Plant Circular RNA Database

Detail information of AT2G20570_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT2G20570_circ_g.5
					
						ID in PlantcircBase
						ath_circ_014023
					
						Alias
						At_ciR3645
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 8856297-8856860  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							AT2G20570						
					
						Parent gene annotation
						
							GBF's pro-rich region-interacting factor 1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G20570_circ_g.1 AT2G20570_circ_g.2 AT2G20570_circ_g.3 AT2G20570_circ_g.4 AT2G20570_circ_g.6 AT2G20570_circ_g.7 AT2G20570_circ_g.8 AT2G20570_circ_g.9 AT2G20570_circ_g.10 AT2G20570_circ_g.11 AT2G20570_circ_g.12 AT2G20570_circ_g.13 AT2G20570_circ_g.14 AT2G20570_circ_g.15 AT2G20570_circ_g.16 AT2G20570_circ_g.17 AT2G20570_circ_g.18 						
					
						Support reads
						2
					
						Tissues
						leaf
					
						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
						AT2G20570.1:2
AT2G20570.3:1
AT2G20570.2:2

General Information
CircRNA Name	AT2G20570_circ_g.5
ID in PlantcircBase	ath_circ_014023
Alias	At_ciR3645
Organism	Arabidpsis thaliana
Position	chr2: 8856297-8856860 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ
Parent gene	AT2G20570
Parent gene annotation	GBF's pro-rich region-interacting factor 1
Parent gene strand	+
Alternative splicing	AT2G20570_circ_g.1 AT2G20570_circ_g.2 AT2G20570_circ_g.3 AT2G20570_circ_g.4 AT2G20570_circ_g.6 AT2G20570_circ_g.7 AT2G20570_circ_g.8 AT2G20570_circ_g.9 AT2G20570_circ_g.10 AT2G20570_circ_g.11 AT2G20570_circ_g.12 AT2G20570_circ_g.13 AT2G20570_circ_g.14 AT2G20570_circ_g.15 AT2G20570_circ_g.16 AT2G20570_circ_g.17 AT2G20570_circ_g.18
Support reads	2
Tissues	leaf
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	AT2G20570.1:2 AT2G20570.3:1 AT2G20570.2:2

			
						 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  
						
							GTCCATTATGCCGCATGTGTGGCCCAAACACTTACCTCCGCCTTCTACCGCCATGCCTAATCCG
CCGTTTTGGGTCTCCGATTCTCCCTATTGGCATCCAgtggattggacaccagagctacacagga
gattcgtggaggcagtggaacagttaggagtggacaaagctgttccttctcgaattctggagct
tatgggag

						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: 232
Transcript exons: 8856297-8856398,8856731-8856860
GTGGATTGGACACCAGAGCTACACAGGAGATTCGTGGAGGCAGTGGAACAGTTAGGAGTGGACA
AAGCTGTTCCTTCTCGAATTCTGGAGCTTATGGGAGTCGCATGTGTGGGGACATCCCACGGTTG
ATCAGTCCATTATGCCGCATGTGTGGCCCAAACACTTACCTCCGCCTTCTACCGCCATGCCTAA
TCCGCCGTTTTGGGTCTCCGATTCTCCCTATTGGCATCCA
Transcript length: 486
Transcript exons: 8856297-8856437,8856516-8856860
GTGGATTGGACACCAGAGCTACACAGGAGATTCGTGGAGGCAGTGGAACAGTTAGGAGTGGACA
AAGCTGTTCCTTCTCGAATTCTGGAGCTTATGGGAGTCCATTGTCTCACTCGTCACAACGTTGC
TAGTCACCTCCAAAAATATAGGTCTCATCGGAAACATTTGCTAGCTCGTGAGGCCGAAGCGGCT
AATTGGACACGCAAAAGGCATATCTATGGAGTAGACACCGGTGCTAATCTTAATGGTCGGACTA
AAAATGGATGGCTTGCACCGGCACCCACTCTCGGGTTTCCACCACCACCACCCGTGGCTGTTGC
ACCGCCACCTGTCCACCACCATCATTTTAGGCCCCTGCATGTGTGGGGACATCCCACGGTTGAT
CAGTCCATTATGCCGCATGTGTGGCCCAAACACTTACCTCCGCCTTCTACCGCCATGCCTAATC
CGCCGTTTTGGGTCTCCGATTCTCCCTATTGGCATCCA
						
						Genomic sequence
						
							GTGGATTGGACACCAGAGCTACACAGGAGATTCGTGGAGGCAGTGGAACAGTTAGGAGTGGACA
AAGCTGTTCCTTCTCGAATTCTGGAGCTTATGGGAGTCCATTGTCTCACTCGTCACAACGTTGC
TAGTCACCTCCAAGTTAGTATATTTCTTTTCAATTTCATTCTCTAATATTAACCATCCAAATTA
ACATGTTGCTGTTATTTGGTATACTAGAAATATAGGTCTCATCGGAAACATTTGCTAGCTCGTG
AGGCCGAAGCGGCTAATTGGACACGCAAAAGGCATATCTATGGAGTAGACACCGGTGCTAATCT
TAATGGTCGGACTAAAAATGGATGGCTTGCACCGGCACCCACTCTCGGGTTTCCACCACCACCA
CCCGTGGCTGTTGCACCGCCACCTGTCCACCACCATCATTTTAGGCCCCTGCATGTGTGGGGAC
ATCCCACGGTTGATCAGTCCATTATGCCGCATGTGTGGCCCAAACACTTACCTCCGCCTTCTAC
CGCCATGCCTAATCCGCCGTTTTGGGTCTCCGATTCTCCCTATTGGCATCCA

Sequences
Splice junction sequence	GTCCATTATGCCGCATGTGTGGCCCAAACACTTACCTCCGCCTTCTACCGCCATGCCTAATCCG CCGTTTTGGGTCTCCGATTCTCCCTATTGGCATCCAgtggattggacaccagagctacacagga gattcgtggaggcagtggaacagttaggagtggacaaagctgttccttctcgaattctggagct tatgggag
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: 232 Transcript exons: 8856297-8856398,8856731-8856860 GTGGATTGGACACCAGAGCTACACAGGAGATTCGTGGAGGCAGTGGAACAGTTAGGAGTGGACA AAGCTGTTCCTTCTCGAATTCTGGAGCTTATGGGAGTCGCATGTGTGGGGACATCCCACGGTTG ATCAGTCCATTATGCCGCATGTGTGGCCCAAACACTTACCTCCGCCTTCTACCGCCATGCCTAA TCCGCCGTTTTGGGTCTCCGATTCTCCCTATTGGCATCCA Transcript length: 486 Transcript exons: 8856297-8856437,8856516-8856860 GTGGATTGGACACCAGAGCTACACAGGAGATTCGTGGAGGCAGTGGAACAGTTAGGAGTGGACA AAGCTGTTCCTTCTCGAATTCTGGAGCTTATGGGAGTCCATTGTCTCACTCGTCACAACGTTGC TAGTCACCTCCAAAAATATAGGTCTCATCGGAAACATTTGCTAGCTCGTGAGGCCGAAGCGGCT AATTGGACACGCAAAAGGCATATCTATGGAGTAGACACCGGTGCTAATCTTAATGGTCGGACTA AAAATGGATGGCTTGCACCGGCACCCACTCTCGGGTTTCCACCACCACCACCCGTGGCTGTTGC ACCGCCACCTGTCCACCACCATCATTTTAGGCCCCTGCATGTGTGGGGACATCCCACGGTTGAT CAGTCCATTATGCCGCATGTGTGGCCCAAACACTTACCTCCGCCTTCTACCGCCATGCCTAATC CGCCGTTTTGGGTCTCCGATTCTCCCTATTGGCATCCA
Genomic sequence	GTGGATTGGACACCAGAGCTACACAGGAGATTCGTGGAGGCAGTGGAACAGTTAGGAGTGGACA AAGCTGTTCCTTCTCGAATTCTGGAGCTTATGGGAGTCCATTGTCTCACTCGTCACAACGTTGC TAGTCACCTCCAAGTTAGTATATTTCTTTTCAATTTCATTCTCTAATATTAACCATCCAAATTA ACATGTTGCTGTTATTTGGTATACTAGAAATATAGGTCTCATCGGAAACATTTGCTAGCTCGTG AGGCCGAAGCGGCTAATTGGACACGCAAAAGGCATATCTATGGAGTAGACACCGGTGCTAATCT TAATGGTCGGACTAAAAATGGATGGCTTGCACCGGCACCCACTCTCGGGTTTCCACCACCACCA CCCGTGGCTGTTGCACCGCCACCTGTCCACCACCATCATTTTAGGCCCCTGCATGTGTGGGGAC ATCCCACGGTTGATCAGTCCATTATGCCGCATGTGTGGCCCAAACACTTACCTCCGCCTTCTAC CGCCATGCCTAATCCGCCGTTTTGGGTCTCCGATTCTCCCTATTGGCATCCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.459041428

Conservation Information
Conserved circRNAs	NA
PMCS	0.459041428

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8856390-8856857(+)
						
						Potential amino acid sequence
						
							MGVHCLTRHNVASHLQKYRSHRKHLLAREAEAANWTRKRHIYGVDTGANLNGRTKNGWLAPAPT
LGFPPPPPVAVAPPPVHHHHFRPLHVWGHPTVDQSIMPHVWPKHLPPPSTAMPNPPFWVSDSPY
WHPVDWTPELHRRFVEAVEQLGVDKAVPSRILELMGVHCLTRHNVASHLQKYRSHRKHLLAREA
EAANWTRKRHIYGVDTGANLNGRTKNGWLAPAPTLGFPPPPPVAVAPPPVHHHHFRPLHVWGHP
TVDQSIMPHVWPKHLPPPSTAMPNPPFWVSDSPYWHPVDWTPELHRRFVEAVEQLGVDKAVPSR
ILELMGVHCLTRHNVASHLQKYRSHRKHLLAREAEAANWTRKRHIYGVDTGANLNGRTKNGWLA
PAPTLGFPPPPPVAVAPPPVHHHHFRPLHVWGHPTVDQSIMPHVWPKHLPPPSTAMPNPPFWVS
DSPYWHPVDWTPELHRRFVEAVEQLGVDKAVPSRILELMGVHCLTRHNVASHLQKYRSHRKHLL
AREAEAANWTRKRHIYGVDTGANLNGRTKNGWLAPAPTLGFPPPPPVAVAPPPVHHHHFRPLHV
WGHPTVDQSIMPHVWPKHLPPPSTAMPNPPFWVSDSPYWHP(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8856390-8856857(+)
Potential amino acid sequence	MGVHCLTRHNVASHLQKYRSHRKHLLAREAEAANWTRKRHIYGVDTGANLNGRTKNGWLAPAPT LGFPPPPPVAVAPPPVHHHHFRPLHVWGHPTVDQSIMPHVWPKHLPPPSTAMPNPPFWVSDSPY WHPVDWTPELHRRFVEAVEQLGVDKAVPSRILELMGVHCLTRHNVASHLQKYRSHRKHLLAREA EAANWTRKRHIYGVDTGANLNGRTKNGWLAPAPTLGFPPPPPVAVAPPPVHHHHFRPLHVWGHP TVDQSIMPHVWPKHLPPPSTAMPNPPFWVSDSPYWHPVDWTPELHRRFVEAVEQLGVDKAVPSR ILELMGVHCLTRHNVASHLQKYRSHRKHLLAREAEAANWTRKRHIYGVDTGANLNGRTKNGWLA PAPTLGFPPPPPVAVAPPPVHHHHFRPLHVWGHPTVDQSIMPHVWPKHLPPPSTAMPNPPFWVS DSPYWHPVDWTPELHRRFVEAVEQLGVDKAVPSRILELMGVHCLTRHNVASHLQKYRSHRKHLL AREAEAANWTRKRHIYGVDTGANLNGRTKNGWLAPAPTLGFPPPPPVAVAPPPVHHHHFRPLHV WGHPTVDQSIMPHVWPKHLPPPSTAMPNPPFWVSDSPYWHP(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of AT2G20570_circ_g.5

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