Plant Circular RNA Database

Detail information of 2_circ_igg.14

			
						 General Information
					
						CircRNA Name
						2_circ_igg.14
					
						ID in PlantcircBase
						ath_circ_013170
					
						Alias
						Ath_circ_FC0032, Ath_circ_FC1186
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 4485015-4493960  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						CIRI, circRNA_finder, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							2_circ_igg.7 2_circ_igg.8 2_circ_igg.9 2_circ_igg.10 2_circ_igg.11 2_circ_igg.12 2_circ_igg.13 2_circ_igg.15 2_circ_igg.16 2_circ_igg.17 2_circ_igg.18 2_circ_igg.19 2_circ_igg.20 2_circ_igg.21 2_circ_igg.22 2_circ_igg.23 2_circ_igg.24 2_circ_igg.25 2_circ_igg.26 2_circ_ig.27 2_circ_ig.28 2_circ_ig.29 						
					
						Support reads
						27
					
						Tissues
						root, aerial, whole_plant
					
						Exon boundary  
						
							Yes-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  
						
							GT-AG							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	2_circ_igg.14
ID in PlantcircBase	ath_circ_013170
Alias	Ath_circ_FC0032, Ath_circ_FC1186
Organism	Arabidpsis thaliana
Position	chr2: 4485015-4493960 JBrowse»
Reference genome	TAIR10.38
Type	igg-circRNA
Identification method	CIRI, circRNA_finder, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	2_circ_igg.7 2_circ_igg.8 2_circ_igg.9 2_circ_igg.10 2_circ_igg.11 2_circ_igg.12 2_circ_igg.13 2_circ_igg.15 2_circ_igg.16 2_circ_igg.17 2_circ_igg.18 2_circ_igg.19 2_circ_igg.20 2_circ_igg.21 2_circ_igg.22 2_circ_igg.23 2_circ_igg.24 2_circ_igg.25 2_circ_igg.26 2_circ_ig.27 2_circ_ig.28 2_circ_ig.29
Support reads	27
Tissues	root, aerial, whole_plant
Exon boundary	Yes-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	GT-AG 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  
						
							GAAGATCGGGCTCATGGGGATGGAGATCGGGGGTTTGCAAGCCGACAAGAAGACGGCGAGGAAC
CTGATTCATCGCTTGGACCAGAGGAGGGAAGTGATTggcagatttcatgtagtgatcaagctct
tctctctctattctagagaaacttcatacacaaacacaactttcaactttcaggaccgttcgaa
gaaactga

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 347
Transcript exons: 4485015-4485153,4486167-4486253,4493840-4493960
GGCAGATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACA
CAACTTTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGG
GAACATCACCGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAAT
CGATTTGGCCCAAAGATCCGGACAAAAAAGCAGGCCTCGAGAAAGGTTATGCCAAGAAGATCGG
GCTCATGGGGATGGAGATCGGGGGTTTGCAAGCCGACAAGAAGACGGCGAGGAACCTGATTCAT
CGCTTGGACCAGAGGAGGGAAGTGATT
Transcript length: 355
Transcript exons: 4485015-4485163,4486159-4486253,4493850-4493960
GGCAGATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACA
CAACTTTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGG
GAACATCACCGTTGATATGGTAGGACCGGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCC
GAAAGAGAGAGAATAAATCGATTTGGCCCAAAGATCCGGACAAAAAAGCAGGGGTTATGCCAAG
AAGATCGGGCTCATGGGGATGGAGATCGGGGGTTTGCAAGCCGACAAGAAGACGGCGAGGAACC
TGATTCATCGCTTGGACCAGAGGAGGGAAGTGATT
						
						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	GAAGATCGGGCTCATGGGGATGGAGATCGGGGGTTTGCAAGCCGACAAGAAGACGGCGAGGAAC CTGATTCATCGCTTGGACCAGAGGAGGGAAGTGATTggcagatttcatgtagtgatcaagctct tctctctctattctagagaaacttcatacacaaacacaactttcaactttcaggaccgttcgaa gaaactga
Assembled circRNA sequence	Yes 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	Transcript length: 347 Transcript exons: 4485015-4485153,4486167-4486253,4493840-4493960 GGCAGATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACA CAACTTTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGG GAACATCACCGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCCGAAAGAGAGAGAATAAAT CGATTTGGCCCAAAGATCCGGACAAAAAAGCAGGCCTCGAGAAAGGTTATGCCAAGAAGATCGG GCTCATGGGGATGGAGATCGGGGGTTTGCAAGCCGACAAGAAGACGGCGAGGAACCTGATTCAT CGCTTGGACCAGAGGAGGGAAGTGATT Transcript length: 355 Transcript exons: 4485015-4485163,4486159-4486253,4493850-4493960 GGCAGATTTCATGTAGTGATCAAGCTCTTCTCTCTCTATTCTAGAGAAACTTCATACACAAACA CAACTTTCAACTTTCAGGACCGTTCGAAGAAACTGAAATTAAAACATGGAAAGGTTCCAGTGGG GAACATCACCGTTGATATGGTAGGACCGGCAAAATTTGAAAGTTTTGAAAGAGAGGTTTGGGCC GAAAGAGAGAGAATAAATCGATTTGGCCCAAAGATCCGGACAAAAAAGCAGGGGTTATGCCAAG AAGATCGGGCTCATGGGGATGGAGATCGGGGGTTTGCAAGCCGACAAGAAGACGGCGAGGAACC TGATTCATCGCTTGGACCAGAGGAGGGAAGTGATT
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
						0.430570764

Conservation Information
Conserved circRNAs	NA
PMCS	0.430570764

			
						 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
						Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of 2_circ_igg.14

Address

Any questions?

Supported by