Plant Circular RNA Database

Detail information of AT2G44710_circ_g.9

			
						 General Information
					
						CircRNA Name
						AT2G44710_circ_g.9
					
						ID in PlantcircBase
						ath_circ_018389
					
						Alias
						At_ciR1638, Ath_circ_FC1685
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 18434827-18436631  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						PcircRNA_finder, find_circ
					
						Parent gene
						
							AT2G44710						
					
						Parent gene annotation
						
							At2g44720/F16B22.21
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G44710_circ_g.4 AT2G44710_circ_g.5 AT2G44710_circ_g.6 AT2G44710_circ_g.7 AT2G44710_circ_g.8 AT2G44710_circ_g.10 AT2G44710_circ_g.11 AT2G44710_circ_g.12 AT2G44710_circ_g.13 AT2G44710_circ_g.14 AT2G44710_circ_g.15 						
					
						Support reads
						6/8
					
						Tissues
						leaf/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  
						
							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
						AT2G44710.3:7
AT2G44710.2:7
AT2G44710.1:7
AT2G44710.4:7

General Information
CircRNA Name	AT2G44710_circ_g.9
ID in PlantcircBase	ath_circ_018389
Alias	At_ciR1638, Ath_circ_FC1685
Organism	Arabidpsis thaliana
Position	chr2: 18434827-18436631 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	PcircRNA_finder, find_circ
Parent gene	AT2G44710
Parent gene annotation	At2g44720/F16B22.21
Parent gene strand	+
Alternative splicing	AT2G44710_circ_g.4 AT2G44710_circ_g.5 AT2G44710_circ_g.6 AT2G44710_circ_g.7 AT2G44710_circ_g.8 AT2G44710_circ_g.10 AT2G44710_circ_g.11 AT2G44710_circ_g.12 AT2G44710_circ_g.13 AT2G44710_circ_g.14 AT2G44710_circ_g.15
Support reads	6/8
Tissues	leaf/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	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	AT2G44710.3:7 AT2G44710.2:7 AT2G44710.1:7 AT2G44710.4:7

			
						 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  
						
							ATTTACAGGGAGGAGGTAGCTCGTATTCTTCAATTTACTCCAGCCGTGGCTTGGGTGGTAGTAG
TTACTCTGGTGGTGGTCCAGGATCATACTACTGAATgttaagacaatcttcattgacggtctgt
taccttcatggaatgaagaacgtgttagagaccttctgaaaccatatggtaaacttgaaaaagt
tgagcttg

									
								

					

						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: 1265
Transcript exons: 18434827-18435048,18435123-18435480,18435586-18435899,18
435992-18436095,18436188-18436291,18436388-18436458,1843
6540-18436631
GTTAAGACAATCTTCATTGACGGTCTGTTACCTTCATGGAATGAAGAACGTGTTAGAGACCTTC
TGAAACCATATGGTAAACTTGAAAAAGTTGAGCTTGCTCGCAATATGCCATCAGCAAGGAGGAA
AGATTTTGGCTTTGTAACTTTTGATACTCATGAAGCTGCTGTGAGTTGTGCCAAATTCATCAAC
AACTCAGAGCTAGGCGAAGGGGAGGACAAGGCAAAAGTGAGAGCACGCCTGTCTAGACCACTTC
AGAAAGCAGGTAAAGGCCGACAATCTAGTCGCTCAGACCAGCGGTCTAGGCATGGGGCTGGACG
GTCTGGAAGGAGTTCATTTGCTCGTCTTCCACCTCGTAGCCTTGCTTCCTCTCGGAGTGCTAGA
GGCGCTGGATCTCGGGCCCCATCTTCTAGTGCAAAGAGAGCTTCTGGATCAAGAGGAAGACGTC
CTCGCCCACCTCTACCTCCGCCTGCAAGAGCTAGGCCCTTGCCTCCACCTGCAAGAGCCAGGCC
CATGCCACCACCTGCAAGAGCCAGGCCCTTGCCACCACCTGCTAGGTCATATGATAGAAGACCT
CCAGTTCCTCTGTATCCAAAGGCTAGCTTGAAGAGAGACTATGATCGGCGTGATGAACTTCCTC
CTCCAAGAAGCAGACCAGCTGTAAGCTATAGTTCCAGGCTTTCTCCTGAGAGGCATCTGTCTTA
CAGAGATGATTATCCACCCCGGGGTTCGGGTTATTCAGATCTTCCTAGAAGTTCTTCTCGCTCT
GAAATTAGGAGGCCATTCGTAGATGACCTTTACAGTCCGAGATTTGAAAGACCTCCAAGTTACA
GTGAGGGAAGACCTCGTGCTTATGAACCTCTTCCTGGATCAAAGCGTCCATATGCTGCACTGGA
TGACCTTCCTCCCCGTTATGCTGATGTTGATGTTCGTCATTCAAGACCCCGTCTGGACTATGAT
GTTGGCCCATCTCAATATGGGGAATCCTACGGGGACCGGATTCCTAGGTCTAGTCTAGGATATG
GAAGCAGCCGAAATTCTATGTCAAATCATGACTCGCGGGGCCCATACAGCAGTCGTCAGGGAAT
GGATTATGGAGGAGGTTCTTATAGTGGCAGCGATGTAGGAGGTATGTACTCGTCAAGCTATGGT
GGCGACTTACCCAGAAGAGATGGAGGAGGTAGCTCGTATTCTTCAATTTACTCCAGCCGTGGCT
TGGGTGGTAGTAGTTACTCTGGTGGTGGTCCAGGATCATACTACTGAAT
						
					

						Genomic sequence
						
							GTTAAGACAATCTTCATTGACGGTCTGTTACCTTCATGGAATGAAGAACGTGTTAGAGACCTTC
TGAAACCATATGGTAAACTTGAAAAAGTTGAGCTTGCTCGCAATATGCCATCAGCAAGGAGGAA
AGATTTTGGCTTTGTAACTTTTGATACTCATGAAGCTGCTGTGAGTTGTGCCAAATTCATCAAC
AACTCAGAGCTAGGCGAAGGGGAGGACAAGGTATGCATAATTTAAATGCATTATCCTTATCCAC
GAAGTATTTTCTTGCTTTCTAATTCTCTTTTTTTTTCCAGGCAAAAGTGAGAGCACGCCTGTCT
AGACCACTTCAGAAAGCAGGTAAAGGCCGACAATCTAGTCGCTCAGACCAGCGGTCTAGGCATG
GGGCTGGACGGTCTGGAAGGAGTTCATTTGCTCGTCTTCCACCTCGTAGCCTTGCTTCCTCTCG
GAGTGCTAGAGGCGCTGGATCTCGGGCCCCATCTTCTAGTGCAAAGAGAGCTTCTGGATCAAGA
GGAAGACGTCCTCGCCCACCTCTACCTCCGCCTGCAAGAGCTAGGCCCTTGCCTCCACCTGCAA
GAGCCAGGCCCATGCCACCACCTGCAAGAGCCAGGCCCTTGCCACCACCTGCTAGGTCATATGA
TAGAAGACCTCCAGGTACCACTGGAATTATTACATGTTTAGTTATCTTTTTTAGTTGAATCTCT
TTTGTGTTCATGTATCTAATGATTCTGATCATATCTTCCATATTGTGTTTTGCAGTTCCTCTGT
ATCCAAAGGCTAGCTTGAAGAGAGACTATGATCGGCGTGATGAACTTCCTCCTCCAAGAAGCAG
ACCAGCTGTAAGCTATAGTTCCAGGCTTTCTCCTGAGAGGCATCTGTCTTACAGAGATGATTAT
CCACCCCGGGGTTCGGGTTATTCAGATCTTCCTAGAAGTTCTTCTCGCTCTGAAATTAGGAGGC
CATTCGTAGATGACCTTTACAGTCCGAGATTTGAAAGACCTCCAAGTTACAGTGAGGGAAGACC
TCGTGCTTATGAACCTCTTCCTGGATCAAAGCGTCCATATGCTGCACTGGTCTGACTTATTGTT
TTCTCCGACCAGTTTGTCTTCTTAATTTTGTTTCTTTAGACTATGATTGTTTACTCTAACGAGT
GTTCATTATTCAGGATGACCTTCCTCCCCGTTATGCTGATGTTGATGTTCGTCATTCAAGACCC
CGTCTGGACTATGATGTTGGCCCATCTCAATATGGGGAATCCTACGGGGACCGGTATGTTCTCT
TTTTATGGATAGCTTCAGTTATTTTTGGTAGCAATTTTCTGTGCCAAGTGTATTATTTTCTTAC
TTCCATGTTTGGTCTAGGATTCCTAGGTCTAGTCTAGGATATGGAAGCAGCCGAAATTCTATGT
CAAATCATGACTCGCGGGGCCCATACAGCAGTCGTCAGGGAATGGATTATGGAGGAGGTTTGAT
TCAGAACTTGGCTTAACAGAGAGCAATACTTCGTCGAGATACACTTACTGCCTTCAATGGCTAT
AATTTCATAATGTTGCTTTCTTCAGGTTCTTATAGTGGCAGCGATGTAGGAGGTATGTACTCGT
CAAGCTATGGTGGCGACTTACCCAGAAGAGATGTAAGTGGCTTCACACTTTCCCCTTTTTTATA
TTTATTTTGGAAAGTCAAGTTGTGTAACATTTTAGTATTGGATTTACAGGGAGGAGGTAGCTCG
TATTCTTCAATTTACTCCAGCCGTGGCTTGGGTGGTAGTAGTTACTCTGGTGGTGGTCCAGGAT
CATACTACTGAAT
						
					

			
		

Sequences
Splice junction sequence	ATTTACAGGGAGGAGGTAGCTCGTATTCTTCAATTTACTCCAGCCGTGGCTTGGGTGGTAGTAG TTACTCTGGTGGTGGTCCAGGATCATACTACTGAATgttaagacaatcttcattgacggtctgt taccttcatggaatgaagaacgtgttagagaccttctgaaaccatatggtaaacttgaaaaagt tgagcttg
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: 1265 Transcript exons: 18434827-18435048,18435123-18435480,18435586-18435899,18 435992-18436095,18436188-18436291,18436388-18436458,1843 6540-18436631 GTTAAGACAATCTTCATTGACGGTCTGTTACCTTCATGGAATGAAGAACGTGTTAGAGACCTTC TGAAACCATATGGTAAACTTGAAAAAGTTGAGCTTGCTCGCAATATGCCATCAGCAAGGAGGAA AGATTTTGGCTTTGTAACTTTTGATACTCATGAAGCTGCTGTGAGTTGTGCCAAATTCATCAAC AACTCAGAGCTAGGCGAAGGGGAGGACAAGGCAAAAGTGAGAGCACGCCTGTCTAGACCACTTC AGAAAGCAGGTAAAGGCCGACAATCTAGTCGCTCAGACCAGCGGTCTAGGCATGGGGCTGGACG GTCTGGAAGGAGTTCATTTGCTCGTCTTCCACCTCGTAGCCTTGCTTCCTCTCGGAGTGCTAGA GGCGCTGGATCTCGGGCCCCATCTTCTAGTGCAAAGAGAGCTTCTGGATCAAGAGGAAGACGTC CTCGCCCACCTCTACCTCCGCCTGCAAGAGCTAGGCCCTTGCCTCCACCTGCAAGAGCCAGGCC CATGCCACCACCTGCAAGAGCCAGGCCCTTGCCACCACCTGCTAGGTCATATGATAGAAGACCT CCAGTTCCTCTGTATCCAAAGGCTAGCTTGAAGAGAGACTATGATCGGCGTGATGAACTTCCTC CTCCAAGAAGCAGACCAGCTGTAAGCTATAGTTCCAGGCTTTCTCCTGAGAGGCATCTGTCTTA CAGAGATGATTATCCACCCCGGGGTTCGGGTTATTCAGATCTTCCTAGAAGTTCTTCTCGCTCT GAAATTAGGAGGCCATTCGTAGATGACCTTTACAGTCCGAGATTTGAAAGACCTCCAAGTTACA GTGAGGGAAGACCTCGTGCTTATGAACCTCTTCCTGGATCAAAGCGTCCATATGCTGCACTGGA TGACCTTCCTCCCCGTTATGCTGATGTTGATGTTCGTCATTCAAGACCCCGTCTGGACTATGAT GTTGGCCCATCTCAATATGGGGAATCCTACGGGGACCGGATTCCTAGGTCTAGTCTAGGATATG GAAGCAGCCGAAATTCTATGTCAAATCATGACTCGCGGGGCCCATACAGCAGTCGTCAGGGAAT GGATTATGGAGGAGGTTCTTATAGTGGCAGCGATGTAGGAGGTATGTACTCGTCAAGCTATGGT GGCGACTTACCCAGAAGAGATGGAGGAGGTAGCTCGTATTCTTCAATTTACTCCAGCCGTGGCT TGGGTGGTAGTAGTTACTCTGGTGGTGGTCCAGGATCATACTACTGAAT
Genomic sequence	GTTAAGACAATCTTCATTGACGGTCTGTTACCTTCATGGAATGAAGAACGTGTTAGAGACCTTC TGAAACCATATGGTAAACTTGAAAAAGTTGAGCTTGCTCGCAATATGCCATCAGCAAGGAGGAA AGATTTTGGCTTTGTAACTTTTGATACTCATGAAGCTGCTGTGAGTTGTGCCAAATTCATCAAC AACTCAGAGCTAGGCGAAGGGGAGGACAAGGTATGCATAATTTAAATGCATTATCCTTATCCAC GAAGTATTTTCTTGCTTTCTAATTCTCTTTTTTTTTCCAGGCAAAAGTGAGAGCACGCCTGTCT AGACCACTTCAGAAAGCAGGTAAAGGCCGACAATCTAGTCGCTCAGACCAGCGGTCTAGGCATG GGGCTGGACGGTCTGGAAGGAGTTCATTTGCTCGTCTTCCACCTCGTAGCCTTGCTTCCTCTCG GAGTGCTAGAGGCGCTGGATCTCGGGCCCCATCTTCTAGTGCAAAGAGAGCTTCTGGATCAAGA GGAAGACGTCCTCGCCCACCTCTACCTCCGCCTGCAAGAGCTAGGCCCTTGCCTCCACCTGCAA GAGCCAGGCCCATGCCACCACCTGCAAGAGCCAGGCCCTTGCCACCACCTGCTAGGTCATATGA TAGAAGACCTCCAGGTACCACTGGAATTATTACATGTTTAGTTATCTTTTTTAGTTGAATCTCT TTTGTGTTCATGTATCTAATGATTCTGATCATATCTTCCATATTGTGTTTTGCAGTTCCTCTGT ATCCAAAGGCTAGCTTGAAGAGAGACTATGATCGGCGTGATGAACTTCCTCCTCCAAGAAGCAG ACCAGCTGTAAGCTATAGTTCCAGGCTTTCTCCTGAGAGGCATCTGTCTTACAGAGATGATTAT CCACCCCGGGGTTCGGGTTATTCAGATCTTCCTAGAAGTTCTTCTCGCTCTGAAATTAGGAGGC CATTCGTAGATGACCTTTACAGTCCGAGATTTGAAAGACCTCCAAGTTACAGTGAGGGAAGACC TCGTGCTTATGAACCTCTTCCTGGATCAAAGCGTCCATATGCTGCACTGGTCTGACTTATTGTT TTCTCCGACCAGTTTGTCTTCTTAATTTTGTTTCTTTAGACTATGATTGTTTACTCTAACGAGT GTTCATTATTCAGGATGACCTTCCTCCCCGTTATGCTGATGTTGATGTTCGTCATTCAAGACCC CGTCTGGACTATGATGTTGGCCCATCTCAATATGGGGAATCCTACGGGGACCGGTATGTTCTCT TTTTATGGATAGCTTCAGTTATTTTTGGTAGCAATTTTCTGTGCCAAGTGTATTATTTTCTTAC TTCCATGTTTGGTCTAGGATTCCTAGGTCTAGTCTAGGATATGGAAGCAGCCGAAATTCTATGT CAAATCATGACTCGCGGGGCCCATACAGCAGTCGTCAGGGAATGGATTATGGAGGAGGTTTGAT TCAGAACTTGGCTTAACAGAGAGCAATACTTCGTCGAGATACACTTACTGCCTTCAATGGCTAT AATTTCATAATGTTGCTTTCTTCAGGTTCTTATAGTGGCAGCGATGTAGGAGGTATGTACTCGT CAAGCTATGGTGGCGACTTACCCAGAAGAGATGTAAGTGGCTTCACACTTTCCCCTTTTTTATA TTTATTTTGGAAAGTCAAGTTGTGTAACATTTTAGTATTGGATTTACAGGGAGGAGGTAGCTCG TATTCTTCAATTTACTCCAGCCGTGGCTTGGGTGGTAGTAGTTACTCTGGTGGTGGTCCAGGAT CATACTACTGAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.275099401

Conservation Information
Conserved circRNAs	NA
PMCS	0.275099401

			
						 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;Chen et al., 2017a

circRNA

Detail information of AT2G44710_circ_g.9

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