Plant Circular RNA Database

Detail information of AT4G38510_circ_g.8

			
						 General Information
					
						CircRNA Name
						AT4G38510_circ_g.8
					
						ID in PlantcircBase
						ath_circ_035411
					
						Alias
						4:18013692-18014796
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 18013692-18014796  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						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.5 AT4G38510_circ_g.6 AT4G38510_circ_g.7 AT4G38510_circ_g.9 AT4G38510_circ_g.10 AT4G38510_circ_g.11 AT4G38510_circ_g.12 AT4G38510_circ_g.13 						
					
						Support reads
						1/1
					
						Tissues
						root;flower
					
						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
						AT4G38510.2:6
AT4G38510.5:6
AT4G38510.1:6
AT4G38510.4:6
AT4G38510.3:6

General Information
CircRNA Name	AT4G38510_circ_g.8
ID in PlantcircBase	ath_circ_035411
Alias	4:18013692-18014796
Organism	Arabidpsis thaliana
Position	chr4: 18013692-18014796 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
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.5 AT4G38510_circ_g.6 AT4G38510_circ_g.7 AT4G38510_circ_g.9 AT4G38510_circ_g.10 AT4G38510_circ_g.11 AT4G38510_circ_g.12 AT4G38510_circ_g.13
Support reads	1/1
Tissues	root;flower
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	AT4G38510.2:6 AT4G38510.5:6 AT4G38510.1:6 AT4G38510.4:6 AT4G38510.3:6

			
						 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
ATTTCAAGGTTGTTTTCAGCAGCACCCATTTTAGATctcgagaagattatctgacttctctaaa
cgcttaaccaaaccagcctgacggcaaatctgagcagcaatttcattgtggggaagacctgcgg
cagaaaag

									
								

					

						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: 598
Transcript exons: 18013692-18013900,18013984-18014095,18014170-18014229,18
014381-18014479,18014557-18014612,18014735-18014796
CTCGAGAAGATTATCTGACTTCTCTAAACGCTTAACCAAACCAGCCTGACGGCAAATCTGAGCA
GCAATTTCATTGTGGGGAAGACCTGCGGCAGAAAAGAGGGGAATCTTCTGTCCTCTGGCGATAG
AGTTCATGACATCAATGGTGGATATACCCGTCTGAATCATCTCTTCAGGATAGGTTCTCTCACT
GGGATTGATAGAACTTCCAGAAATATCCAAGTACGCCTCAGGCAATATAGGTGGACCGTTGTCA
ATGGGCTTCCCTGAACCATTGAAGATGCGACCAAGCATATCCAAAGAAACAGGAGTTTTCAAAA
CCTCTCCTGTAAATTGCACAGTTGTGTACTTGTTGTCGATTCCAGATGTTCCCTCAAATACCTG
AACAACAGCTTTCTCTCCATCAACTTCGAGAACTTGACCACGTCGGGTAGTTCCATCCCCAAGA
CGGATATTGACAATTTCTTGGTATTTAGGCCCCTTGACTTTTTCAAGGATGACGAGAGGTCCCG
CAACACCAGAAACAGTTCTATACTCCATGCCGATCTCCAGGGTACCCTCCATTTCAAGGTTGTT
TTCAGCAGCACCCATTTTAGAT
						
					

						Genomic sequence
						
							CTCGAGAAGATTATCTGACTTCTCTAAACGCTTAACCAAACCAGCCTGACGGCAAATCTGAGCA
GCAATTTCATTGTGGGGAAGACCTGCGGCAGAAAAGAGGGGAATCTTCTGTCCTCTGGCGATAG
AGTTCATGACATCAATGGTGGATATACCCGTCTGAATCATCTCTTCAGGATAGGTTCTCTCACT
GGGATTGATAGAACTTCCTGGAGAAACAAAAGTCTAGAATTATATCTGTGTGTTTTATTATGAG
ATAGTAATTATGTGACAAGAGGCTAAAGCAGCTCACCAGAAATATCCAAGTACGCCTCAGGCAA
TATAGGTGGACCGTTGTCAATGGGCTTCCCTGAACCATTGAAGATGCGACCAAGCATATCCAAA
GAAACAGGAGTTTTCAAAACCTATGGAAAAAACATTGGAAAATGTGAGTATATTATAGACACTG
ATACTTTAAAACTTGGTAGCAAAAACAAACCTCTCCTGTAAATTGCACAGTTGTGTACTTGTTG
TCGATTCCAGATGTTCCCTCAAATACCTGGACAAGCAAATCAAAGAAATTTACCTCGCAGTGTG
TTGAATAATAATGACTATGCAAGATTACATTGATTTACAAATGCGTTCAATTAAGCATCAAAGT
GGAGACAAGAGGAGCAGAAAACTAAAGAAGAGAGGAAGATTCAAGAAACCTGAACAACAGCTTT
CTCTCCATCAACTTCGAGAACTTGACCACGTCGGGTAGTTCCATCCCCAAGACGGATATTGACA
ATTTCTTGGTATTTAGGCCCCTAGAGAGGAAAGCAGTATCATCAGGAAACCCATGGGACGAGAA
CATTATAAAAGAGAAAGATGGAAACACCAATACCTTGACTTTTTCAAGGATGACGAGAGGTCCC
GCAACACCAGAAACAGTTCTATACTCTGCGGTATAAGCAAAAGGGTGTCAAATAGAAAAAGAAA
CCAGGCAATGCAATCACTGAATGATCAAATGATGATAACTCATAAGATCCCATAGGGTATATAG
CAAATAAAGGACGTCTTACCCATGCCGATCTCCAGGGTACCCTCCATTTCAAGGTTGTTTTCAG
CAGCACCCATTTTAGAT
						
					

			
		

Sequences
Splice junction sequence	GATCCCATAGGGTATATAGCAAATAAAGGACGTCTTACCCATGCCGATCTCCAGGGTACCCTCC ATTTCAAGGTTGTTTTCAGCAGCACCCATTTTAGATctcgagaagattatctgacttctctaaa cgcttaaccaaaccagcctgacggcaaatctgagcagcaatttcattgtggggaagacctgcgg cagaaaag
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: 598 Transcript exons: 18013692-18013900,18013984-18014095,18014170-18014229,18 014381-18014479,18014557-18014612,18014735-18014796 CTCGAGAAGATTATCTGACTTCTCTAAACGCTTAACCAAACCAGCCTGACGGCAAATCTGAGCA GCAATTTCATTGTGGGGAAGACCTGCGGCAGAAAAGAGGGGAATCTTCTGTCCTCTGGCGATAG AGTTCATGACATCAATGGTGGATATACCCGTCTGAATCATCTCTTCAGGATAGGTTCTCTCACT GGGATTGATAGAACTTCCAGAAATATCCAAGTACGCCTCAGGCAATATAGGTGGACCGTTGTCA ATGGGCTTCCCTGAACCATTGAAGATGCGACCAAGCATATCCAAAGAAACAGGAGTTTTCAAAA CCTCTCCTGTAAATTGCACAGTTGTGTACTTGTTGTCGATTCCAGATGTTCCCTCAAATACCTG AACAACAGCTTTCTCTCCATCAACTTCGAGAACTTGACCACGTCGGGTAGTTCCATCCCCAAGA CGGATATTGACAATTTCTTGGTATTTAGGCCCCTTGACTTTTTCAAGGATGACGAGAGGTCCCG CAACACCAGAAACAGTTCTATACTCCATGCCGATCTCCAGGGTACCCTCCATTTCAAGGTTGTT TTCAGCAGCACCCATTTTAGAT
Genomic sequence	CTCGAGAAGATTATCTGACTTCTCTAAACGCTTAACCAAACCAGCCTGACGGCAAATCTGAGCA GCAATTTCATTGTGGGGAAGACCTGCGGCAGAAAAGAGGGGAATCTTCTGTCCTCTGGCGATAG AGTTCATGACATCAATGGTGGATATACCCGTCTGAATCATCTCTTCAGGATAGGTTCTCTCACT GGGATTGATAGAACTTCCTGGAGAAACAAAAGTCTAGAATTATATCTGTGTGTTTTATTATGAG ATAGTAATTATGTGACAAGAGGCTAAAGCAGCTCACCAGAAATATCCAAGTACGCCTCAGGCAA TATAGGTGGACCGTTGTCAATGGGCTTCCCTGAACCATTGAAGATGCGACCAAGCATATCCAAA GAAACAGGAGTTTTCAAAACCTATGGAAAAAACATTGGAAAATGTGAGTATATTATAGACACTG ATACTTTAAAACTTGGTAGCAAAAACAAACCTCTCCTGTAAATTGCACAGTTGTGTACTTGTTG TCGATTCCAGATGTTCCCTCAAATACCTGGACAAGCAAATCAAAGAAATTTACCTCGCAGTGTG TTGAATAATAATGACTATGCAAGATTACATTGATTTACAAATGCGTTCAATTAAGCATCAAAGT GGAGACAAGAGGAGCAGAAAACTAAAGAAGAGAGGAAGATTCAAGAAACCTGAACAACAGCTTT CTCTCCATCAACTTCGAGAACTTGACCACGTCGGGTAGTTCCATCCCCAAGACGGATATTGACA ATTTCTTGGTATTTAGGCCCCTAGAGAGGAAAGCAGTATCATCAGGAAACCCATGGGACGAGAA CATTATAAAAGAGAAAGATGGAAACACCAATACCTTGACTTTTTCAAGGATGACGAGAGGTCCC GCAACACCAGAAACAGTTCTATACTCTGCGGTATAAGCAAAAGGGTGTCAAATAGAAAAAGAAA CCAGGCAATGCAATCACTGAATGATCAAATGATGATAACTCATAAGATCCCATAGGGTATATAG CAAATAAAGGACGTCTTACCCATGCCGATCTCCAGGGTACCCTCCATTTCAAGGTTGTTTTCAG CAGCACCCATTTTAGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.272047111

Conservation Information
Conserved circRNAs	NA
PMCS	0.272047111

			
						 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 AT4G38510_circ_g.8

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