Plant Circular RNA Database

Detail information of AT5G17020_circ_g.23

			
						 General Information
					
						CircRNA Name
						AT5G17020_circ_g.23
					
						ID in PlantcircBase
						ath_circ_038745
					
						Alias
						5:5598328-5600094
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 5598328-5600094  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G17020						
					
						Parent gene annotation
						
							XPO1A
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G17020_circ_g.1 AT5G17020_circ_g.2 AT5G17020_circ_g.3 AT5G17020_circ_g.4 AT5G17020_circ_g.5 AT5G17020_circ_g.6 AT5G17020_circ_g.7 AT5G17020_circ_g.8 AT5G17020_circ_g.9 AT5G17020_circ_g.10 AT5G17020_circ_g.11 AT5G17020_circ_g.12 AT5G17020_circ_g.13 AT5G17020_circ_g.14 AT5G17020_circ_g.15 AT5G17020_circ_g.16 AT5G17020_circ_g.17 AT5G17020_circ_g.18 AT5G17020_circ_g.19 AT5G17020_circ_g.20 AT5G17020_circ_g.21 AT5G17020_circ_g.22 AT5G17020_circ_g.24 AT5G17020_circ_g.25 AT5G17020_circ_g.26 AT5G17020_circ_g.27 AT5G17020_circ_g.28 AT5G17020_circ_g.29 AT5G17020_circ_g.30 AT5G17020_circ_g.31 AT5G17020_circ_g.32 AT5G17020_circ_g.33 AT5G17020_circ_g.34 AT5G17020_circ_g.35 AT5G17020_circ_g.36 AT5G17020_circ_g.37 AT5G17020_circ_g.38 AT5G17020_circ_g.39 AT5G17020_circ_g.40 AT5G17020_circ_g.41 						
					
						Support reads
						2
					
						Tissues
						root
					
						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  
						
							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
						AT5G17020.2:7
AT5G17020.1:7

General Information
CircRNA Name	AT5G17020_circ_g.23
ID in PlantcircBase	ath_circ_038745
Alias	5:5598328-5600094
Organism	Arabidpsis thaliana
Position	chr5: 5598328-5600094 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G17020
Parent gene annotation	XPO1A
Parent gene strand	+
Alternative splicing	AT5G17020_circ_g.1 AT5G17020_circ_g.2 AT5G17020_circ_g.3 AT5G17020_circ_g.4 AT5G17020_circ_g.5 AT5G17020_circ_g.6 AT5G17020_circ_g.7 AT5G17020_circ_g.8 AT5G17020_circ_g.9 AT5G17020_circ_g.10 AT5G17020_circ_g.11 AT5G17020_circ_g.12 AT5G17020_circ_g.13 AT5G17020_circ_g.14 AT5G17020_circ_g.15 AT5G17020_circ_g.16 AT5G17020_circ_g.17 AT5G17020_circ_g.18 AT5G17020_circ_g.19 AT5G17020_circ_g.20 AT5G17020_circ_g.21 AT5G17020_circ_g.22 AT5G17020_circ_g.24 AT5G17020_circ_g.25 AT5G17020_circ_g.26 AT5G17020_circ_g.27 AT5G17020_circ_g.28 AT5G17020_circ_g.29 AT5G17020_circ_g.30 AT5G17020_circ_g.31 AT5G17020_circ_g.32 AT5G17020_circ_g.33 AT5G17020_circ_g.34 AT5G17020_circ_g.35 AT5G17020_circ_g.36 AT5G17020_circ_g.37 AT5G17020_circ_g.38 AT5G17020_circ_g.39 AT5G17020_circ_g.40 AT5G17020_circ_g.41
Support reads	2
Tissues	root
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	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	AT5G17020.2:7 AT5G17020.1:7

			
						 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  
						
							TCGTTTCTCTTTTCTCCAGGTTGGTAATATGATCCAAGCAGAATCAGATCCTCAGAAGAGAGAT
GAATATCTCCAGAGGTTGATGGCACTCCCCAACCAGataatgcgggagacattaatctacctct
cacaccttgaccatgatgataccgagaagcaggtacagtgtcaccatgatgataccggtctatg
cgtattaa

									
								

					

						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
						
							ATAATGCGGGAGACATTAATCTACCTCTCACACCTTGACCATGATGATACCGAGAAGCAGGTAC
AGTGTCACCATGATGATACCGGTCTATGCGTATTAATTTGTGAAATATTGAGGATTAGCAGTCT
TATGATCAAGTATGCTTTTTATCAAATGAGTTTCTCCTTGTTATAGTGTGAATTATCATATTAG
TACTGCTAACTTTAGCAATTTTAACATGGACCTGTTATAAGATATGAGATTTTCTGGTAGATAT
GTAAGCTTACTTTGGTCTGTTCCATGCTGTTTTGCTGATGTGAACTTCGGATTGTTCCTTTAAA
AGATGTTGAGGAAGCTAAACAAACAATTAAGTGGGGAGGAATGGGCATGGAACAATTTGAACAC
TTTGTGCTGGGCTATTGGGTCTATTTCCGGATCTATGGCAGAAGATCAGGTAAAATCTTTTGCT
ATGCTTCACCTGACTGCAAATTCTTTTCATAACCGTAGAAGTTCTTGTTTGTAATGCTGCACCT
CTCCATCTGTGGGCTAGTATGCCATAACTTAATTCAAGAAAGTTTGACAGTGTCAACCTTCAAT
GTTAATTGTTTCTTTCATTAACCTCCCATTTCATGAGATATCATTATCGGCCTGACTGCTCCAT
ACTTTGCTCTGGAAGGTTTACATTGTTAATTCTGTGCTAACAATTGTTAAATTCCATTTTTTCT
TCAGGAAAACAGGTTTTTGGTGATGGTCATTCGTGATTTGTTGAATTTATGTGAAATTACCAAG
GGAAAAGACAATAAAGCCGTTATTGCAAGCAACATCATGTAAGTTTGTTACTACAGCTGAATTT
CTGCCTAGGTTGTTGTACTTCTATCATCTTATATTTTCTATTTCTTTCAAGGCGATGTTAGATT
TTTTTTGGTTAAGTATGACCTCTCTGTTCTGCTGTCGCTGGGTTGCAGGTATGTCGTTGGCCAG
TATCCAAGATTCTTAAGGGCCCATTGGAAGTTTTTGAAGACAGTTGTGAACAAGTTGTTTGAAT
TCATGCATGAAACACATCCTGGTGTTCAGGTAGCTGGTCCCAATCTTTATAGTTTATATATTAT
GAGATACAGTTTTCCAGGTGGAATCTCAGATAAAATGATGTGTTATTCGCTGTTAAAATCCATG
AATAATATATTTTTAAGCTCTTGGAGAATATATTGGTAGCAAAAATATGCTCAAGTTGTTAATT
ACGGTGCTGTAGTTTATTTATAATCGTCTCAAGCTATCTGAAGTCTCTTTTTTGACTGAATATT
CTTTCATAGATTTATAGACCTTGCACCTTCCCAATCACAGATACTTGATACTTATGTTTCCCTT
TCAGGACATGGCCTGTGATACATTCTTGAAAATAGTTCAAAAGTGCAAGCGAAAATTCGTTATT
GTACAGGTATGTATTGCTGTATTTTTATCCACCGTTAGGTTTTAGTATATCCATTGTCTTCTGA
ATGAGATATTAATTACAGCTCGTTGTTCTTTCAGGTTGGAGAGAATGAACCATTTGTATCTGAA
CTTCTAACAGGCCTTGCAACAACTGTTCAAGATCTTGAGCCTCATCAAATACACTCATTTTATG
AATCAGTAAGTTTTCCAGAAATATTATTCGCATGCCAATCAGAGCAAATTTTCCTGTTGTGATC
TCATCGTTTCTCTTTTCTCCAGGTTGGTAATATGATCCAAGCAGAATCAGATCCTCAGAAGAGA
GATGAATATCTCCAGAGGTTGATGGCACTCCCCAACCAG
						
					

			
		

Sequences
Splice junction sequence	TCGTTTCTCTTTTCTCCAGGTTGGTAATATGATCCAAGCAGAATCAGATCCTCAGAAGAGAGAT GAATATCTCCAGAGGTTGATGGCACTCCCCAACCAGataatgcgggagacattaatctacctct cacaccttgaccatgatgataccgagaagcaggtacagtgtcaccatgatgataccggtctatg cgtattaa
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	ATAATGCGGGAGACATTAATCTACCTCTCACACCTTGACCATGATGATACCGAGAAGCAGGTAC AGTGTCACCATGATGATACCGGTCTATGCGTATTAATTTGTGAAATATTGAGGATTAGCAGTCT TATGATCAAGTATGCTTTTTATCAAATGAGTTTCTCCTTGTTATAGTGTGAATTATCATATTAG TACTGCTAACTTTAGCAATTTTAACATGGACCTGTTATAAGATATGAGATTTTCTGGTAGATAT GTAAGCTTACTTTGGTCTGTTCCATGCTGTTTTGCTGATGTGAACTTCGGATTGTTCCTTTAAA AGATGTTGAGGAAGCTAAACAAACAATTAAGTGGGGAGGAATGGGCATGGAACAATTTGAACAC TTTGTGCTGGGCTATTGGGTCTATTTCCGGATCTATGGCAGAAGATCAGGTAAAATCTTTTGCT ATGCTTCACCTGACTGCAAATTCTTTTCATAACCGTAGAAGTTCTTGTTTGTAATGCTGCACCT CTCCATCTGTGGGCTAGTATGCCATAACTTAATTCAAGAAAGTTTGACAGTGTCAACCTTCAAT GTTAATTGTTTCTTTCATTAACCTCCCATTTCATGAGATATCATTATCGGCCTGACTGCTCCAT ACTTTGCTCTGGAAGGTTTACATTGTTAATTCTGTGCTAACAATTGTTAAATTCCATTTTTTCT TCAGGAAAACAGGTTTTTGGTGATGGTCATTCGTGATTTGTTGAATTTATGTGAAATTACCAAG GGAAAAGACAATAAAGCCGTTATTGCAAGCAACATCATGTAAGTTTGTTACTACAGCTGAATTT CTGCCTAGGTTGTTGTACTTCTATCATCTTATATTTTCTATTTCTTTCAAGGCGATGTTAGATT TTTTTTGGTTAAGTATGACCTCTCTGTTCTGCTGTCGCTGGGTTGCAGGTATGTCGTTGGCCAG TATCCAAGATTCTTAAGGGCCCATTGGAAGTTTTTGAAGACAGTTGTGAACAAGTTGTTTGAAT TCATGCATGAAACACATCCTGGTGTTCAGGTAGCTGGTCCCAATCTTTATAGTTTATATATTAT GAGATACAGTTTTCCAGGTGGAATCTCAGATAAAATGATGTGTTATTCGCTGTTAAAATCCATG AATAATATATTTTTAAGCTCTTGGAGAATATATTGGTAGCAAAAATATGCTCAAGTTGTTAATT ACGGTGCTGTAGTTTATTTATAATCGTCTCAAGCTATCTGAAGTCTCTTTTTTGACTGAATATT CTTTCATAGATTTATAGACCTTGCACCTTCCCAATCACAGATACTTGATACTTATGTTTCCCTT TCAGGACATGGCCTGTGATACATTCTTGAAAATAGTTCAAAAGTGCAAGCGAAAATTCGTTATT GTACAGGTATGTATTGCTGTATTTTTATCCACCGTTAGGTTTTAGTATATCCATTGTCTTCTGA ATGAGATATTAATTACAGCTCGTTGTTCTTTCAGGTTGGAGAGAATGAACCATTTGTATCTGAA CTTCTAACAGGCCTTGCAACAACTGTTCAAGATCTTGAGCCTCATCAAATACACTCATTTTATG AATCAGTAAGTTTTCCAGAAATATTATTCGCATGCCAATCAGAGCAAATTTTCCTGTTGTGATC TCATCGTTTCTCTTTTCTCCAGGTTGGTAATATGATCCAAGCAGAATCAGATCCTCAGAAGAGA GATGAATATCTCCAGAGGTTGATGGCACTCCCCAACCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.146481834

Conservation Information
Conserved circRNAs	NA
PMCS	0.146481834

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

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT5G17020_circ_g.23

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