Plant Circular RNA Database

Detail information of AT4G38510_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT4G38510_circ_g.5
					
						ID in PlantcircBase
						ath_circ_035408
					
						Alias
						Ath_circ_FC3056, Ath_circ_FC3057
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 18012741-18014796  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT4G38510						
					
						Parent gene annotation
						
							ATPase, V1 complex, subunit B protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G38510_circ_g.3 AT4G38510_circ_g.4 AT4G38510_circ_g.6 AT4G38510_circ_g.7 AT4G38510_circ_g.8 AT4G38510_circ_g.9 AT4G38510_circ_g.10 AT4G38510_circ_g.11 AT4G38510_circ_g.12 AT4G38510_circ_g.13 						
					
						Support reads
						4
					
						Tissues
						leaf, aerial
					
						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
						AT4G38510.4:9
AT4G38510.3:9
AT4G38510.2:9
AT4G38510.1:9
AT4G38510.5:9

General Information
CircRNA Name	AT4G38510_circ_g.5
ID in PlantcircBase	ath_circ_035408
Alias	Ath_circ_FC3056, Ath_circ_FC3057
Organism	Arabidpsis thaliana
Position	chr4: 18012741-18014796 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	AT4G38510
Parent gene annotation	ATPase, V1 complex, subunit B protein
Parent gene strand	-
Alternative splicing	AT4G38510_circ_g.3 AT4G38510_circ_g.4 AT4G38510_circ_g.6 AT4G38510_circ_g.7 AT4G38510_circ_g.8 AT4G38510_circ_g.9 AT4G38510_circ_g.10 AT4G38510_circ_g.11 AT4G38510_circ_g.12 AT4G38510_circ_g.13
Support reads	4
Tissues	leaf, aerial
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	AT4G38510.4:9 AT4G38510.3:9 AT4G38510.2:9 AT4G38510.1:9 AT4G38510.5:9

			
						 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  
						
							GATCCCATAGGGTATATAGCAAATAAAGGACGTCTTACCCATGCCGATCTCCAGGGTACCCTCC
ATTTCAAGGTTGTTTTCAGCAGCACCCATTTTAGATcatcgtttggcatggttaaaatgggaat
ttgagtgatggaacctttcctcccttcaattcgccctgctctctcgtatatggtagccaagtcg
gtgtacat

									
								

					

						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: 1016
Transcript exons: 18012741-18012891,18012987-18013124,18013214-18013342,18
013692-18013900,18013984-18014095,18014170-18014229,1801
4381-18014479,18014557-18014612,18014735-18014796
CATCGTTTGGCATGGTTAAAATGGGAATTTGAGTGATGGAACCTTTCCTCCCTTCAATTCGCCC
TGCTCTCTCGTATATGGTAGCCAAGTCGGTGTACATGTAACCTGGGTAACCACGCCTTCCAGGC
ACTTCTTCACGGGCAGCAGAGACCTCACGAAGAGCATCGGCGTAGGAACTCATGTCTGTGAGAA
TGACAAGGACATGCTTGCCACATTCATATGCCAAGTACTCAGCAGTTGTAAGTGCGATACGAGG
AGTGATGATACGCTCAATAGTGGGGTCGTTTGCCAAGTTAAGGAAAAGAGTCACTCTCTCCATC
GATCCATTCTCCTCGAAATCACGTTTAAAAAATTGTGCAGTCTCCATGTTCACACCCATTGCTG
CGAACACAATGGCGAAGTTATCATCCTCCTGATGCTCGAGAAGATTATCTGACTTCTCTAAACG
CTTAACCAAACCAGCCTGACGGCAAATCTGAGCAGCAATTTCATTGTGGGGAAGACCTGCGGCA
GAAAAGAGGGGAATCTTCTGTCCTCTGGCGATAGAGTTCATGACATCAATGGTGGATATACCCG
TCTGAATCATCTCTTCAGGATAGGTTCTCTCACTGGGATTGATAGAACTTCCAGAAATATCCAA
GTACGCCTCAGGCAATATAGGTGGACCGTTGTCAATGGGCTTCCCTGAACCATTGAAGATGCGA
CCAAGCATATCCAAAGAAACAGGAGTTTTCAAAACCTCTCCTGTAAATTGCACAGTTGTGTACT
TGTTGTCGATTCCAGATGTTCCCTCAAATACCTGAACAACAGCTTTCTCTCCATCAACTTCGAG
AACTTGACCACGTCGGGTAGTTCCATCCCCAAGACGGATATTGACAATTTCTTGGTATTTAGGC
CCCTTGACTTTTTCAAGGATGACGAGAGGTCCCGCAACACCAGAAACAGTTCTATACTCCATGC
CGATCTCCAGGGTACCCTCCATTTCAAGGTTGTTTTCAGCAGCACCCATTTTAGAT
						
					

						Genomic sequence
						
							CATCGTTTGGCATGGTTAAAATGGGAATTTGAGTGATGGAACCTTTCCTCCCTTCAATTCGCCC
TGCTCTCTCGTATATGGTAGCCAAGTCGGTGTACATGTAACCTGGGTAACCACGCCTTCCAGGC
ACTTCTTCACGGGCAGCAGAGACCTAAGGGTATTAGTCAACGTTAAACACTATTTCAGGCTTCC
TATCATCTCAAAGTTCAAGAATTGTGAACAGAGCATGCAAATATCGGTTATCACCTCACGAAGA
GCATCGGCGTAGGAACTCATGTCTGTGAGAATGACAAGGACATGCTTGCCACATTCATATGCCA
AGTACTCAGCAGTTGTAAGTGCGATACGAGGAGTGATGATACGCTCAATAGTGGGGTCGTTTGC
CTGTGCGGAAAACAGAATGAGAAACCTTCAGAAAAACATTGGAACTAAAATTTGCTTCAAGATG
TCTGTAGTGTGATTGCGAGACTTGCCAAGTTAAGGAAAAGAGTCACTCTCTCCATCGATCCATT
CTCCTCGAAATCACGTTTAAAAAATTGTGCAGTCTCCATGTTCACACCCATTGCTGCGAACACA
ATGGCGAAGTTATCATCCTCCTGATGCTGCAAATTCACATAAATGGACCAATGTGATACTGTTT
TATAATACATTATGGCATTACACAACTACCAACTCATTGTAGATTTTACCAAATCAAAGGAGAA
GGACAAGGGGCGTTAAGTCACAAAAAAGTAATACTAACAAATCTCCCCAAGTAGGATTTGGTCG
ACAGAGCGCATGCAATGCTCTCATAAAAAAAGAAAGATTCAAGAGAGAATATCCTAGCTTAACT
TAACCCTCTTAATTTATCTTGTAATGGGTATGTCTAACTGTCTAAGGGATCACTGTTATAATTG
TAACAAACCAATTTCCAACTGTAGACACGGACCAGTAATGTATAAATCGTGATACCTCGAGAAG
ATTATCTGACTTCTCTAAACGCTTAACCAAACCAGCCTGACGGCAAATCTGAGCAGCAATTTCA
TTGTGGGGAAGACCTGCGGCAGAAAAGAGGGGAATCTTCTGTCCTCTGGCGATAGAGTTCATGA
CATCAATGGTGGATATACCCGTCTGAATCATCTCTTCAGGATAGGTTCTCTCACTGGGATTGAT
AGAACTTCCTGGAGAAACAAAAGTCTAGAATTATATCTGTGTGTTTTATTATGAGATAGTAATT
ATGTGACAAGAGGCTAAAGCAGCTCACCAGAAATATCCAAGTACGCCTCAGGCAATATAGGTGG
ACCGTTGTCAATGGGCTTCCCTGAACCATTGAAGATGCGACCAAGCATATCCAAAGAAACAGGA
GTTTTCAAAACCTATGGAAAAAACATTGGAAAATGTGAGTATATTATAGACACTGATACTTTAA
AACTTGGTAGCAAAAACAAACCTCTCCTGTAAATTGCACAGTTGTGTACTTGTTGTCGATTCCA
GATGTTCCCTCAAATACCTGGACAAGCAAATCAAAGAAATTTACCTCGCAGTGTGTTGAATAAT
AATGACTATGCAAGATTACATTGATTTACAAATGCGTTCAATTAAGCATCAAAGTGGAGACAAG
AGGAGCAGAAAACTAAAGAAGAGAGGAAGATTCAAGAAACCTGAACAACAGCTTTCTCTCCATC
AACTTCGAGAACTTGACCACGTCGGGTAGTTCCATCCCCAAGACGGATATTGACAATTTCTTGG
TATTTAGGCCCCTAGAGAGGAAAGCAGTATCATCAGGAAACCCATGGGACGAGAACATTATAAA
AGAGAAAGATGGAAACACCAATACCTTGACTTTTTCAAGGATGACGAGAGGTCCCGCAACACCA
GAAACAGTTCTATACTCTGCGGTATAAGCAAAAGGGTGTCAAATAGAAAAAGAAACCAGGCAAT
GCAATCACTGAATGATCAAATGATGATAACTCATAAGATCCCATAGGGTATATAGCAAATAAAG
GACGTCTTACCCATGCCGATCTCCAGGGTACCCTCCATTTCAAGGTTGTTTTCAGCAGCACCCA
TTTTAGAT
						
					

			
		

Sequences
Splice junction sequence	GATCCCATAGGGTATATAGCAAATAAAGGACGTCTTACCCATGCCGATCTCCAGGGTACCCTCC ATTTCAAGGTTGTTTTCAGCAGCACCCATTTTAGATcatcgtttggcatggttaaaatgggaat ttgagtgatggaacctttcctcccttcaattcgccctgctctctcgtatatggtagccaagtcg gtgtacat
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: 1016 Transcript exons: 18012741-18012891,18012987-18013124,18013214-18013342,18 013692-18013900,18013984-18014095,18014170-18014229,1801 4381-18014479,18014557-18014612,18014735-18014796 CATCGTTTGGCATGGTTAAAATGGGAATTTGAGTGATGGAACCTTTCCTCCCTTCAATTCGCCC TGCTCTCTCGTATATGGTAGCCAAGTCGGTGTACATGTAACCTGGGTAACCACGCCTTCCAGGC ACTTCTTCACGGGCAGCAGAGACCTCACGAAGAGCATCGGCGTAGGAACTCATGTCTGTGAGAA TGACAAGGACATGCTTGCCACATTCATATGCCAAGTACTCAGCAGTTGTAAGTGCGATACGAGG AGTGATGATACGCTCAATAGTGGGGTCGTTTGCCAAGTTAAGGAAAAGAGTCACTCTCTCCATC GATCCATTCTCCTCGAAATCACGTTTAAAAAATTGTGCAGTCTCCATGTTCACACCCATTGCTG CGAACACAATGGCGAAGTTATCATCCTCCTGATGCTCGAGAAGATTATCTGACTTCTCTAAACG CTTAACCAAACCAGCCTGACGGCAAATCTGAGCAGCAATTTCATTGTGGGGAAGACCTGCGGCA GAAAAGAGGGGAATCTTCTGTCCTCTGGCGATAGAGTTCATGACATCAATGGTGGATATACCCG TCTGAATCATCTCTTCAGGATAGGTTCTCTCACTGGGATTGATAGAACTTCCAGAAATATCCAA GTACGCCTCAGGCAATATAGGTGGACCGTTGTCAATGGGCTTCCCTGAACCATTGAAGATGCGA CCAAGCATATCCAAAGAAACAGGAGTTTTCAAAACCTCTCCTGTAAATTGCACAGTTGTGTACT TGTTGTCGATTCCAGATGTTCCCTCAAATACCTGAACAACAGCTTTCTCTCCATCAACTTCGAG AACTTGACCACGTCGGGTAGTTCCATCCCCAAGACGGATATTGACAATTTCTTGGTATTTAGGC CCCTTGACTTTTTCAAGGATGACGAGAGGTCCCGCAACACCAGAAACAGTTCTATACTCCATGC CGATCTCCAGGGTACCCTCCATTTCAAGGTTGTTTTCAGCAGCACCCATTTTAGAT
Genomic sequence	CATCGTTTGGCATGGTTAAAATGGGAATTTGAGTGATGGAACCTTTCCTCCCTTCAATTCGCCC TGCTCTCTCGTATATGGTAGCCAAGTCGGTGTACATGTAACCTGGGTAACCACGCCTTCCAGGC ACTTCTTCACGGGCAGCAGAGACCTAAGGGTATTAGTCAACGTTAAACACTATTTCAGGCTTCC TATCATCTCAAAGTTCAAGAATTGTGAACAGAGCATGCAAATATCGGTTATCACCTCACGAAGA GCATCGGCGTAGGAACTCATGTCTGTGAGAATGACAAGGACATGCTTGCCACATTCATATGCCA AGTACTCAGCAGTTGTAAGTGCGATACGAGGAGTGATGATACGCTCAATAGTGGGGTCGTTTGC CTGTGCGGAAAACAGAATGAGAAACCTTCAGAAAAACATTGGAACTAAAATTTGCTTCAAGATG TCTGTAGTGTGATTGCGAGACTTGCCAAGTTAAGGAAAAGAGTCACTCTCTCCATCGATCCATT CTCCTCGAAATCACGTTTAAAAAATTGTGCAGTCTCCATGTTCACACCCATTGCTGCGAACACA ATGGCGAAGTTATCATCCTCCTGATGCTGCAAATTCACATAAATGGACCAATGTGATACTGTTT TATAATACATTATGGCATTACACAACTACCAACTCATTGTAGATTTTACCAAATCAAAGGAGAA GGACAAGGGGCGTTAAGTCACAAAAAAGTAATACTAACAAATCTCCCCAAGTAGGATTTGGTCG ACAGAGCGCATGCAATGCTCTCATAAAAAAAGAAAGATTCAAGAGAGAATATCCTAGCTTAACT TAACCCTCTTAATTTATCTTGTAATGGGTATGTCTAACTGTCTAAGGGATCACTGTTATAATTG TAACAAACCAATTTCCAACTGTAGACACGGACCAGTAATGTATAAATCGTGATACCTCGAGAAG ATTATCTGACTTCTCTAAACGCTTAACCAAACCAGCCTGACGGCAAATCTGAGCAGCAATTTCA TTGTGGGGAAGACCTGCGGCAGAAAAGAGGGGAATCTTCTGTCCTCTGGCGATAGAGTTCATGA CATCAATGGTGGATATACCCGTCTGAATCATCTCTTCAGGATAGGTTCTCTCACTGGGATTGAT AGAACTTCCTGGAGAAACAAAAGTCTAGAATTATATCTGTGTGTTTTATTATGAGATAGTAATT ATGTGACAAGAGGCTAAAGCAGCTCACCAGAAATATCCAAGTACGCCTCAGGCAATATAGGTGG ACCGTTGTCAATGGGCTTCCCTGAACCATTGAAGATGCGACCAAGCATATCCAAAGAAACAGGA GTTTTCAAAACCTATGGAAAAAACATTGGAAAATGTGAGTATATTATAGACACTGATACTTTAA AACTTGGTAGCAAAAACAAACCTCTCCTGTAAATTGCACAGTTGTGTACTTGTTGTCGATTCCA GATGTTCCCTCAAATACCTGGACAAGCAAATCAAAGAAATTTACCTCGCAGTGTGTTGAATAAT AATGACTATGCAAGATTACATTGATTTACAAATGCGTTCAATTAAGCATCAAAGTGGAGACAAG AGGAGCAGAAAACTAAAGAAGAGAGGAAGATTCAAGAAACCTGAACAACAGCTTTCTCTCCATC AACTTCGAGAACTTGACCACGTCGGGTAGTTCCATCCCCAAGACGGATATTGACAATTTCTTGG TATTTAGGCCCCTAGAGAGGAAAGCAGTATCATCAGGAAACCCATGGGACGAGAACATTATAAA AGAGAAAGATGGAAACACCAATACCTTGACTTTTTCAAGGATGACGAGAGGTCCCGCAACACCA GAAACAGTTCTATACTCTGCGGTATAAGCAAAAGGGTGTCAAATAGAAAAAGAAACCAGGCAAT GCAATCACTGAATGATCAAATGATGATAACTCATAAGATCCCATAGGGTATATAGCAAATAAAG GACGTCTTACCCATGCCGATCTCCAGGGTACCCTCCATTTCAAGGTTGTTTTCAGCAGCACCCA TTTTAGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.217676003

Conservation Information
Conserved circRNAs	NA
PMCS	0.217676003

			
						 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
						Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT4G38510_circ_g.5

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