAGCTTGTTGTTGAGCATCCTTCCTTGTCCTACCCATACCAAC
ACCTATTTTCTCACCAGTGAATAGTACCTAAACCCAgtatcatattattgactgactatttata
tccctatgttccaaaaattttgtcttcattacaaaggaacaaatgctatacaaacaatataatc
agaacaca

						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
						
							GTATCATATTATTGACTGACTATTTATATCCCTATGTTCCAAAAATTTTGTCTTCATTACAAAG
GAACAAATGCTATACAAACAATATAATCAGAACACAATTTTGGAATTGGCTCAAACAATTGCTG
TTTACCTGCTAAACTACGAAGAGCATTCTCTGCAGCTTGTTGTTGAGCATCCTTCCTTGTCCTA
CCCATACCAACACCTATTTTCTCACCAGTGAATAGTACCTAAACCCA

Sequences
Splice junction sequence	AACTACGAAGAGCATTCTCTGCAGCTTGTTGTTGAGCATCCTTCCTTGTCCTACCCATACCAAC ACCTATTTTCTCACCAGTGAATAGTACCTAAACCCAgtatcatattattgactgactatttata tccctatgttccaaaaattttgtcttcattacaaaggaacaaatgctatacaaacaatataatc agaacaca
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	GTATCATATTATTGACTGACTATTTATATCCCTATGTTCCAAAAATTTTGTCTTCATTACAAAG GAACAAATGCTATACAAACAATATAATCAGAACACAATTTTGGAATTGGCTCAAACAATTGCTG TTTACCTGCTAAACTACGAAGAGCATTCTCTGCAGCTTGTTGTTGAGCATCCTTCCTTGTCCTA CCCATACCAACACCTATTTTCTCACCAGTGAATAGTACCTAAACCCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.104894805

Conservation Information
Conserved circRNAs	NA
PMCS	0.104894805

			
						 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
						lv et al., 2020

circRNA

Detail information of GLYMA_07G148100_circ_g.2

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