Plant Circular RNA Database

Detail information of AT2G17340_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT2G17340_circ_g.2
					
						ID in PlantcircBase
						ath_circ_013549
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 7541821-7543566  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							AT2G17340						
					
						Parent gene annotation
						
							Uncharacterized protein At2g17340
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G17320_circ_g.1 AT2G17320_circ_g.2 AT2G17320_circ_g.3 2_circ_ag.4 2_circ_ag.5 2_circ_ag.6 2_circ_ag.7 2_circ_ag.8 AT2G17340_circ_g.1 AT2G17340_circ_g.3 AT2G17340_circ_g.4 AT2G17340_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						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  
						
							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
						AT2G17340.1:10

General Information
CircRNA Name	AT2G17340_circ_g.2
ID in PlantcircBase	ath_circ_013549
Alias	NA
Organism	Arabidpsis thaliana
Position	chr2: 7541821-7543566 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	AT2G17340
Parent gene annotation	Uncharacterized protein At2g17340
Parent gene strand	-
Alternative splicing	AT2G17320_circ_g.1 AT2G17320_circ_g.2 AT2G17320_circ_g.3 2_circ_ag.4 2_circ_ag.5 2_circ_ag.6 2_circ_ag.7 2_circ_ag.8 AT2G17340_circ_g.1 AT2G17340_circ_g.3 AT2G17340_circ_g.4 AT2G17340_circ_g.5
Support reads	1
Tissues	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	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	AT2G17340.1:10

			
						 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  
						
							TTGAGAATTACTACCAATTATGCAAAAAATTTACCTTTCTGCAAATTTTTCAGCTCTAGCAGGA
GCATCTGGAACAGTGATATCGCTCTCTGCACGTTTCcattccaatcttgagagaatcacacttg
aactgagcataaaggtttgtctcaattccacgaccctgattagaacagccaagaagtcagttaa
caaaacca

									
								

					

						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: 853
Transcript exons: 7541821-7541883,7541976-7542053,7542152-7542229,7542309-
7542383,7542481-7542567,7542668-7542796,7542880-7543020,
7543108-7543176,7543258-7543324,7543501-7543566
CATTCCAATCTTGAGAGAATCACACTTGAACTGAGCATAAAGGTTTGTCTCAATTCCACGACCC
ATGCCTTCTACGATGACTAAGTCGGCATCAGATGAAAGGTAAGCAAGCTCCTGTGATACTCTTG
AGAGATCGATAACTGGTAAGTCATTCCCCGAATTTGCAATCAGAAGCTTCGAAGTATCAACACC
TAGCAATTGGCCATTTTCATCCTTCAACTGTGACAAGATTTCTGTAAGCTCGGTACATGTTATG
TCATTGATAGATGGCAGCTCATTAGCAGCCAGCACCACCTGAGCTCCTCGACGGAGCAACTCTC
TTGCAAACGGCAAAATACCCAAAATTATGTCTGCACCAGAATTATCAACAAAAATCACTGCCTT
CTTCCAAGACTTATTGATCCATTTGGCTTGGAAGTTTTCCAAGTCATCAATGACCCATGGTCGT
GGAACCAAGTTTTGACAGCTAGCCAAGAAAGACATACCATCCCTTGAGAAAACTTCAGCAAGCT
GTGCAGAACCAAGATCAAAGATGTTTCCAGCAAATATCCCTCTCACCAAATTCTCTAACCGTTT
TCCGTCATCTTCAATAGCATCACTCAGACTGACAACTTGAGGAAATAGTGATATAGCCTTTGCA
TTCTCCTCATCCTTAACTTTCTTGAATATGTCCCTAAATCCTAACTCTCTGAGTACTTGCTCAC
GAAGTCGGCATAGAAGAATGCCATCTGGTGGTCCGCCATGACTCTCTGGATCTTTCTTCAAGTC
TTCAAGAATCCCAGCATATCTTTCTGCAAATTTTTCAGCTCTAGCAGGAGCATCTGGAACAGTG
ATATCGCTCTCTGCACGTTTC
						
					

						Genomic sequence
						
							CATTCCAATCTTGAGAGAATCACACTTGAACTGAGCATAAAGGTTTGTCTCAATTCCACGACCC
TGATTAGAACAGCCAAGAAGTCAGTTAACAAAACCAAGACTAGTTAAATTGTTAACTCGCGTTT
CACTTTCAAACTATAAATGGGACTTACCATGCCTTCTACGATGACTAAGTCGGCATCAGATGAA
AGGTAAGCAAGCTCCTGTGATACTCTTGAGAGATCGATAACCTAAAACAGATTTTTGGGAGGGA
GAAAAAAAGTAAGAATCCAATGAATAAAAGTATAAAACCATCTATATATCTTTCAGGGAGCTTC
TAATGGCTTACTGGTAAGTCATTCCCCGAATTTGCAATCAGAAGCTTCGAAGTATCAACACCTA
GCAATTGGCCATTTTCATCCTTCAACTGTAAATTCAGACTAAAAAATTAGATTCGCTTTTAAAA
GCTGTGTATATCACGAATTACTCATTCATCACTTATTCACCTGTGACAAGATTTCTGTAAGCTC
GGTACATGTTATGTCATTGATAGATGGCAGCTCATTAGCAGCCAGCACCACCTTGAAGGGGAAA
GATGAAGAGGATGAACAATTCAGAGTATACTTAAGCTCACTGAAGAGACTGTGAAAAAAAAGAC
TCAGTCATAGTCAAAGGTACCTGAGCTCCTCGACGGAGCAACTCTCTTGCAAACGGCAAAATAC
CCAAAATTATGTCTGCACCAGAATTATCAACAAAAATCACTGCCTGTCATGAAAAAGAGAAAAT
AAACAATTCATTTCGTCAAGCGGTTAACCACTGAAGTCTGAACGAAGCATTAAAAGGAAGAGCA
AAACAAATGAGTGACCTTCTTCCAAGACTTATTGATCCATTTGGCTTGGAAGTTTTCCAAGTCA
TCAATGACCCATGGTCGTGGAACCAAGTTTTGACAGCTAGCCAAGAAAGACATACCATCCCTTG
AGAAAACTTCAGCAAGCTTCAAGATGTGAAAAGAAAAGAGCCCATAAATTAGGACATGCTTGCT
GTGGGAGATACCAAAGAGAGGCGATTGAAAGATACCTGTGCAGAACCAAGATCAAAGATGTTTC
CAGCAAATATCCCTCTCACCAAATTCTCTAACCGTTTTCCGTCATCTTCAATAGCATCACTCAG
ACTGACAACTTGAGGAAATAGTGATATAGCCTTTGCATTCTCCTCATCCTATTCATTGAATGTG
AACTCATCTAATCAGAGAGAATAAGTGCTAGCTATCTGAAAACCTCAAGAAAACTGAAAGGAAA
TTCACACCTTAACTTTCTTGAATATGTCCCTAAATCCTAACTCTCTGAGTACTTGCTCACGAAG
TCGGCATAGAAGCTGAAAATAAGCCAAGATAATCTATGAAAAGAAGAAAGCTCACTACACCAAA
GGAAAAGATCATGTGGTGTTTATACTTACAATGCCATCTGGTGGTCCGCCATGACTCTCTGGAT
CTTTCTTCAAGTCTTCAAGAATCCCAGCATATCTTTCAGATTCAAGGTAAGAGATATTAAACGC
AAATCAAAAGACTGAAACACTATCTTGAGAATCAAACAAACCACAGGGCACAGCCTTTGTTCTA
CTTTATGAAGGTGACAATGACAAAAGATTTCATACCAACCAAAACCTTGAGAATTACTACCAAT
TATGCAAAAAATTTACCTTTCTGCAAATTTTTCAGCTCTAGCAGGAGCATCTGGAACAGTGATA
TCGCTCTCTGCACGTTTC
						
					

			
		

Sequences
Splice junction sequence	TTGAGAATTACTACCAATTATGCAAAAAATTTACCTTTCTGCAAATTTTTCAGCTCTAGCAGGA GCATCTGGAACAGTGATATCGCTCTCTGCACGTTTCcattccaatcttgagagaatcacacttg aactgagcataaaggtttgtctcaattccacgaccctgattagaacagccaagaagtcagttaa caaaacca
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: 853 Transcript exons: 7541821-7541883,7541976-7542053,7542152-7542229,7542309- 7542383,7542481-7542567,7542668-7542796,7542880-7543020, 7543108-7543176,7543258-7543324,7543501-7543566 CATTCCAATCTTGAGAGAATCACACTTGAACTGAGCATAAAGGTTTGTCTCAATTCCACGACCC ATGCCTTCTACGATGACTAAGTCGGCATCAGATGAAAGGTAAGCAAGCTCCTGTGATACTCTTG AGAGATCGATAACTGGTAAGTCATTCCCCGAATTTGCAATCAGAAGCTTCGAAGTATCAACACC TAGCAATTGGCCATTTTCATCCTTCAACTGTGACAAGATTTCTGTAAGCTCGGTACATGTTATG TCATTGATAGATGGCAGCTCATTAGCAGCCAGCACCACCTGAGCTCCTCGACGGAGCAACTCTC TTGCAAACGGCAAAATACCCAAAATTATGTCTGCACCAGAATTATCAACAAAAATCACTGCCTT CTTCCAAGACTTATTGATCCATTTGGCTTGGAAGTTTTCCAAGTCATCAATGACCCATGGTCGT GGAACCAAGTTTTGACAGCTAGCCAAGAAAGACATACCATCCCTTGAGAAAACTTCAGCAAGCT GTGCAGAACCAAGATCAAAGATGTTTCCAGCAAATATCCCTCTCACCAAATTCTCTAACCGTTT TCCGTCATCTTCAATAGCATCACTCAGACTGACAACTTGAGGAAATAGTGATATAGCCTTTGCA TTCTCCTCATCCTTAACTTTCTTGAATATGTCCCTAAATCCTAACTCTCTGAGTACTTGCTCAC GAAGTCGGCATAGAAGAATGCCATCTGGTGGTCCGCCATGACTCTCTGGATCTTTCTTCAAGTC TTCAAGAATCCCAGCATATCTTTCTGCAAATTTTTCAGCTCTAGCAGGAGCATCTGGAACAGTG ATATCGCTCTCTGCACGTTTC
Genomic sequence	CATTCCAATCTTGAGAGAATCACACTTGAACTGAGCATAAAGGTTTGTCTCAATTCCACGACCC TGATTAGAACAGCCAAGAAGTCAGTTAACAAAACCAAGACTAGTTAAATTGTTAACTCGCGTTT CACTTTCAAACTATAAATGGGACTTACCATGCCTTCTACGATGACTAAGTCGGCATCAGATGAA AGGTAAGCAAGCTCCTGTGATACTCTTGAGAGATCGATAACCTAAAACAGATTTTTGGGAGGGA GAAAAAAAGTAAGAATCCAATGAATAAAAGTATAAAACCATCTATATATCTTTCAGGGAGCTTC TAATGGCTTACTGGTAAGTCATTCCCCGAATTTGCAATCAGAAGCTTCGAAGTATCAACACCTA GCAATTGGCCATTTTCATCCTTCAACTGTAAATTCAGACTAAAAAATTAGATTCGCTTTTAAAA GCTGTGTATATCACGAATTACTCATTCATCACTTATTCACCTGTGACAAGATTTCTGTAAGCTC GGTACATGTTATGTCATTGATAGATGGCAGCTCATTAGCAGCCAGCACCACCTTGAAGGGGAAA GATGAAGAGGATGAACAATTCAGAGTATACTTAAGCTCACTGAAGAGACTGTGAAAAAAAAGAC TCAGTCATAGTCAAAGGTACCTGAGCTCCTCGACGGAGCAACTCTCTTGCAAACGGCAAAATAC CCAAAATTATGTCTGCACCAGAATTATCAACAAAAATCACTGCCTGTCATGAAAAAGAGAAAAT AAACAATTCATTTCGTCAAGCGGTTAACCACTGAAGTCTGAACGAAGCATTAAAAGGAAGAGCA AAACAAATGAGTGACCTTCTTCCAAGACTTATTGATCCATTTGGCTTGGAAGTTTTCCAAGTCA TCAATGACCCATGGTCGTGGAACCAAGTTTTGACAGCTAGCCAAGAAAGACATACCATCCCTTG AGAAAACTTCAGCAAGCTTCAAGATGTGAAAAGAAAAGAGCCCATAAATTAGGACATGCTTGCT GTGGGAGATACCAAAGAGAGGCGATTGAAAGATACCTGTGCAGAACCAAGATCAAAGATGTTTC CAGCAAATATCCCTCTCACCAAATTCTCTAACCGTTTTCCGTCATCTTCAATAGCATCACTCAG ACTGACAACTTGAGGAAATAGTGATATAGCCTTTGCATTCTCCTCATCCTATTCATTGAATGTG AACTCATCTAATCAGAGAGAATAAGTGCTAGCTATCTGAAAACCTCAAGAAAACTGAAAGGAAA TTCACACCTTAACTTTCTTGAATATGTCCCTAAATCCTAACTCTCTGAGTACTTGCTCACGAAG TCGGCATAGAAGCTGAAAATAAGCCAAGATAATCTATGAAAAGAAGAAAGCTCACTACACCAAA GGAAAAGATCATGTGGTGTTTATACTTACAATGCCATCTGGTGGTCCGCCATGACTCTCTGGAT CTTTCTTCAAGTCTTCAAGAATCCCAGCATATCTTTCAGATTCAAGGTAAGAGATATTAAACGC AAATCAAAAGACTGAAACACTATCTTGAGAATCAAACAAACCACAGGGCACAGCCTTTGTTCTA CTTTATGAAGGTGACAATGACAAAAGATTTCATACCAACCAAAACCTTGAGAATTACTACCAAT TATGCAAAAAATTTACCTTTCTGCAAATTTTTCAGCTCTAGCAGGAGCATCTGGAACAGTGATA TCGCTCTCTGCACGTTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.217982431

Conservation Information
Conserved circRNAs	NA
PMCS	0.217982431

			
						 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

circRNA

Detail information of AT2G17340_circ_g.2

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