Plant Circular RNA Database

Detail information of AT1G31660_circ_g.9

			
						 General Information
					
						CircRNA Name
						AT1G31660_circ_g.9
					
						ID in PlantcircBase
						ath_circ_005273
					
						Alias
						At_ciR505
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 11332779-11333248  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, MapSplice, PcircRNA_finder, circRNA_finder, find_circ, CIRI-full
					
						Parent gene
						
							AT1G31660						
					
						Parent gene annotation
						
							Bystin-like protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G31660_circ_g.1 AT1G31660_circ_g.2 AT1G31660_circ_g.3 AT1G31660_circ_g.4 AT1G31660_circ_g.5 AT1G31660_circ_g.6 AT1G31660_circ_g.7 AT1G31660_circ_g.8 AT1G31660_circ_g.10 AT1G31660_circ_g.11 						
					
						Support reads
						9/24
					
						Tissues
						leaf/root, whole_plant
					
						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
						AT1G31660.1:2

General Information
CircRNA Name	AT1G31660_circ_g.9
ID in PlantcircBase	ath_circ_005273
Alias	At_ciR505
Organism	Arabidpsis thaliana
Position	chr1: 11332779-11333248 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, MapSplice, PcircRNA_finder, circRNA_finder, find_circ, CIRI-full
Parent gene	AT1G31660
Parent gene annotation	Bystin-like protein
Parent gene strand	-
Alternative splicing	AT1G31660_circ_g.1 AT1G31660_circ_g.2 AT1G31660_circ_g.3 AT1G31660_circ_g.4 AT1G31660_circ_g.5 AT1G31660_circ_g.6 AT1G31660_circ_g.7 AT1G31660_circ_g.8 AT1G31660_circ_g.10 AT1G31660_circ_g.11
Support reads	9/24
Tissues	leaf/root, whole_plant
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	AT1G31660.1:2

			
						 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  
						
							CGCTACTAGGGTTTCTCTCGGCGTTCTCTTCATCAGCAACTTCCTTTTGTTGGGCAAGAGCTTG
TTTCATGATCTTCTCGCTCATACCAGCTTCAATCAActtcagctaagtcagcatccttatcttt
gagcttcttgataatgatatcagtaagcgtacgttgaggaggagcattcttatttaagaatgac
tcaaacaa

									
								

					

						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: 186
Transcript exons: 11332779-11332807,11333092-11333248
CTTCAGCTAAGTCAGCATCCTTATCTTTGCCTCCAGAATTTTCTGCTCCTCTCCAGCAGTCGCA
GCGCCGGCAACAGCAAAAGCGGCGCTACTAGGGTTTCTCTCGGCGTTCTCTTCATCAGCAACTT
CCTTTTGTTGGGCAAGAGCTTGTTTCATGATCTTCTCGCTCATACCAGCTTCAATCAA
Transcript length: 193
Transcript exons: 11332779-11332890,11333168-11333248
CTTCAGCTAAGTCAGCATCCTTATCTTTGAGCTTCTTGATAATGATATCAGTAAGCGTACGTTG
AGGAGGAGCATTCTTATTTAAGAATGACTCAAACAACTTCTCATCATCGGCGTTCTCTTCATCA
GCAACTTCCTTTTGTTGGGCAAGAGCTTGTTTCATGATCTTCTCGCTCATACCAGCTTCAATCA
A
Transcript length: 227
Transcript exons: 11332779-11332845,11333089-11333248
CTTCAGCTAAGTCAGCATCCTTATCTTTGAGCTTCTTGATAATGATATCAGTAAGCGTACGTTG
AGGCCTCCTCCAGAATTTTCTGCTCCTCTCCAGCAGTCGCAGCGCCGGCAACAGCAAAAGCGGC
GCTACTAGGGTTTCTCTCGGCGTTCTCTTCATCAGCAACTTCCTTTTGTTGGGCAAGAGCTTGT
TTCATGATCTTCTCGCTCATACCAGCTTCAATCAA
Transcript length: 233
Transcript exons: 11332779-11332821,11333045-11333145,11333160-11333248
CTTCAGCTAAGTCAGCATCCTTATCTTTGAGCTTCTTGATAATCTGGTTTTCAAAGGTTCCATC
AAAATCATCAATATCATCTTCTTCCTCCTCCAGAATTTTCTGCTCCTCTCCAGCAGTCGCAGCG
CCGGCAACAGCAAAAGTTTCTCTCGGCGTTCTCTTCATCAGCAACTTCCTTTTGTTGGGCAAGA
GCTTGTTTCATGATCTTCTCGCTCATACCAGCTTCAATCAA
Transcript length: 349
Transcript exons: 11332779-11332905,11333027-11333248
CTTCAGCTAAGTCAGCATCCTTATCTTTGAGCTTCTTGATAATGATATCAGTAAGCGTACGTTG
AGGAGGAGCATTCTTATTTAAGAATGACTCAAACAACTTCTCATCATCCTCATTAATCTCCTCT
TGCTTATCGAATTGGCTCTGGTTTTCAAAGGTTCCATCAAAATCATCAATATCATCTTCTTCCT
CCTCCAGAATTTTCTGCTCCTCTCCAGCAGTCGCAGCGCCGGCAACAGCAAAAGCGGCGCTACT
AGGGTTTCTCTCGGCGTTCTCTTCATCAGCAACTTCCTTTTGTTGGGCAAGAGCTTGTTTCATG
ATCTTCTCGCTCATACCAGCTTCAATCAA
						
					

						Genomic sequence
						
							CTTCAGCTAAGTCAGCATCCTTATCTTTGAGCTTCTTGATAATGATATCAGTAAGCGTACGTTG
AGGAGGAGCATTCTTATTTAAGAATGACTCAAACAACTTCTCATCATCCTCATTAATCTCCTCC
TAATATAAGTTACATAACAATATCAAAACATAAACATGAAAGACTCAATTTTGGCATCGTTCTA
AGCAATTCAATCTAGAGCTTCCATAAACTAATGCTATATAGAATCAAGATACTCACTTGCTTAT
CGAATTGGCTCTGGTTTTCAAAGGTTCCATCAAAATCATCAATATCATCTTCTTCCTCCTCCAG
AATTTTCTGCTCCTCTCCAGCAGTCGCAGCGCCGGCAACAGCAAAAGCGGCGCTACTAGGGTTT
CTCTCGGCGTTCTCTTCATCAGCAACTTCCTTTTGTTGGGCAAGAGCTTGTTTCATGATCTTCT
CGCTCATACCAGCTTCAATCAA
						
					

			
		

Sequences
Splice junction sequence	CGCTACTAGGGTTTCTCTCGGCGTTCTCTTCATCAGCAACTTCCTTTTGTTGGGCAAGAGCTTG TTTCATGATCTTCTCGCTCATACCAGCTTCAATCAActtcagctaagtcagcatccttatcttt gagcttcttgataatgatatcagtaagcgtacgttgaggaggagcattcttatttaagaatgac tcaaacaa
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: 186 Transcript exons: 11332779-11332807,11333092-11333248 CTTCAGCTAAGTCAGCATCCTTATCTTTGCCTCCAGAATTTTCTGCTCCTCTCCAGCAGTCGCA GCGCCGGCAACAGCAAAAGCGGCGCTACTAGGGTTTCTCTCGGCGTTCTCTTCATCAGCAACTT CCTTTTGTTGGGCAAGAGCTTGTTTCATGATCTTCTCGCTCATACCAGCTTCAATCAA Transcript length: 193 Transcript exons: 11332779-11332890,11333168-11333248 CTTCAGCTAAGTCAGCATCCTTATCTTTGAGCTTCTTGATAATGATATCAGTAAGCGTACGTTG AGGAGGAGCATTCTTATTTAAGAATGACTCAAACAACTTCTCATCATCGGCGTTCTCTTCATCA GCAACTTCCTTTTGTTGGGCAAGAGCTTGTTTCATGATCTTCTCGCTCATACCAGCTTCAATCA A Transcript length: 227 Transcript exons: 11332779-11332845,11333089-11333248 CTTCAGCTAAGTCAGCATCCTTATCTTTGAGCTTCTTGATAATGATATCAGTAAGCGTACGTTG AGGCCTCCTCCAGAATTTTCTGCTCCTCTCCAGCAGTCGCAGCGCCGGCAACAGCAAAAGCGGC GCTACTAGGGTTTCTCTCGGCGTTCTCTTCATCAGCAACTTCCTTTTGTTGGGCAAGAGCTTGT TTCATGATCTTCTCGCTCATACCAGCTTCAATCAA Transcript length: 233 Transcript exons: 11332779-11332821,11333045-11333145,11333160-11333248 CTTCAGCTAAGTCAGCATCCTTATCTTTGAGCTTCTTGATAATCTGGTTTTCAAAGGTTCCATC AAAATCATCAATATCATCTTCTTCCTCCTCCAGAATTTTCTGCTCCTCTCCAGCAGTCGCAGCG CCGGCAACAGCAAAAGTTTCTCTCGGCGTTCTCTTCATCAGCAACTTCCTTTTGTTGGGCAAGA GCTTGTTTCATGATCTTCTCGCTCATACCAGCTTCAATCAA Transcript length: 349 Transcript exons: 11332779-11332905,11333027-11333248 CTTCAGCTAAGTCAGCATCCTTATCTTTGAGCTTCTTGATAATGATATCAGTAAGCGTACGTTG AGGAGGAGCATTCTTATTTAAGAATGACTCAAACAACTTCTCATCATCCTCATTAATCTCCTCT TGCTTATCGAATTGGCTCTGGTTTTCAAAGGTTCCATCAAAATCATCAATATCATCTTCTTCCT CCTCCAGAATTTTCTGCTCCTCTCCAGCAGTCGCAGCGCCGGCAACAGCAAAAGCGGCGCTACT AGGGTTTCTCTCGGCGTTCTCTTCATCAGCAACTTCCTTTTGTTGGGCAAGAGCTTGTTTCATG ATCTTCTCGCTCATACCAGCTTCAATCAA
Genomic sequence	CTTCAGCTAAGTCAGCATCCTTATCTTTGAGCTTCTTGATAATGATATCAGTAAGCGTACGTTG AGGAGGAGCATTCTTATTTAAGAATGACTCAAACAACTTCTCATCATCCTCATTAATCTCCTCC TAATATAAGTTACATAACAATATCAAAACATAAACATGAAAGACTCAATTTTGGCATCGTTCTA AGCAATTCAATCTAGAGCTTCCATAAACTAATGCTATATAGAATCAAGATACTCACTTGCTTAT CGAATTGGCTCTGGTTTTCAAAGGTTCCATCAAAATCATCAATATCATCTTCTTCCTCCTCCAG AATTTTCTGCTCCTCTCCAGCAGTCGCAGCGCCGGCAACAGCAAAAGCGGCGCTACTAGGGTTT CTCTCGGCGTTCTCTTCATCAGCAACTTCCTTTTGTTGGGCAAGAGCTTGTTTCATGATCTTCT CGCTCATACCAGCTTCAATCAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.435368266

Conservation Information
Conserved circRNAs	NA
PMCS	0.435368266

			
						 Functional Information
					
						Coding potential
						N
					
						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	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Liu et al., 2017

circRNA

Detail information of AT1G31660_circ_g.9

Address

Any questions?

Supported by