Plant Circular RNA Database

Detail information of AT4G01800_circ_g.12

			
						 General Information
					
						CircRNA Name
						AT4G01800_circ_g.12
					
						ID in PlantcircBase
						ath_circ_029256
					
						Alias
						At_ciR4828, AT4G01800_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 773591-774130  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ, CIRI-full, CIRI2
					
						Parent gene
						
							AT4G01800						
					
						Parent gene annotation
						
							Albino or Glassy Yellow 1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G01800_circ_g.1 AT4G01800_circ_g.2 AT4G01800_circ_g.3 AT4G01800_circ_g.4 AT4G01800_circ_g.5 AT4G01800_circ_g.6 AT4G01800_circ_g.7 AT4G01800_circ_g.8 AT4G01800_circ_g.9 AT4G01800_circ_g.10 AT4G01800_circ_g.11 						
					
						Support reads
						2/8
					
						Tissues
						leaf/seedlings
					
						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
						AT4G01800.1:2
AT4G01800.2:2
AT4G01800.3:2

General Information
CircRNA Name	AT4G01800_circ_g.12
ID in PlantcircBase	ath_circ_029256
Alias	At_ciR4828, AT4G01800_C1
Organism	Arabidpsis thaliana
Position	chr4: 773591-774130 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ, CIRI-full, CIRI2
Parent gene	AT4G01800
Parent gene annotation	Albino or Glassy Yellow 1
Parent gene strand	-
Alternative splicing	AT4G01800_circ_g.1 AT4G01800_circ_g.2 AT4G01800_circ_g.3 AT4G01800_circ_g.4 AT4G01800_circ_g.5 AT4G01800_circ_g.6 AT4G01800_circ_g.7 AT4G01800_circ_g.8 AT4G01800_circ_g.9 AT4G01800_circ_g.10 AT4G01800_circ_g.11
Support reads	2/8
Tissues	leaf/seedlings
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	AT4G01800.1:2 AT4G01800.2:2 AT4G01800.3:2

			
						 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  
						
							GCTTATTTGTGGGTACAATTGTAACTTTAAGCTTGTATATGCTTTCAAATTCTGCACTCTCGGT
CGATGCTGTACCCGTCATCCCGCAAAGTTTCGGAAActcatgagttattccagcttccctcaac
agttgcgatagttcatcactctgctcgacactggttgtgccaactagcacagccctacctgtct
tgtgcatt

						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: 282
Transcript exons: 773591-773758,774017-774130
CTCATGAGTTATTCCAGCTTCCCTCAACAGTTGCGATAGTTCATCACTCTGCTCGACACTGGTT
GTGCCAACTAGCACAGCCCTACCTGTCTTGTGCATTCTAGAGATCTCCACTACTACTGCCCGCC
ATTTGCCATTGACTGCCTTGAAAACCACATCTGACTCATCCTTTCTTATCATGGGCTTATTTGT
GGGTACAATTGTAACTTTAAGCTTGTATATGCTTTCAAATTCTGCACTCTCGGTCGATGCTGTA
CCCGTCATCCCGCAAAGTTTCGGAAA
Transcript length: 390
Transcript exons: 773591-773758,773909-774130
CTCATGAGTTATTCCAGCTTCCCTCAACAGTTGCGATAGTTCATCACTCTGCTCGACACTGGTT
GTGCCAACTAGCACAGCCCTACCTGTCTTGTGCATTCTAGAGATCTCCACTACTACTGCCCGCC
ATTTGCCATTGACTGCCTTGAAAACCACATCTGACTCATCTAGAAGGCCAACATACACGAATTT
TAGATCTTCCGATGGAGAACAATTGTGAAGACCAACAGTCTGAATTTTGAGGTACAAGTTCAGA
GCATAAGATAGGAGACAAACCTTTCTTATCATGGGCTTATTTGTGGGTACAATTGTAACTTTAA
GCTTGTATATGCTTTCAAATTCTGCACTCTCGGTCGATGCTGTACCCGTCATCCCGCAAAGTTT
CGGAAA
						
						Genomic sequence
						
							CTCATGAGTTATTCCAGCTTCCCTCAACAGTTGCGATAGTTCATCACTCTGCTCGACACTGGTT
GTGCCAACTAGCACAGCCCTACCTGTCTTGTGCATTCTAGAGATCTCCACTACTACTGCCCGCC
ATTTGCCATTGACTGCCTTGAAAACCACATCTGACTCATCCTGAAAGTGATTTAAAAAGGTATA
AGACAGGGAAAGAGAGACGTTTTTTTTTTGAAAAGAAAATATCAAAATCGGAAACTAGTACAGC
ATACAATGTCCTTCCAGAACTAACATGGATGTTTAACATTTTTCCACTTTAACAGATCTCACTA
GAAGGCCAACATACACGAATTTTAGATCTTCCGATGGAGAACAATTGTGAAGACCAACAGTCTG
AATTTTGAGGTACAAGTTCAGAGCATAAGATAGGAGACAAACCTTTCTTATCATGGGCTTATTT
GTGGGTACAATTGTAACTTTAAGCTTGTATATGCTTTCAAATTCTGCACTCTCGGTCGATGCTG
TACCCGTCATCCCGCAAAGTTTCGGAAA

Sequences
Splice junction sequence	GCTTATTTGTGGGTACAATTGTAACTTTAAGCTTGTATATGCTTTCAAATTCTGCACTCTCGGT CGATGCTGTACCCGTCATCCCGCAAAGTTTCGGAAActcatgagttattccagcttccctcaac agttgcgatagttcatcactctgctcgacactggttgtgccaactagcacagccctacctgtct tgtgcatt
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: 282 Transcript exons: 773591-773758,774017-774130 CTCATGAGTTATTCCAGCTTCCCTCAACAGTTGCGATAGTTCATCACTCTGCTCGACACTGGTT GTGCCAACTAGCACAGCCCTACCTGTCTTGTGCATTCTAGAGATCTCCACTACTACTGCCCGCC ATTTGCCATTGACTGCCTTGAAAACCACATCTGACTCATCCTTTCTTATCATGGGCTTATTTGT GGGTACAATTGTAACTTTAAGCTTGTATATGCTTTCAAATTCTGCACTCTCGGTCGATGCTGTA CCCGTCATCCCGCAAAGTTTCGGAAA Transcript length: 390 Transcript exons: 773591-773758,773909-774130 CTCATGAGTTATTCCAGCTTCCCTCAACAGTTGCGATAGTTCATCACTCTGCTCGACACTGGTT GTGCCAACTAGCACAGCCCTACCTGTCTTGTGCATTCTAGAGATCTCCACTACTACTGCCCGCC ATTTGCCATTGACTGCCTTGAAAACCACATCTGACTCATCTAGAAGGCCAACATACACGAATTT TAGATCTTCCGATGGAGAACAATTGTGAAGACCAACAGTCTGAATTTTGAGGTACAAGTTCAGA GCATAAGATAGGAGACAAACCTTTCTTATCATGGGCTTATTTGTGGGTACAATTGTAACTTTAA GCTTGTATATGCTTTCAAATTCTGCACTCTCGGTCGATGCTGTACCCGTCATCCCGCAAAGTTT CGGAAA
Genomic sequence	CTCATGAGTTATTCCAGCTTCCCTCAACAGTTGCGATAGTTCATCACTCTGCTCGACACTGGTT GTGCCAACTAGCACAGCCCTACCTGTCTTGTGCATTCTAGAGATCTCCACTACTACTGCCCGCC ATTTGCCATTGACTGCCTTGAAAACCACATCTGACTCATCCTGAAAGTGATTTAAAAAGGTATA AGACAGGGAAAGAGAGACGTTTTTTTTTTGAAAAGAAAATATCAAAATCGGAAACTAGTACAGC ATACAATGTCCTTCCAGAACTAACATGGATGTTTAACATTTTTCCACTTTAACAGATCTCACTA GAAGGCCAACATACACGAATTTTAGATCTTCCGATGGAGAACAATTGTGAAGACCAACAGTCTG AATTTTGAGGTACAAGTTCAGAGCATAAGATAGGAGACAAACCTTTCTTATCATGGGCTTATTT GTGGGTACAATTGTAACTTTAAGCTTGTATATGCTTTCAAATTCTGCACTCTCGGTCGATGCTG TACCCGTCATCCCGCAAAGTTTCGGAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.342122353

Conservation Information
Conserved circRNAs	NA
PMCS	0.342122353

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							774113-773593(-)
						
						Potential amino acid sequence
						
							MTGTASTESAEFESIYKLKVTIVPTNKPMIRKDESDVVFKAVNGKWRAVVVEISRMHKTGRAVL
VGTTSVEQSDELSQLLREAGITHEFPKLCGMTGTASTESAEFESIYKLKVTIVPTNKPMIRKDE
SDVVFKAVNGKWRAVVVEISRMHKTGRAVLVGTTSVEQSDELSQLLREAGITHEFPKLCGMTGT
ASTESAEFESIYKLKVTIVPTNKPMIRKDESDVVFKAVNGKWRAVVVEISRMHKTGRAVLVGTT
SVEQSDELSQLLREAGITHEFPKLCGMTGTASTESAEFESIYKLKVTIVPTNKPMIRKDESDVV
FKAVNGKWRAVVVEISRMHKTGRAVLVGTTSVEQSDELSQLLREAGITHE(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress; responsive to heat stress

Functional Information
Coding potential	Y
Potential coding position	774113-773593(-)
Potential amino acid sequence	MTGTASTESAEFESIYKLKVTIVPTNKPMIRKDESDVVFKAVNGKWRAVVVEISRMHKTGRAVL VGTTSVEQSDELSQLLREAGITHEFPKLCGMTGTASTESAEFESIYKLKVTIVPTNKPMIRKDE SDVVFKAVNGKWRAVVVEISRMHKTGRAVLVGTTSVEQSDELSQLLREAGITHEFPKLCGMTGT ASTESAEFESIYKLKVTIVPTNKPMIRKDESDVVFKAVNGKWRAVVVEISRMHKTGRAVLVGTT SVEQSDELSQLLREAGITHEFPKLCGMTGTASTESAEFESIYKLKVTIVPTNKPMIRKDESDVV FKAVNGKWRAVVVEISRMHKTGRAVLVGTTSVEQSDELSQLLREAGITHE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress; responsive to heat stress

			
						 Other Information
					
						References
						Ye et al., 2015;Pan et al., 2017;Zhang et al., 2019

circRNA

Detail information of AT4G01800_circ_g.12

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