Plant Circular RNA Database

Detail information of AT5G45600_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G45600_circ_g.1
					
						ID in PlantcircBase
						ath_circ_042562
					
						Alias
						5:18488751-18489472
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 18488751-18489472  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G45600						
					
						Parent gene annotation
						
							Transcription initiation factor TFIID subunit 14b
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						leaf
					
						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
						AT5G45600.2:3
AT5G45600.1:3

General Information
CircRNA Name	AT5G45600_circ_g.1
ID in PlantcircBase	ath_circ_042562
Alias	5:18488751-18489472
Organism	Arabidpsis thaliana
Position	chr5: 18488751-18489472 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G45600
Parent gene annotation	Transcription initiation factor TFIID subunit 14b
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	leaf
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	AT5G45600.2:3 AT5G45600.1:3

			
						 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  
						
							AAAGAAGAGAGGTGATACGAAAGATCATAGTTTGGGACAATGGTTCATGAGTTTCTCTGAAGCA
GATGAGTTATTACAGCTTGCAGCTGCTCGTCAACAGgtatcaatctcacaagtgggcagtatat
gttcgaggggcaacaaatgaagatatcagtgttgtagtaaagaaagttgtatttcagcttcatt
ctagtttc

						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: 532
Transcript exons: 18488751-18488972,18489070-18489257,18489351-18489472
GTATCAATCTCACAAGTGGGCAGTATATGTTCGAGGGGCAACAAATGAAGATATCAGTGTTGTA
GTAAAGAAAGTTGTATTTCAGCTTCATTCTAGTTTCAATAGCCCGACTAGAGTTATCGAGGAGC
CTCCATTCGAGGTATCGGAATCTGGTTGGGGAGAATTCGAGATTGCAATGACATTGCATTTCCA
CAGTGATGTCTGTGATAAGCCATTGAGTTTATATCATCATTTAAAGCTATACCCTGAAGATGAA
TCAGGTCCTTTGACAATGAAGAAGCCTGTGGTTGTGGAATCTTATGACGAGATTGTCTTTCCTG
ATCCTTCAGAAAGTTTTTTAGCTAGGGTTCAGAATCATCCGGCTTTGACCTTTCCAAGATTACC
CTCTGGTTACAACTTGCCTGCTCCTATGCAAGTCGAAGATACCGGGAAAAAGAAGAGAGGTGAT
ACGAAAGATCATAGTTTGGGACAATGGTTCATGAGTTTCTCTGAAGCAGATGAGTTATTACAGC
TTGCAGCTGCTCGTCAACAG
						
						Genomic sequence
						
							GTATCAATCTCACAAGTGGGCAGTATATGTTCGAGGGGCAACAAATGAAGATATCAGTGTTGTA
GTAAAGAAAGTTGTATTTCAGCTTCATTCTAGTTTCAATAGCCCGACTAGAGTTATCGAGGAGC
CTCCATTCGAGGTATCGGAATCTGGTTGGGGAGAATTCGAGATTGCAATGACATTGCATTTCCA
CAGTGATGTCTGTGATAAGCCATTGAGTTTGTAAGTCCCTTTCAATAGCATTGTTGTTAAGTAG
GAAAATGCCAGCAATTGGAAGAGTTACTTATGAGTTATTTGTTGTTTTGGGTGGATACAACAGA
TATCATCATTTAAAGCTATACCCTGAAGATGAATCAGGTCCTTTGACAATGAAGAAGCCTGTGG
TTGTGGAATCTTATGACGAGATTGTCTTTCCTGATCCTTCAGAAAGTTTTTTAGCTAGGGTTCA
GAATCATCCGGCTTTGACCTTTCCAAGATTACCCTCTGGTTACAACTTGCCTGCTCCTAGTATG
ATCTCCTTATCTAAAGCTTTTTTCATTCCTTAGTTTAAGTTGATCATTGCCTTAAAATGTCGTC
TCACACAACAAATCTTATGACTAGTGCAAGTCGAAGATACCGGGAAAAAGAAGAGAGGTGATAC
GAAAGATCATAGTTTGGGACAATGGTTCATGAGTTTCTCTGAAGCAGATGAGTTATTACAGCTT
GCAGCTGCTCGTCAACAG

Sequences
Splice junction sequence	AAAGAAGAGAGGTGATACGAAAGATCATAGTTTGGGACAATGGTTCATGAGTTTCTCTGAAGCA GATGAGTTATTACAGCTTGCAGCTGCTCGTCAACAGgtatcaatctcacaagtgggcagtatat gttcgaggggcaacaaatgaagatatcagtgttgtagtaaagaaagttgtatttcagcttcatt ctagtttc
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: 532 Transcript exons: 18488751-18488972,18489070-18489257,18489351-18489472 GTATCAATCTCACAAGTGGGCAGTATATGTTCGAGGGGCAACAAATGAAGATATCAGTGTTGTA GTAAAGAAAGTTGTATTTCAGCTTCATTCTAGTTTCAATAGCCCGACTAGAGTTATCGAGGAGC CTCCATTCGAGGTATCGGAATCTGGTTGGGGAGAATTCGAGATTGCAATGACATTGCATTTCCA CAGTGATGTCTGTGATAAGCCATTGAGTTTATATCATCATTTAAAGCTATACCCTGAAGATGAA TCAGGTCCTTTGACAATGAAGAAGCCTGTGGTTGTGGAATCTTATGACGAGATTGTCTTTCCTG ATCCTTCAGAAAGTTTTTTAGCTAGGGTTCAGAATCATCCGGCTTTGACCTTTCCAAGATTACC CTCTGGTTACAACTTGCCTGCTCCTATGCAAGTCGAAGATACCGGGAAAAAGAAGAGAGGTGAT ACGAAAGATCATAGTTTGGGACAATGGTTCATGAGTTTCTCTGAAGCAGATGAGTTATTACAGC TTGCAGCTGCTCGTCAACAG
Genomic sequence	GTATCAATCTCACAAGTGGGCAGTATATGTTCGAGGGGCAACAAATGAAGATATCAGTGTTGTA GTAAAGAAAGTTGTATTTCAGCTTCATTCTAGTTTCAATAGCCCGACTAGAGTTATCGAGGAGC CTCCATTCGAGGTATCGGAATCTGGTTGGGGAGAATTCGAGATTGCAATGACATTGCATTTCCA CAGTGATGTCTGTGATAAGCCATTGAGTTTGTAAGTCCCTTTCAATAGCATTGTTGTTAAGTAG GAAAATGCCAGCAATTGGAAGAGTTACTTATGAGTTATTTGTTGTTTTGGGTGGATACAACAGA TATCATCATTTAAAGCTATACCCTGAAGATGAATCAGGTCCTTTGACAATGAAGAAGCCTGTGG TTGTGGAATCTTATGACGAGATTGTCTTTCCTGATCCTTCAGAAAGTTTTTTAGCTAGGGTTCA GAATCATCCGGCTTTGACCTTTCCAAGATTACCCTCTGGTTACAACTTGCCTGCTCCTAGTATG ATCTCCTTATCTAAAGCTTTTTTCATTCCTTAGTTTAAGTTGATCATTGCCTTAAAATGTCGTC TCACACAACAAATCTTATGACTAGTGCAAGTCGAAGATACCGGGAAAAAGAAGAGAGGTGATAC GAAAGATCATAGTTTGGGACAATGGTTCATGAGTTTCTCTGAAGCAGATGAGTTATTACAGCTT GCAGCTGCTCGTCAACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.240067623

Conservation Information
Conserved circRNAs	NA
PMCS	0.240067623

			
						 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 AT5G45600_circ_g.1

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