Plant Circular RNA Database

Detail information of AT1G31420_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT1G31420_circ_g.5
					
						ID in PlantcircBase
						ath_circ_005236
					
						Alias
						1:11250250-11253004
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 11250250-11253004  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT1G31420						
					
						Parent gene annotation
						
							Leucine-rich repeat protein kinase family protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G31420_circ_g.1 AT1G31420_circ_g.2 AT1G31420_circ_g.3 AT1G31420_circ_g.4 AT1G31420_circ_g.6 AT1G31420_circ_g.7 AT1G31420_circ_g.8 AT1G31420_circ_g.9 AT1G31420_circ_g.10 AT1G31420_circ_g.11 AT1G31420_circ_g.12 AT1G31420_circ_g.13 AT1G31420_circ_g.14 						
					
						Support reads
						3
					
						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  
						
							GT-AG							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
						AT1G31420.1:11
AT1G31420.2:11
AT1G31420.3:11

General Information
CircRNA Name	AT1G31420_circ_g.5
ID in PlantcircBase	ath_circ_005236
Alias	1:11250250-11253004
Organism	Arabidpsis thaliana
Position	chr1: 11250250-11253004 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT1G31420
Parent gene annotation	Leucine-rich repeat protein kinase family protein
Parent gene strand	+
Alternative splicing	AT1G31420_circ_g.1 AT1G31420_circ_g.2 AT1G31420_circ_g.3 AT1G31420_circ_g.4 AT1G31420_circ_g.6 AT1G31420_circ_g.7 AT1G31420_circ_g.8 AT1G31420_circ_g.9 AT1G31420_circ_g.10 AT1G31420_circ_g.11 AT1G31420_circ_g.12 AT1G31420_circ_g.13 AT1G31420_circ_g.14
Support reads	3
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	GT-AG 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	AT1G31420.1:11 AT1G31420.2:11 AT1G31420.3:11

			
						 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  
						
							GAGGCACGGGTATCGGATTTTGGTCTAGCCAAGTTGTTGGAAGACGAAGAATCTCATATCACAA
CCATTGTTGCAGGCACATTTGGGTACCTAGCTCCAGgagtctagtttcttacttgaacatagac
atggaatcaactaataactgacaaccaagaggctgttcttttcaaatgattggtagtagttata
ttatgctt

									
								

					

						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
						
							GAGTCTAGTTTCTTACTTGAACATAGACATGGAATCAACTAATAACTGACAACCAAGAGGCTGT
TCTTTTCAAATGATTGGTAGTAGTTATATTATGCTTGGACAGTGCCATGATGGGCATCTGTGAG
ATGAAAAGCTGCTGCTCATGGCTTCTTTTGATCTCGTTGCTTTGCTCACTATCTAATGAAAGTC
AAGCGATTAGTCCTGACGGTACGTCGATATGAATCAACTATTACTATTCATAGCGTCCTGGACC
TTTTATTGAGCTTTAATCCTTTATTGCTTGTTTCCATTCTTCAGGCGAGGCGCTTCTGAGCTTC
AGAAATGCAGTTACTAGATCAGATAGTTTCATCCATCAGTGGAGACCGGAAGATCCAGATCCAT
GTAACTGGAACGGAGTGACATGTGATGCAAAAACGAAAAGAGTTATAACCTTGTAAGTTTTCAA
ACTTGTCAAGGTTTACTGGTTTTCTCTTCAGTATTTGTGCTCCCTAATACTCTTGTTTCGCAGG
AATCTTACTTATCACAAAATAATGGGACCTTTACCTCCTGATATTGGAAAGTTGGACCATTTAA
GGCTTTTGTATGTGCTCTCTAGCCTTATTCATTTTTATTGCTTAAGAGAGTACTTCGATTCTGA
TCATCTGTGTGTCATTGCAGAATGCTTCACAACAATGCTTTATATGGAGCAATACCTACAGCAT
TGGGAAATTGCACAGCATTGGAGGAAATGTAAGCGCTTTTCCAGGATTTTATACTGATTCCACA
TGGTTTCTGAGAGACCAATTCCAGTTGCTTATGGTCATCAAAATTGTCCAACTGGTTTTGCAGT
CACTTGCAGAGTAACTACTTCACTGGACCAATCCCAGCTGAAATGGGAGACCTGCCTGGCCTTC
AAAAGCTGTATGTTTTTTTCTCTTCCCTATACGTACTTGCAAGTGCATCCTTCTTTTAGTGTAT
GCAATATCTATTTGTTTTTTGTTTTCATTTACTTCTATCACCATCTAGGATCATGGTAACATAT
GGTTGACTGCATAATGTCTTCTCATGCACATTATATTCAGAACTAGTTATACCTAAACTCTTGG
TGAGCAATTTGAAAAGCATGATAATGTATTGTTTACTTCAGATTCACATATTGATTGTTCTCTT
TTCTCTACTAAAACTGACTTTTGACTTTTTTATTTTATTTTCAAGGGACATGTCAAGCAACACT
CTCAGTGGACCTATCCCTGCTTCGCTTGGGCAGTTAAAAAAGCTTAGTAACTTGTGAGCACCTT
AATCTCTAACTTCCGCTGTAATTTATCATATTGCAGTCCTGTGAATCTTTCTGTTTCGTTTGTC
TTATGAAGCAATGTCTCGAACAACTTCCTGGTGGGGCAAATACCTTCAGACGGAGTGCTCTCTG
GATTTTCTAAGAACTCGTAAGACAATAAACACCCTTTTCTTCTTGTAGGGATAGAAAAATAAAG
CCTCTAAAGTTACATTTTTTTTTTTTTTTTGTCAATCCTCTAAAGTTACATTTATACAGCTGAT
CTTTCATATTTCGCTTATATTCGAGATGATTTTTTGAACCACATAACTATTTAGCTAGATTGTA
TCAGTGCGACTGAAATTATATGATTCTCAAACTGATGCGTTACTACTACAGCTTCATTGGAAAT
CTTAACTTGTGTGGAAAGCATGTTGATGTCGTGTGCCAAGATGATAGTGGAAACCCTTCATCAC
ATTCTCAATCAGGTAAAAGCAATTATGAATTTCTTGTGATATACAGGTTTTGTTGTGGCTCTCT
ATCAGTAAAGTTATATTTATTTGGTGTCTTATACTTTATAGGTCAAAATCAAAAGAAAAACTCT
GGTAAGCTGCTGATTAGCGCATCAGCAACTGTAGGTGCGCTACTCCTAGTTGCACTCATGTGTT
TCTGGGGATGCTTTCTATATAAAAAGCTCGGTAAAGTCGAGATTAAAAGCCTTGCAAAGGATGT
TGGTGGAGGTGAGCCGTATTGATTTTTTTTGTACAGATATTATCTCGTTAAATATTGGGAAATT
TCATATTTTTCTCTATCTCCTAAATCTTCATTGTGACTTTTTCAATTCAGGTGCGTCTATTGTG
ATGTTCCACGGAGATTTACCTTACTCTTCCAAAGATATCATTAAGAAGCTGGAAATGTTGAATG
AAGAGCACATAATTGGATGTGGAGGCTTTGGAACGGTGTATAAGCTGGCCATGGATGATGGCAA
AGTCTTTGCATTGAAGAGAATTCTAAAGTTAAACGAAGGGTTTGATCGGTTTTTTGAGCGGGAG
CTTGAGATTCTTGGGAGCATCAAACACCGATACCTCGTGAATCTACGTGGATATTGCAATTCAC
CAACATCAAAGCTACTGTTATATGATTACTTGCCCGGTGGTAGCCTTGATGAAGCACTTCATGG
TATGATCAATCTGCTCTTTATGGCTCTCTTCCATATTATGAATGATTCACTGAGAAGTTTGGTT
CTTGAATTAGTAGAGAGAGGCGAGCAATTGGACTGGGATTCACGCGTAAATATCATCATAGGAG
CTGCGAAAGGGTTATCATATTTGCATCATGATTGTTCTCCTCGGATTATACATCGTGATATAAA
GTCGAGCAACATTTTGCTTGATGGCAATCTCGAGGCACGGGTATCGGATTTTGGTCTAGCCAAG
TTGTTGGAAGACGAAGAATCTCATATCACAACCATTGTTGCAGGCACATTTGGGTACCTAGCTC
CAG
						
					

			
		

Sequences
Splice junction sequence	GAGGCACGGGTATCGGATTTTGGTCTAGCCAAGTTGTTGGAAGACGAAGAATCTCATATCACAA CCATTGTTGCAGGCACATTTGGGTACCTAGCTCCAGgagtctagtttcttacttgaacatagac atggaatcaactaataactgacaaccaagaggctgttcttttcaaatgattggtagtagttata ttatgctt
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	GAGTCTAGTTTCTTACTTGAACATAGACATGGAATCAACTAATAACTGACAACCAAGAGGCTGT TCTTTTCAAATGATTGGTAGTAGTTATATTATGCTTGGACAGTGCCATGATGGGCATCTGTGAG ATGAAAAGCTGCTGCTCATGGCTTCTTTTGATCTCGTTGCTTTGCTCACTATCTAATGAAAGTC AAGCGATTAGTCCTGACGGTACGTCGATATGAATCAACTATTACTATTCATAGCGTCCTGGACC TTTTATTGAGCTTTAATCCTTTATTGCTTGTTTCCATTCTTCAGGCGAGGCGCTTCTGAGCTTC AGAAATGCAGTTACTAGATCAGATAGTTTCATCCATCAGTGGAGACCGGAAGATCCAGATCCAT GTAACTGGAACGGAGTGACATGTGATGCAAAAACGAAAAGAGTTATAACCTTGTAAGTTTTCAA ACTTGTCAAGGTTTACTGGTTTTCTCTTCAGTATTTGTGCTCCCTAATACTCTTGTTTCGCAGG AATCTTACTTATCACAAAATAATGGGACCTTTACCTCCTGATATTGGAAAGTTGGACCATTTAA GGCTTTTGTATGTGCTCTCTAGCCTTATTCATTTTTATTGCTTAAGAGAGTACTTCGATTCTGA TCATCTGTGTGTCATTGCAGAATGCTTCACAACAATGCTTTATATGGAGCAATACCTACAGCAT TGGGAAATTGCACAGCATTGGAGGAAATGTAAGCGCTTTTCCAGGATTTTATACTGATTCCACA TGGTTTCTGAGAGACCAATTCCAGTTGCTTATGGTCATCAAAATTGTCCAACTGGTTTTGCAGT CACTTGCAGAGTAACTACTTCACTGGACCAATCCCAGCTGAAATGGGAGACCTGCCTGGCCTTC AAAAGCTGTATGTTTTTTTCTCTTCCCTATACGTACTTGCAAGTGCATCCTTCTTTTAGTGTAT GCAATATCTATTTGTTTTTTGTTTTCATTTACTTCTATCACCATCTAGGATCATGGTAACATAT GGTTGACTGCATAATGTCTTCTCATGCACATTATATTCAGAACTAGTTATACCTAAACTCTTGG TGAGCAATTTGAAAAGCATGATAATGTATTGTTTACTTCAGATTCACATATTGATTGTTCTCTT TTCTCTACTAAAACTGACTTTTGACTTTTTTATTTTATTTTCAAGGGACATGTCAAGCAACACT CTCAGTGGACCTATCCCTGCTTCGCTTGGGCAGTTAAAAAAGCTTAGTAACTTGTGAGCACCTT AATCTCTAACTTCCGCTGTAATTTATCATATTGCAGTCCTGTGAATCTTTCTGTTTCGTTTGTC TTATGAAGCAATGTCTCGAACAACTTCCTGGTGGGGCAAATACCTTCAGACGGAGTGCTCTCTG GATTTTCTAAGAACTCGTAAGACAATAAACACCCTTTTCTTCTTGTAGGGATAGAAAAATAAAG CCTCTAAAGTTACATTTTTTTTTTTTTTTTGTCAATCCTCTAAAGTTACATTTATACAGCTGAT CTTTCATATTTCGCTTATATTCGAGATGATTTTTTGAACCACATAACTATTTAGCTAGATTGTA TCAGTGCGACTGAAATTATATGATTCTCAAACTGATGCGTTACTACTACAGCTTCATTGGAAAT CTTAACTTGTGTGGAAAGCATGTTGATGTCGTGTGCCAAGATGATAGTGGAAACCCTTCATCAC ATTCTCAATCAGGTAAAAGCAATTATGAATTTCTTGTGATATACAGGTTTTGTTGTGGCTCTCT ATCAGTAAAGTTATATTTATTTGGTGTCTTATACTTTATAGGTCAAAATCAAAAGAAAAACTCT GGTAAGCTGCTGATTAGCGCATCAGCAACTGTAGGTGCGCTACTCCTAGTTGCACTCATGTGTT TCTGGGGATGCTTTCTATATAAAAAGCTCGGTAAAGTCGAGATTAAAAGCCTTGCAAAGGATGT TGGTGGAGGTGAGCCGTATTGATTTTTTTTGTACAGATATTATCTCGTTAAATATTGGGAAATT TCATATTTTTCTCTATCTCCTAAATCTTCATTGTGACTTTTTCAATTCAGGTGCGTCTATTGTG ATGTTCCACGGAGATTTACCTTACTCTTCCAAAGATATCATTAAGAAGCTGGAAATGTTGAATG AAGAGCACATAATTGGATGTGGAGGCTTTGGAACGGTGTATAAGCTGGCCATGGATGATGGCAA AGTCTTTGCATTGAAGAGAATTCTAAAGTTAAACGAAGGGTTTGATCGGTTTTTTGAGCGGGAG CTTGAGATTCTTGGGAGCATCAAACACCGATACCTCGTGAATCTACGTGGATATTGCAATTCAC CAACATCAAAGCTACTGTTATATGATTACTTGCCCGGTGGTAGCCTTGATGAAGCACTTCATGG TATGATCAATCTGCTCTTTATGGCTCTCTTCCATATTATGAATGATTCACTGAGAAGTTTGGTT CTTGAATTAGTAGAGAGAGGCGAGCAATTGGACTGGGATTCACGCGTAAATATCATCATAGGAG CTGCGAAAGGGTTATCATATTTGCATCATGATTGTTCTCCTCGGATTATACATCGTGATATAAA GTCGAGCAACATTTTGCTTGATGGCAATCTCGAGGCACGGGTATCGGATTTTGGTCTAGCCAAG TTGTTGGAAGACGAAGAATCTCATATCACAACCATTGTTGCAGGCACATTTGGGTACCTAGCTC CAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.144368666

Conservation Information
Conserved circRNAs	NA
PMCS	0.144368666

			
						 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 AT1G31420_circ_g.5

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