Plant Circular RNA Database

Detail information of AT3G01310_circ_g.15

			
						 General Information
					
						CircRNA Name
						AT3G01310_circ_g.15
					
						ID in PlantcircBase
						ath_circ_019063
					
						Alias
						3:99005-100818
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 99005-100818  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT3G01310						
					
						Parent gene annotation
						
							Phosphoglycerate mutase-like family protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT3G01310_circ_g.7 AT3G01310_circ_g.8 AT3G01310_circ_g.9 AT3G01310_circ_g.10 AT3G01310_circ_g.11 AT3G01310_circ_g.12 AT3G01310_circ_g.13 AT3G01310_circ_g.14 AT3G01310_circ_g.16 AT3G01310_circ_g.17 AT3G01310_circ_g.18 AT3G01310_circ_g.19 AT3G01310_circ_g.20 						
					
						Support reads
						2/2
					
						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  
						
							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
						AT3G01310.1:8
AT3G01310.3:8
AT3G01310.2:8

General Information
CircRNA Name	AT3G01310_circ_g.15
ID in PlantcircBase	ath_circ_019063
Alias	3:99005-100818
Organism	Arabidpsis thaliana
Position	chr3: 99005-100818 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT3G01310
Parent gene annotation	Phosphoglycerate mutase-like family protein
Parent gene strand	-
Alternative splicing	AT3G01310_circ_g.7 AT3G01310_circ_g.8 AT3G01310_circ_g.9 AT3G01310_circ_g.10 AT3G01310_circ_g.11 AT3G01310_circ_g.12 AT3G01310_circ_g.13 AT3G01310_circ_g.14 AT3G01310_circ_g.16 AT3G01310_circ_g.17 AT3G01310_circ_g.18 AT3G01310_circ_g.19 AT3G01310_circ_g.20
Support reads	2/2
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	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	AT3G01310.1:8 AT3G01310.3:8 AT3G01310.2:8

			
						 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  
						
							AAAAGGTAAAACTCACTTTCTTAAAGCAGCATATGCCTGAGCCTTCTCAAGAGGATATCCAGAG
GAATGAAAAGCAATCAAGCAATCACAAATGGGCCAAttgtatgagttcttcacaaaactccatc
cattgacatcacaaacatatgaacagccctcagatcgtagaagatcaaacccacagacctggaa
atgtgaaa

									
								

					

						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
						
							TTGTATGAGTTCTTCACAAAACTCCATCCATTGACATCACAAACATATGAACAGCCCTCAGATC
GTAGAAGATCAAACCCACAGACCTGGAAATGTGAAAAATGTTGAAGAAATTACTACGTCATTGC
ACGAAATCAGAACGTACCATTATAAGGGATTACGGCCCTGCAAGACATAATGAGAGCCGGAGGA
TTGGATTCACAACATACCGCTTGCCTAAATGCAATGCAAACTTCTCTAGCCATTTGCTTTTCAG
CAGGTGTAAGCAATACTGGATATCTCACCTGTTCAATATATTAACCAAAAATAAAATACTGATC
AAAATCAAAACATTAACAGTTTAAACCTTCATGAAAACATAAGCAACTCATGCTTTTCATTATA
ATCAGTAGATACTGAAACCATAGCCCTTCCTTCATTAAAAACTAGGTATGTTAGGTTCCCTAAA
TGGAACTGTTGGGAAATGATTGAAAGACTTACTTCCTTCCCATCTGTATTCCTCATAACAACAC
CATCAACAACAGGTGACTTTCTTGCTTCAGCATGTGCGTATTCAGGACCCACTGTATAGACCTG
TGTTTACCAGGAAGATTGTCAGTTGAGAACTCATGCTCACCAGACAGAAACAAGCAGCAATAAA
AGCTACATCAGCAGGTGGAAAGCCATGCAGCATGTATATACTGTAATATATAGGCCAGTAGAAA
AACATAGGATATTAACATAGCAACCTACTACGTTGAGGACACTTGATACCAACAACTGTACAAT
AATATTCTCAAACGCCTATGTTGTCCAAAAGATGGGAATGGTAATGGTTTTATCGAAAAATGTG
TAGAAGGGAAACAATCAGAACCTTGACATCAGTTCCTCCGGTGGCCATAAACTCCTCGTATATA
TAAGAGCCTTCTCTCCTTACCCTTCTGACGTCAGGATGAAATTCACTTGATCGGTTCCCAATCT
GTAGTAAGATGGGGACAAGCGAAATATATTAGGAAGAAAAGGAGCTAATCAGAATTATGACAAT
ATCAGAATAACCAGTTCGATCCAGAACAGAGAAGTTCTGCAGAAGGATGCAGTACCTTGCGAAA
CAATTCTTTCATGCCTCCACCTGCCGAGCTAGGGTAGTATATCATTATACTATGGTCATCTCCT
AAACACGTATAAAGAATGTCAATAGTTAGCCAATAATAATTTTAAAAAAAAAAACTGCAAATCA
GAAGATAAATAAAACAAGGAGGATAGCCAGAGGCAAGCTCACCATTGACAGGCTTTTCCACAAA
TGGCTTCCAGAAGCGTTCACCATGGACCTCAACAAAATCTTCTTCCTCGACAAAATAATGAAGG
TCTTGATTTGGTACCTTTCTATTGACACAAGCATACCTAGGAACTGGGATGCCATACATCTCAA
GATGCTGTAGATGCACATAAGTAGTTATTTTGATTAGTAAAAGGAAAAATTAGGTAGTTCTTAT
TTTTCGTTAACGCTGAATCACTCTGAAGAATTTGCACAGAAACAGCTATCTTGCAGTCTAAAAT
GCTTACCTCATACACCTTCCGGCGATCATGAAGAAGATATTGCGGATCAAGTTCATTCACTAAA
AATGGCCTGAATAACACAAGTTTGAAAAATCACACCTCAATAGCCAAACTCATTTAATTTTCAC
CAAAAAGACTAATGTAAGATAGGCTGTTTATTGAGCCAACAGTGAGAGATAAAAGGTAAAACTC
ACTTTCTTAAAGCAGCATATGCCTGAGCCTTCTCAAGAGGATATCCAGAGGAATGAAAAGCAAT
CAAGCAATCACAAATGGGCCAA
						
					

			
		

Sequences
Splice junction sequence	AAAAGGTAAAACTCACTTTCTTAAAGCAGCATATGCCTGAGCCTTCTCAAGAGGATATCCAGAG GAATGAAAAGCAATCAAGCAATCACAAATGGGCCAAttgtatgagttcttcacaaaactccatc cattgacatcacaaacatatgaacagccctcagatcgtagaagatcaaacccacagacctggaa atgtgaaa
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	TTGTATGAGTTCTTCACAAAACTCCATCCATTGACATCACAAACATATGAACAGCCCTCAGATC GTAGAAGATCAAACCCACAGACCTGGAAATGTGAAAAATGTTGAAGAAATTACTACGTCATTGC ACGAAATCAGAACGTACCATTATAAGGGATTACGGCCCTGCAAGACATAATGAGAGCCGGAGGA TTGGATTCACAACATACCGCTTGCCTAAATGCAATGCAAACTTCTCTAGCCATTTGCTTTTCAG CAGGTGTAAGCAATACTGGATATCTCACCTGTTCAATATATTAACCAAAAATAAAATACTGATC AAAATCAAAACATTAACAGTTTAAACCTTCATGAAAACATAAGCAACTCATGCTTTTCATTATA ATCAGTAGATACTGAAACCATAGCCCTTCCTTCATTAAAAACTAGGTATGTTAGGTTCCCTAAA TGGAACTGTTGGGAAATGATTGAAAGACTTACTTCCTTCCCATCTGTATTCCTCATAACAACAC CATCAACAACAGGTGACTTTCTTGCTTCAGCATGTGCGTATTCAGGACCCACTGTATAGACCTG TGTTTACCAGGAAGATTGTCAGTTGAGAACTCATGCTCACCAGACAGAAACAAGCAGCAATAAA AGCTACATCAGCAGGTGGAAAGCCATGCAGCATGTATATACTGTAATATATAGGCCAGTAGAAA AACATAGGATATTAACATAGCAACCTACTACGTTGAGGACACTTGATACCAACAACTGTACAAT AATATTCTCAAACGCCTATGTTGTCCAAAAGATGGGAATGGTAATGGTTTTATCGAAAAATGTG TAGAAGGGAAACAATCAGAACCTTGACATCAGTTCCTCCGGTGGCCATAAACTCCTCGTATATA TAAGAGCCTTCTCTCCTTACCCTTCTGACGTCAGGATGAAATTCACTTGATCGGTTCCCAATCT GTAGTAAGATGGGGACAAGCGAAATATATTAGGAAGAAAAGGAGCTAATCAGAATTATGACAAT ATCAGAATAACCAGTTCGATCCAGAACAGAGAAGTTCTGCAGAAGGATGCAGTACCTTGCGAAA CAATTCTTTCATGCCTCCACCTGCCGAGCTAGGGTAGTATATCATTATACTATGGTCATCTCCT AAACACGTATAAAGAATGTCAATAGTTAGCCAATAATAATTTTAAAAAAAAAAACTGCAAATCA GAAGATAAATAAAACAAGGAGGATAGCCAGAGGCAAGCTCACCATTGACAGGCTTTTCCACAAA TGGCTTCCAGAAGCGTTCACCATGGACCTCAACAAAATCTTCTTCCTCGACAAAATAATGAAGG TCTTGATTTGGTACCTTTCTATTGACACAAGCATACCTAGGAACTGGGATGCCATACATCTCAA GATGCTGTAGATGCACATAAGTAGTTATTTTGATTAGTAAAAGGAAAAATTAGGTAGTTCTTAT TTTTCGTTAACGCTGAATCACTCTGAAGAATTTGCACAGAAACAGCTATCTTGCAGTCTAAAAT GCTTACCTCATACACCTTCCGGCGATCATGAAGAAGATATTGCGGATCAAGTTCATTCACTAAA AATGGCCTGAATAACACAAGTTTGAAAAATCACACCTCAATAGCCAAACTCATTTAATTTTCAC CAAAAAGACTAATGTAAGATAGGCTGTTTATTGAGCCAACAGTGAGAGATAAAAGGTAAAACTC ACTTTCTTAAAGCAGCATATGCCTGAGCCTTCTCAAGAGGATATCCAGAGGAATGAAAAGCAAT CAAGCAATCACAAATGGGCCAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.149091538

Conservation Information
Conserved circRNAs	NA
PMCS	0.149091538

			
						 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 AT3G01310_circ_g.15

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