Plant Circular RNA Database

Detail information of AT1G44350_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G44350_circ_g.2
					
						ID in PlantcircBase
						ath_circ_005998
					
						Alias
						1:16835871-16837064
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 16835871-16837064  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G44350						
					
						Parent gene annotation
						
							IAA-amino acid hydrolase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G44350_circ_g.1 						
					
						Support reads
						1/2/3
					
						Tissues
						leaf;flower
					
						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  
						
							CT-AC							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
						AT1G44350.1:3

General Information
CircRNA Name	AT1G44350_circ_g.2
ID in PlantcircBase	ath_circ_005998
Alias	1:16835871-16837064
Organism	Arabidpsis thaliana
Position	chr1: 16835871-16837064 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G44350
Parent gene annotation	IAA-amino acid hydrolase
Parent gene strand	-
Alternative splicing	AT1G44350_circ_g.1
Support reads	1/2/3
Tissues	leaf;flower
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	CT-AC 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	AT1G44350.1:3

			
						 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  
						
							GAATATGGGCAGCACCAAGAAGCATAGTCACATGTGCGTCATGACCACATGCATGCATTTTGCC
TGCAACTTTGCTTATATGTTCCCATTCAACTGCTTCctcttgaatacgtttcttgaggtagtag
aagcttgagttagaaaaagctctgaaagtaccaccgaggaccaccgtgtccggcgccacatcga
gactatga

									
								

					

						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: 555
Transcript exons: 16835871-16835999,16836075-16836374,16836939-16837064
CTCTTGAATACGTTTCTTGAGGTAGTAGAAGCTTGAGTTAGAAAAAGCTCTGAAAGTACCACCG
AGGACCACCGTGTCCGGCGCCACATCGAGACTATGACCGCCATCAAATGAAGTAACCGACACAA
CCTGAGAGTCAAGAGGACTAGCTTCACGGGATACAATGCCTTGAAGACTAATGACCGCGGAAGA
AGCTGCAAGAAGGAGATTAGCGGCGCCACGGCTATCTTCCGAAGTGATAACCGCCCGGAAAATT
CCACATCCCGCGAGCAAAGGACCACTTCTTGATCCAATCACACCCGTTGGATGGATATGGGACA
CATGGACCGCGAAGATAGCCTCCACGTCATCCAAAGCTCCGTCTTCGATCATATTCTTTGCACC
ATTTCCAGCTTCTTCAGCCGGTTGGAATAACAGAACCACTGTTCCCTTGAGAAGATGTTCACGA
GCCTTAAGAATATGGGCAGCACCAAGAAGCATAGTCACATGTGCGTCATGACCACATGCATGCA
TTTTGCCTGCAACTTTGCTTATATGTTCCCATTCAACTGCTTC
						
					

						Genomic sequence
						
							CTCTTGAATACGTTTCTTGAGGTAGTAGAAGCTTGAGTTAGAAAAAGCTCTGAAAGTACCACCG
AGGACCACCGTGTCCGGCGCCACATCGAGACTATGACCGCCATCAAATGAAGTAACCGACACAA
CCTACAACTCGAGAAAATGGGAATCAGAATTAAGCTATAAATTTTCAAATATCTGGTTGTGGAT
TTTATGAAGTACCTGAGAGTCAAGAGGACTAGCTTCACGGGATACAATGCCTTGAAGACTAATG
ACCGCGGAAGAAGCTGCAAGAAGGAGATTAGCGGCGCCACGGCTATCTTCCGAAGTGATAACCG
CCCGGAAAATTCCACATCCCGCGAGCAAAGGACCACTTCTTGATCCAATCACACCCGTTGGATG
GATATGGGACACATGGACCGCGAAGATAGCCTCCACGTCATCCAAAGCTCCGTCTTCGATCATA
TTCTTTGCACCATTTCCAGCTTCTTCAGCCGGTTGGAATAACAGAACCACTGTTCCCTATAAAA
AAATCATACATGCAACAAAAGGGACTAATTTATTTGCTTTGATCTCCGGTCCAACGAAACCATG
GGCCTAAAGACCATAACTCCTCTATTACACCAAAAAAATAAAATAAAAATTAAATGATTTCCCT
TATCTTCAAAAGCAAATCATTAATTCACATCAGTTGTCATTATAGCACAACAAACAGTGACCCA
CCAAGAAATAAAGTTTAGAAATCTCATCCACTTTTAAATAAGTTATAAAACAATGTTATGAAAA
ACAGTGATAGGAGCCAAAGCCTTAGACTTAGATCTTGTAATCGTAGCCGTTGATTAACGTGGGG
AAAAAAGGAAATATGTAAGCAAACTTTCTCTTAACCCTAGTCTCTCTTGGAAGTTAAGGTTAAT
TCTTGGGAGTTTTTTTGTTTATTAAGATGAAGATACCTTATATAGGCCACAATACTTTGTGTAA
AAAAGAAAACTCCTAAAACCAATATTAAAAGAAACCCATAAAACCAAAATTAAGCCAAAACACC
AAAACTCTTAACTCGTATAAAAAGCATAGAGTTTGATGAAGTACCTTGAGAAGATGTTCACGAG
CCTTAAGAATATGGGCAGCACCAAGAAGCATAGTCACATGTGCGTCATGACCACATGCATGCAT
TTTGCCTGCAACTTTGCTTATATGTTCCCATTCAACTGCTTC
						
					

			
		

Sequences
Splice junction sequence	GAATATGGGCAGCACCAAGAAGCATAGTCACATGTGCGTCATGACCACATGCATGCATTTTGCC TGCAACTTTGCTTATATGTTCCCATTCAACTGCTTCctcttgaatacgtttcttgaggtagtag aagcttgagttagaaaaagctctgaaagtaccaccgaggaccaccgtgtccggcgccacatcga gactatga
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: 555 Transcript exons: 16835871-16835999,16836075-16836374,16836939-16837064 CTCTTGAATACGTTTCTTGAGGTAGTAGAAGCTTGAGTTAGAAAAAGCTCTGAAAGTACCACCG AGGACCACCGTGTCCGGCGCCACATCGAGACTATGACCGCCATCAAATGAAGTAACCGACACAA CCTGAGAGTCAAGAGGACTAGCTTCACGGGATACAATGCCTTGAAGACTAATGACCGCGGAAGA AGCTGCAAGAAGGAGATTAGCGGCGCCACGGCTATCTTCCGAAGTGATAACCGCCCGGAAAATT CCACATCCCGCGAGCAAAGGACCACTTCTTGATCCAATCACACCCGTTGGATGGATATGGGACA CATGGACCGCGAAGATAGCCTCCACGTCATCCAAAGCTCCGTCTTCGATCATATTCTTTGCACC ATTTCCAGCTTCTTCAGCCGGTTGGAATAACAGAACCACTGTTCCCTTGAGAAGATGTTCACGA GCCTTAAGAATATGGGCAGCACCAAGAAGCATAGTCACATGTGCGTCATGACCACATGCATGCA TTTTGCCTGCAACTTTGCTTATATGTTCCCATTCAACTGCTTC
Genomic sequence	CTCTTGAATACGTTTCTTGAGGTAGTAGAAGCTTGAGTTAGAAAAAGCTCTGAAAGTACCACCG AGGACCACCGTGTCCGGCGCCACATCGAGACTATGACCGCCATCAAATGAAGTAACCGACACAA CCTACAACTCGAGAAAATGGGAATCAGAATTAAGCTATAAATTTTCAAATATCTGGTTGTGGAT TTTATGAAGTACCTGAGAGTCAAGAGGACTAGCTTCACGGGATACAATGCCTTGAAGACTAATG ACCGCGGAAGAAGCTGCAAGAAGGAGATTAGCGGCGCCACGGCTATCTTCCGAAGTGATAACCG CCCGGAAAATTCCACATCCCGCGAGCAAAGGACCACTTCTTGATCCAATCACACCCGTTGGATG GATATGGGACACATGGACCGCGAAGATAGCCTCCACGTCATCCAAAGCTCCGTCTTCGATCATA TTCTTTGCACCATTTCCAGCTTCTTCAGCCGGTTGGAATAACAGAACCACTGTTCCCTATAAAA AAATCATACATGCAACAAAAGGGACTAATTTATTTGCTTTGATCTCCGGTCCAACGAAACCATG GGCCTAAAGACCATAACTCCTCTATTACACCAAAAAAATAAAATAAAAATTAAATGATTTCCCT TATCTTCAAAAGCAAATCATTAATTCACATCAGTTGTCATTATAGCACAACAAACAGTGACCCA CCAAGAAATAAAGTTTAGAAATCTCATCCACTTTTAAATAAGTTATAAAACAATGTTATGAAAA ACAGTGATAGGAGCCAAAGCCTTAGACTTAGATCTTGTAATCGTAGCCGTTGATTAACGTGGGG AAAAAAGGAAATATGTAAGCAAACTTTCTCTTAACCCTAGTCTCTCTTGGAAGTTAAGGTTAAT TCTTGGGAGTTTTTTTGTTTATTAAGATGAAGATACCTTATATAGGCCACAATACTTTGTGTAA AAAAGAAAACTCCTAAAACCAATATTAAAAGAAACCCATAAAACCAAAATTAAGCCAAAACACC AAAACTCTTAACTCGTATAAAAAGCATAGAGTTTGATGAAGTACCTTGAGAAGATGTTCACGAG CCTTAAGAATATGGGCAGCACCAAGAAGCATAGTCACATGTGCGTCATGACCACATGCATGCAT TTTGCCTGCAACTTTGCTTATATGTTCCCATTCAACTGCTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.200080558

Conservation Information
Conserved circRNAs	NA
PMCS	0.200080558

			
						 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 AT1G44350_circ_g.2

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