Plant Circular RNA Database

Detail information of AT1G30580_circ_g.17

			
						 General Information
					
						CircRNA Name
						AT1G30580_circ_g.17
					
						ID in PlantcircBase
						ath_circ_005097
					
						Alias
						1:10833961-10835034
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 10833961-10835034  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G30580						
					
						Parent gene annotation
						
							Obg-like ATPase 1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G30580_circ_g.1 AT1G30580_circ_g.2 AT1G30580_circ_g.3 AT1G30580_circ_g.4 AT1G30580_circ_g.5 AT1G30580_circ_g.6 AT1G30580_circ_g.7 AT1G30580_circ_g.8 AT1G30580_circ_g.9 AT1G30580_circ_g.10 AT1G30580_circ_g.11 AT1G30580_circ_g.12 AT1G30580_circ_g.13 AT1G30580_circ_g.14 AT1G30580_circ_g.15 AT1G30580_circ_g.16 AT1G30580_circ_g.18 AT1G30580_circ_g.19 						
					
						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  
						
							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
						AT1G30580.1:4

General Information
CircRNA Name	AT1G30580_circ_g.17
ID in PlantcircBase	ath_circ_005097
Alias	1:10833961-10835034
Organism	Arabidpsis thaliana
Position	chr1: 10833961-10835034 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G30580
Parent gene annotation	Obg-like ATPase 1
Parent gene strand	-
Alternative splicing	AT1G30580_circ_g.1 AT1G30580_circ_g.2 AT1G30580_circ_g.3 AT1G30580_circ_g.4 AT1G30580_circ_g.5 AT1G30580_circ_g.6 AT1G30580_circ_g.7 AT1G30580_circ_g.8 AT1G30580_circ_g.9 AT1G30580_circ_g.10 AT1G30580_circ_g.11 AT1G30580_circ_g.12 AT1G30580_circ_g.13 AT1G30580_circ_g.14 AT1G30580_circ_g.15 AT1G30580_circ_g.16 AT1G30580_circ_g.18 AT1G30580_circ_g.19
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	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	AT1G30580.1:4

			
						 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  
						
							CATTAGGCTCAATGGTACAAAAGGGGAAATTCTCAGCTGGAATTGAAAGCTTTGTAAGAGTGTT
GAAAAGAGTAGATTTTCCAACATTTGGTAACCCAACcttttgcaagagctcaagttctattttc
agctgcttgtcattgctcctcttcatgctcttctcgacatcatcaatcttctttccaacaaatt
caatatcc

									
								

					

						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: 483
Transcript exons: 10833961-10834059,10834221-10834312,10834640-10834763,10
834867-10835034
CTTTTGCAAGAGCTCAAGTTCTATTTTCAGCTGCTTGTCATTGCTCCTCTTCATGCTCTTCTCG
ACATCATCAATCTTCTTTCCAACAAATTCAATATCCTTTAGCCGCAACTCTTCAGTAATGGTCT
CCAAATCTCTAACAGGATCCACGATATCGTCGACATGGATAATATCAGCATCTTCAAAAGCACG
TAAAACATGGAAAATTCCATCAACTGCACGAATATGGGACAAGAAGTTGTTTCCAAGACCCTGT
CCTTCATGAGCTCCTCTAACAAGCCCAGCAATGTCATGAATTTCCAAGAAAGCTGGAATCTCAC
TCTTAGGCTTGTAAGTTTGGCAAAGCCAATCGAACCTCTCATCGGGGATATTCACACGTGCCTC
ATTAGGCTCAATGGTACAAAAGGGGAAATTCTCAGCTGGAATTGAAAGCTTTGTAAGAGTGTTG
AAAAGAGTAGATTTTCCAACATTTGGTAACCCAAC
						
					

						Genomic sequence
						
							CTTTTGCAAGAGCTCAAGTTCTATTTTCAGCTGCTTGTCATTGCTCCTCTTCATGCTCTTCTCG
ACATCATCAATCTTCTTTCCAACAAATTCAATATCCTAAAGTTGCACCAAAGAATTCAGTTTGA
AACCAAAACAACAATGGATGAAATGAAGATCCAACTAATACAAAAAACAGACTACTGTATTAAT
ATACACAGAAAGGATTTCACGAGTTTGGAGATATAGCAGTCAAATATCTGTTTAGAGATTTGAT
TCACCTTTAGCCGCAACTCTTCAGTAATGGTCTCCAAATCTCTAACAGGATCCACGATATCGTC
GACATGGATAATATCAGCATCTTCAAAAGCACCTGCATATGTTCAATCGAAAAGTCACTAACCA
CTATATAACTGGCAAGATATCTTACTATCAGCAACTATTAAAGAAACATCCCCGTTGTTCAAGA
ACAGATATGCTTGGAGAGGAAAACATAAACTAACTATCGCAATGGCCCTATAGGTATCAAATGG
GAAGAAAAATATATAAAGGTTTTTAACCTGTCTCTCATTGAAAAGCCTGCTCAAGTAGAAATTC
AAGACAGCACAAGTAGCAGTACAGTCTAAATTATTCATCAAATCACGCATCACACTAAAACAAA
GCTGGCACTAGGAGAAAAAGCGAGAGGGAAAAACCATACGTAAAACATGGAAAATTCCATCAAC
TGCACGAATATGGGACAAGAAGTTGTTTCCAAGACCCTGTCCTTCATGAGCTCCTCTAACAAGC
CCAGCAATGTCATGAATTTCCAAGAAAGCTGGAATCTGAGGCATCAAAACAGACAGAAGTCAGC
CCATTCATAAAGTAATTCAGATAGTAGTAATCTCTTCCTTAACAGCAAGTCATGAAATAAAGTT
ACAAACTTACCTCACTCTTAGGCTTGTAAGTTTGGCAAAGCCAATCGAACCTCTCATCGGGGAT
ATTCACACGTGCCTCATTAGGCTCAATGGTACAAAAGGGGAAATTCTCAGCTGGAATTGAAAGC
TTTGTAAGAGTGTTGAAAAGAGTAGATTTTCCAACATTTGGTAACCCAAC
						
					

			
		

Sequences
Splice junction sequence	CATTAGGCTCAATGGTACAAAAGGGGAAATTCTCAGCTGGAATTGAAAGCTTTGTAAGAGTGTT GAAAAGAGTAGATTTTCCAACATTTGGTAACCCAACcttttgcaagagctcaagttctattttc agctgcttgtcattgctcctcttcatgctcttctcgacatcatcaatcttctttccaacaaatt caatatcc
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: 483 Transcript exons: 10833961-10834059,10834221-10834312,10834640-10834763,10 834867-10835034 CTTTTGCAAGAGCTCAAGTTCTATTTTCAGCTGCTTGTCATTGCTCCTCTTCATGCTCTTCTCG ACATCATCAATCTTCTTTCCAACAAATTCAATATCCTTTAGCCGCAACTCTTCAGTAATGGTCT CCAAATCTCTAACAGGATCCACGATATCGTCGACATGGATAATATCAGCATCTTCAAAAGCACG TAAAACATGGAAAATTCCATCAACTGCACGAATATGGGACAAGAAGTTGTTTCCAAGACCCTGT CCTTCATGAGCTCCTCTAACAAGCCCAGCAATGTCATGAATTTCCAAGAAAGCTGGAATCTCAC TCTTAGGCTTGTAAGTTTGGCAAAGCCAATCGAACCTCTCATCGGGGATATTCACACGTGCCTC ATTAGGCTCAATGGTACAAAAGGGGAAATTCTCAGCTGGAATTGAAAGCTTTGTAAGAGTGTTG AAAAGAGTAGATTTTCCAACATTTGGTAACCCAAC
Genomic sequence	CTTTTGCAAGAGCTCAAGTTCTATTTTCAGCTGCTTGTCATTGCTCCTCTTCATGCTCTTCTCG ACATCATCAATCTTCTTTCCAACAAATTCAATATCCTAAAGTTGCACCAAAGAATTCAGTTTGA AACCAAAACAACAATGGATGAAATGAAGATCCAACTAATACAAAAAACAGACTACTGTATTAAT ATACACAGAAAGGATTTCACGAGTTTGGAGATATAGCAGTCAAATATCTGTTTAGAGATTTGAT TCACCTTTAGCCGCAACTCTTCAGTAATGGTCTCCAAATCTCTAACAGGATCCACGATATCGTC GACATGGATAATATCAGCATCTTCAAAAGCACCTGCATATGTTCAATCGAAAAGTCACTAACCA CTATATAACTGGCAAGATATCTTACTATCAGCAACTATTAAAGAAACATCCCCGTTGTTCAAGA ACAGATATGCTTGGAGAGGAAAACATAAACTAACTATCGCAATGGCCCTATAGGTATCAAATGG GAAGAAAAATATATAAAGGTTTTTAACCTGTCTCTCATTGAAAAGCCTGCTCAAGTAGAAATTC AAGACAGCACAAGTAGCAGTACAGTCTAAATTATTCATCAAATCACGCATCACACTAAAACAAA GCTGGCACTAGGAGAAAAAGCGAGAGGGAAAAACCATACGTAAAACATGGAAAATTCCATCAAC TGCACGAATATGGGACAAGAAGTTGTTTCCAAGACCCTGTCCTTCATGAGCTCCTCTAACAAGC CCAGCAATGTCATGAATTTCCAAGAAAGCTGGAATCTGAGGCATCAAAACAGACAGAAGTCAGC CCATTCATAAAGTAATTCAGATAGTAGTAATCTCTTCCTTAACAGCAAGTCATGAAATAAAGTT ACAAACTTACCTCACTCTTAGGCTTGTAAGTTTGGCAAAGCCAATCGAACCTCTCATCGGGGAT ATTCACACGTGCCTCATTAGGCTCAATGGTACAAAAGGGGAAATTCTCAGCTGGAATTGAAAGC TTTGTAAGAGTGTTGAAAAGAGTAGATTTTCCAACATTTGGTAACCCAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.342206135

Conservation Information
Conserved circRNAs	NA
PMCS	0.342206135

			
						 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 AT1G30580_circ_g.17

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