Plant Circular RNA Database

Detail information of AT1G24070_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G24070_circ_g.1
					
						ID in PlantcircBase
						ath_circ_004117
					
						Alias
						1:8516389-8518215
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 8516389-8518215  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G24070						
					
						Parent gene annotation
						
							Probable mannan synthase 10
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G24070_circ_g.2 AT1G24070_circ_g.3 						
					
						Support reads
						4
					
						Tissues
						seedling
					
						Exon boundary  
						
							No-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
						AT1G24070.2:4
AT1G24070.1:5

General Information
CircRNA Name	AT1G24070_circ_g.1
ID in PlantcircBase	ath_circ_004117
Alias	1:8516389-8518215
Organism	Arabidpsis thaliana
Position	chr1: 8516389-8518215 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G24070
Parent gene annotation	Probable mannan synthase 10
Parent gene strand	-
Alternative splicing	AT1G24070_circ_g.2 AT1G24070_circ_g.3
Support reads	4
Tissues	seedling
Exon boundary	No-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	AT1G24070.2:4 AT1G24070.1:5

			
						 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  
						
							AGACCAGCACGAACGGCCAAGTCCATGTCCTCTACAGTAGTCCGGTCATGCCATCCTCCAGCTT
CTTCCATCGCGGCCATTCTCCATACACCCGCAGTTCttgttgaagagctagacactaaaattga
ggtctaaatgtgatcgatatttaagtgccgacaaagccaactccagatatgagaaaagcaaccg
cttgcatg

									
								

					

						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
						
							TTGTTGAAGAGCTAGACACTAAAATTGAGGTCTAAATGTGATCGATATTTAAGTGCCGACAAAG
CCAACTCCAGATATGAGAAAAGCAACCGCTTGCATGAAGAGATAGAGATATAACAATGTGTTCC
CAAAGAAAAGTCCATAGCAAGCACAACACAAGATGTATATCCCCACCATTATCTCCTTGGAGTT
TACTCTGCAACCAACCAAACTCTTTAGCAAACATTAGTGTAGATATATTATTTTTTAACTAGTT
GATTAATTTAGTTACCTTTCAAGAAACATGTTACTAGGTTTTCCAATCCTAGGAAGTAGCTTAG
TCTTAAGAGCATCTCCTAATTTCTCAGTGACAACCCATTCGTTCACTCTTTGTCTTTCGAGTAT
GCCGATGAAAGTTCCTTTTGTCCGGTGCATAGACATTACGTTTTCAAACAAGATCCAAAATATC
ACGAGGTAGAATGATCTAGGAAATGAGATAATCCATTGTAAATAACGATATACAATATACAATT
AGGTGATATATTTATCGATCAAGATGAATTAGGAAGTAGTAACTAACCTTGGTGTCGCAATGAC
AATGCAGAGAGTGATCATAGAGGGAATGTAAAAAGTTGACCAAGCTGGAATGTTGACTTCGGGA
AAGAAGACACTTGTAGGAAGAATAACACAGTAGAAAATAAAAGTGAAGCAGTGGACTATGATCT
TCCGTAAGAAAAAGAAGCTGTAGACCAGATACAACTTCTTCCAAATCGTCACTCTCTGCTCATT
AAGTCATTATTACATAGATTTGTAGATTAAGGTTAGATATCTACTCATGAATTAATTATTTGTT
TTAGAGTAATCTTTTAATACGACTCGGTTTAACTAAACCCGAACCAAATAATACTAGATTGAAC
CAAACCGGTCTTCTAACCCATCAGATTACCAAATCAAATGCAACATTTTTTTTGTGTGTGTGCA
TCTTCTTAAAGCATAAAAGAAACAACAAAACAGAAGAAAAAATCAATCCCCATCGAAGTGACCA
ATCAAAACAAAAAATATTGTACGTCAGCCTCACATCACATGGCCTGTTTGTCTCTCCATATTAA
CAAGATGAACAAAAAACCAAAGTAGTTATTGGACGTGTGACAAAAAAAATTGTGGGCACGTTTT
TGTCAAGATTAAATAAGTAGATTGAGAAAAGGACCTTATTGCGAATAATCTCCATAATCATTTT
CCTGAAGAGATTAGCTGGACCACAAGACCATCGATGTTGCTGGAATCTAAAGGCCTTAAACTTG
CTTGGTAACTCGCTTTTCACCTACAAACTCAGTGTTCATATACATAATGTAATGATTATAATTT
AGTAATTATTATTTTATAGCAATGCATCACTATATATATATATAGAATTATAGATATCATTGCA
CATCAAGACAAGAGTGCCACACTAGTCAGAAACTATGTCCATAACCAAATTCTATAAAATCTAC
CACAATAACTATAGTTCAAAAGGGGAGTTTCTATGTGACTTTAATAAAGTTATAGTTTCAAAAG
TGGAAGCATACAAAAAAAAAGTGGGAGTGTCTATGTAAAGAAAGCACTAGTAAATGTTGGATAT
TAAATCCACATGGGAACAGTTACATAATGTACGAAAGATGCAATGAGGGCTTATTTACAGCAAT
TAATAGGTAGGGATAAAATCAAGTACCGTGAGGTCATTGAGAAAGACAAATTTCCAGCCGAGAA
GACCAGCACGAACGGCCAAGTCCATGTCCTCTACAGTAGTCCGGTCATGCCATCCTCCAGCTTC
TTCCATCGCGGCCATTCTCCATACACCCGCAGTTC
						
					

			
		

Sequences
Splice junction sequence	AGACCAGCACGAACGGCCAAGTCCATGTCCTCTACAGTAGTCCGGTCATGCCATCCTCCAGCTT CTTCCATCGCGGCCATTCTCCATACACCCGCAGTTCttgttgaagagctagacactaaaattga ggtctaaatgtgatcgatatttaagtgccgacaaagccaactccagatatgagaaaagcaaccg cttgcatg
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	TTGTTGAAGAGCTAGACACTAAAATTGAGGTCTAAATGTGATCGATATTTAAGTGCCGACAAAG CCAACTCCAGATATGAGAAAAGCAACCGCTTGCATGAAGAGATAGAGATATAACAATGTGTTCC CAAAGAAAAGTCCATAGCAAGCACAACACAAGATGTATATCCCCACCATTATCTCCTTGGAGTT TACTCTGCAACCAACCAAACTCTTTAGCAAACATTAGTGTAGATATATTATTTTTTAACTAGTT GATTAATTTAGTTACCTTTCAAGAAACATGTTACTAGGTTTTCCAATCCTAGGAAGTAGCTTAG TCTTAAGAGCATCTCCTAATTTCTCAGTGACAACCCATTCGTTCACTCTTTGTCTTTCGAGTAT GCCGATGAAAGTTCCTTTTGTCCGGTGCATAGACATTACGTTTTCAAACAAGATCCAAAATATC ACGAGGTAGAATGATCTAGGAAATGAGATAATCCATTGTAAATAACGATATACAATATACAATT AGGTGATATATTTATCGATCAAGATGAATTAGGAAGTAGTAACTAACCTTGGTGTCGCAATGAC AATGCAGAGAGTGATCATAGAGGGAATGTAAAAAGTTGACCAAGCTGGAATGTTGACTTCGGGA AAGAAGACACTTGTAGGAAGAATAACACAGTAGAAAATAAAAGTGAAGCAGTGGACTATGATCT TCCGTAAGAAAAAGAAGCTGTAGACCAGATACAACTTCTTCCAAATCGTCACTCTCTGCTCATT AAGTCATTATTACATAGATTTGTAGATTAAGGTTAGATATCTACTCATGAATTAATTATTTGTT TTAGAGTAATCTTTTAATACGACTCGGTTTAACTAAACCCGAACCAAATAATACTAGATTGAAC CAAACCGGTCTTCTAACCCATCAGATTACCAAATCAAATGCAACATTTTTTTTGTGTGTGTGCA TCTTCTTAAAGCATAAAAGAAACAACAAAACAGAAGAAAAAATCAATCCCCATCGAAGTGACCA ATCAAAACAAAAAATATTGTACGTCAGCCTCACATCACATGGCCTGTTTGTCTCTCCATATTAA CAAGATGAACAAAAAACCAAAGTAGTTATTGGACGTGTGACAAAAAAAATTGTGGGCACGTTTT TGTCAAGATTAAATAAGTAGATTGAGAAAAGGACCTTATTGCGAATAATCTCCATAATCATTTT CCTGAAGAGATTAGCTGGACCACAAGACCATCGATGTTGCTGGAATCTAAAGGCCTTAAACTTG CTTGGTAACTCGCTTTTCACCTACAAACTCAGTGTTCATATACATAATGTAATGATTATAATTT AGTAATTATTATTTTATAGCAATGCATCACTATATATATATATAGAATTATAGATATCATTGCA CATCAAGACAAGAGTGCCACACTAGTCAGAAACTATGTCCATAACCAAATTCTATAAAATCTAC CACAATAACTATAGTTCAAAAGGGGAGTTTCTATGTGACTTTAATAAAGTTATAGTTTCAAAAG TGGAAGCATACAAAAAAAAAGTGGGAGTGTCTATGTAAAGAAAGCACTAGTAAATGTTGGATAT TAAATCCACATGGGAACAGTTACATAATGTACGAAAGATGCAATGAGGGCTTATTTACAGCAAT TAATAGGTAGGGATAAAATCAAGTACCGTGAGGTCATTGAGAAAGACAAATTTCCAGCCGAGAA GACCAGCACGAACGGCCAAGTCCATGTCCTCTACAGTAGTCCGGTCATGCCATCCTCCAGCTTC TTCCATCGCGGCCATTCTCCATACACCCGCAGTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.190001438

Conservation Information
Conserved circRNAs	NA
PMCS	0.190001438

			
						 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 AT1G24070_circ_g.1

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