Plant Circular RNA Database

Detail information of AT1G58440_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT1G58440_circ_g.2
					
						ID in PlantcircBase
						ath_circ_007937
					
						Alias
						Ath_circ_FC0821
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 21714299-21716184  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT1G58440						
					
						Parent gene annotation
						
							XF1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G58440_circ_g.1 AT1G58440_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						root
					
						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
						AT1G58440.1:6

General Information
CircRNA Name	AT1G58440_circ_g.2
ID in PlantcircBase	ath_circ_007937
Alias	Ath_circ_FC0821
Organism	Arabidpsis thaliana
Position	chr1: 21714299-21716184 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT1G58440
Parent gene annotation	XF1
Parent gene strand	-
Alternative splicing	AT1G58440_circ_g.1 AT1G58440_circ_g.3
Support reads	1
Tissues	root
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	AT1G58440.1:6

			
						 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  
						
							ACTCCAGTAACTTGAGGTAACCCCCAGGCTGTAACAACTCCCCAACAATACGATCAGGCTCCGA
TAAATCTCTTTCAATCACATGAACTCGGCGTTTATCcgagattaatttggctccaagccagatt
cgttttggggaagggaatgggattaacaaccgtatgactccataaaccgcaaccgcaaagaaat
ggcagaca

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CGAGATTAATTTGGCTCCAAGCCAGATTCGTTTTGGGGAAGGGAATGGGATTAACAACCGTATG
ACTCCATAAACCGCAACCGCAAAGAAATGGCAGACAAGTGTTAATGGTCGAGGGTTCAAACCCG
AAAGCAAAGATACTGGTCCACTTGTGCACATACCCCCGAGGCCCAGATAATCGAAGCAAGCTTC
CCTCATCTCGTTTCTTGCTTCATTTTCTGATGAACAGAACACTTGGTAAAGAGCATTCGCAAGG
GTGTTGATTGTTGCTGCAACTGGCTGCAAGTGAAATGAATTTCAAACTATGGTTCGCTTGTTGA
CAACAGAAAACGATTAATCTACAATTGATGTTTACCTTTCGCAGAGTGTAAAATGATTCAAGAT
ATTTGCAGAGACTAGCGCCGTCACTAAGATCACGCAGCGGTCTAAGGAGATTACGCAGGACAAC
AATGTCAGCTAATGCAACCGTCATTCCTCCACCCGTCAAAGGATGACGCATGTTAAATGCATCT
CCCATTAACAGAGCCCCTGGAGTAGGATAAGGAGAAGCTGGCATGCTTCTGTTTGGCATGGACT
TAATATTTCCTTTATCAACCGCAGCAATGAAAGAGTCATAGACCTCATGAGGCATCTAGACAAG
AAGAGAAACACACAAATTTATCAAAAATGTAAAGGAAAAACGCCATGAAGAGAAGTGCACAGTG
TGAAAAAAGGCGACCATACCTGAGGAGCCACAACAGTCTTCAAATAGTTTTTCATTTCACCATT
TGCAATGGACGGCACTTTCTGGCCGGGAACATCAACTAGGCACCGCACCTCTGTGCTACTAATT
GGATACATCAAAATTGGTGATGGATCTGCTAAGACGACATGTCCATGGTTTGCATATGGGAGAT
TGCAGTTCTCTAGGACCAACCCGACAAAACAAGAAGGCACCTCGACCTGGGTGAAGATAGGAAA
AATATATCCTAATTACTTGTGAAGCTAATGCAGTTTTTTTTTTGCTTCTGTAATATCAGCACTG
ATATGAGAAACAGAGATCAATATTAAACAGCATGTTACCTGAGGATTGCACAAAGAGCGACGCA
GGTTTGAGAAACAACCATCACAAACTATAGTCAAAGCTGCAAATGCGGTTTGTTCCTCTCCTGC
TTTATTCTTATATCTCACACCTTTGATAGTCCCATTCTCTTCTAGAAGAGAAAGAACTGTTCCT
TGCTCTAGCTGAACACTGTTGAGTATAGATATAAGTAGAAACAACCATTAGCAGTACACAAATT
GCCTCATATAAAAAAAATCCACTGACTCACCCAACCGAGAACAATTTAAAGAAGTTATAGACAA
GTTAACACACAATGTATTATGCATCTTCATTTACTTTAGCATAAACTAATACTGTTACTGTAAC
TGAGGTCAACATCATGTAATTTCTAGTAAGTCTAGGTAAAGCAAGCAAAACGATAAAAGGCCCA
GGCAATTATAAAGGAGAAAAACGTACTTGGGAAGTGAAGCAGCTTTCTCCCGCATTCTTTGAAT
AAAACGTCCATTGTGAAAGCTCCTTCCAGATACATCTTCGTGAAACTTCTCCAAAGGATAAGCT
AAGCGAATGCGTTTCCCATTTTTAAAAAGTGCATAACCATACACACGCTGAGCATCTATTTCTT
CCACACAATCTGTAGATAGCCCTCTTAATGTCATTAACTAGTAAACAACTACAGAGCACAATAG
AGGTGAGAACAGTTCCCCTACGGATTCTCAACAAAATCTTCCTTACCTTCAATTCCCAACTCCA
GTAACTTGAGGTAACCCCCAGGCTGTAACAACTCCCCAACAATACGATCAGGCTCCGATAAATC
TCTTTCAATCACATGAACTCGGCGTTTATC
						
					

			
		

Sequences
Splice junction sequence	ACTCCAGTAACTTGAGGTAACCCCCAGGCTGTAACAACTCCCCAACAATACGATCAGGCTCCGA TAAATCTCTTTCAATCACATGAACTCGGCGTTTATCcgagattaatttggctccaagccagatt cgttttggggaagggaatgggattaacaaccgtatgactccataaaccgcaaccgcaaagaaat ggcagaca
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CGAGATTAATTTGGCTCCAAGCCAGATTCGTTTTGGGGAAGGGAATGGGATTAACAACCGTATG ACTCCATAAACCGCAACCGCAAAGAAATGGCAGACAAGTGTTAATGGTCGAGGGTTCAAACCCG AAAGCAAAGATACTGGTCCACTTGTGCACATACCCCCGAGGCCCAGATAATCGAAGCAAGCTTC CCTCATCTCGTTTCTTGCTTCATTTTCTGATGAACAGAACACTTGGTAAAGAGCATTCGCAAGG GTGTTGATTGTTGCTGCAACTGGCTGCAAGTGAAATGAATTTCAAACTATGGTTCGCTTGTTGA CAACAGAAAACGATTAATCTACAATTGATGTTTACCTTTCGCAGAGTGTAAAATGATTCAAGAT ATTTGCAGAGACTAGCGCCGTCACTAAGATCACGCAGCGGTCTAAGGAGATTACGCAGGACAAC AATGTCAGCTAATGCAACCGTCATTCCTCCACCCGTCAAAGGATGACGCATGTTAAATGCATCT CCCATTAACAGAGCCCCTGGAGTAGGATAAGGAGAAGCTGGCATGCTTCTGTTTGGCATGGACT TAATATTTCCTTTATCAACCGCAGCAATGAAAGAGTCATAGACCTCATGAGGCATCTAGACAAG AAGAGAAACACACAAATTTATCAAAAATGTAAAGGAAAAACGCCATGAAGAGAAGTGCACAGTG TGAAAAAAGGCGACCATACCTGAGGAGCCACAACAGTCTTCAAATAGTTTTTCATTTCACCATT TGCAATGGACGGCACTTTCTGGCCGGGAACATCAACTAGGCACCGCACCTCTGTGCTACTAATT GGATACATCAAAATTGGTGATGGATCTGCTAAGACGACATGTCCATGGTTTGCATATGGGAGAT TGCAGTTCTCTAGGACCAACCCGACAAAACAAGAAGGCACCTCGACCTGGGTGAAGATAGGAAA AATATATCCTAATTACTTGTGAAGCTAATGCAGTTTTTTTTTTGCTTCTGTAATATCAGCACTG ATATGAGAAACAGAGATCAATATTAAACAGCATGTTACCTGAGGATTGCACAAAGAGCGACGCA GGTTTGAGAAACAACCATCACAAACTATAGTCAAAGCTGCAAATGCGGTTTGTTCCTCTCCTGC TTTATTCTTATATCTCACACCTTTGATAGTCCCATTCTCTTCTAGAAGAGAAAGAACTGTTCCT TGCTCTAGCTGAACACTGTTGAGTATAGATATAAGTAGAAACAACCATTAGCAGTACACAAATT GCCTCATATAAAAAAAATCCACTGACTCACCCAACCGAGAACAATTTAAAGAAGTTATAGACAA GTTAACACACAATGTATTATGCATCTTCATTTACTTTAGCATAAACTAATACTGTTACTGTAAC TGAGGTCAACATCATGTAATTTCTAGTAAGTCTAGGTAAAGCAAGCAAAACGATAAAAGGCCCA GGCAATTATAAAGGAGAAAAACGTACTTGGGAAGTGAAGCAGCTTTCTCCCGCATTCTTTGAAT AAAACGTCCATTGTGAAAGCTCCTTCCAGATACATCTTCGTGAAACTTCTCCAAAGGATAAGCT AAGCGAATGCGTTTCCCATTTTTAAAAAGTGCATAACCATACACACGCTGAGCATCTATTTCTT CCACACAATCTGTAGATAGCCCTCTTAATGTCATTAACTAGTAAACAACTACAGAGCACAATAG AGGTGAGAACAGTTCCCCTACGGATTCTCAACAAAATCTTCCTTACCTTCAATTCCCAACTCCA GTAACTTGAGGTAACCCCCAGGCTGTAACAACTCCCCAACAATACGATCAGGCTCCGATAAATC TCTTTCAATCACATGAACTCGGCGTTTATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.19590893

Conservation Information
Conserved circRNAs	NA
PMCS	0.19590893

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							21715826-21714301(-)
						
					

						Potential amino acid sequence
						
							MREKAASLPNVQLEQGTVLSLLEENGTIKGVRYKNKAGEEQTAFAALTIVCDGCFSNLRRSLCN
PQVEVPSCFVGLVLENCNLPYANHGHVVLADPSPILMYPISSTEVRCLVDVPGQKVPSIANGEM
KNYLKTVVAPQMPHEVYDSFIAAVDKGNIKSMPNRSMPASPYPTPGALLMGDAFNMRHPLTGGG
MTVALADIVVLRNLLRPLRDLSDGASLCKYLESFYTLRKPVAATINTLANALYQVFCSSENEAR
NEMREACFDYLGLGGMCTSGPVSLLSGLNPRPLTLVCHFFAVAVYGVIRLLIPFPSPKRIWLGA
KLISDKRRVHVIERDLSEPDRIVGELLQPGGYLKLLELGIEDCVEEIDAQRVYGYALFKNGKRI
RLAYPLEKFHEDVSGRSFHNGRFIQRMREKAASLPNVQLEQGTVLSLLEENGTIKGVRYKNKAG
EEQTAFAALTIVCDGCFSNLRRSLCNPQVEVPSCFVGLVLENCNLPYANHGHVVLADPSPILMY
PISSTEVRCLVDVPGQKVPSIANGEMKNYLKTVVAPQMPHEVYDSFIAAVDKGNIKSMPNRSMP
ASPYPTPGALLMGDAFNMRHPLTGGGMTVALADIVVLRNLLRPLRDLSDGASLCKYLESFYTLR
KPVAATINTLANALYQVFCSSENEARNEMREACFDYLGLGGMCTSGPVSLLSGLNPRPLTLVCH
FFAVAVYGVIRLLIPFPSPKRIWLGAKLISDKRRVHVIERDLSEPDRIVGELLQPGGYLKLLEL
GIEDCVEEIDAQRVYGYALFKNGKRIRLAYPLEKFHEDVSGRSFHNGRFIQRMREKAASLPNVQ
LEQGTVLSLLEENGTIKGVRYKNKAGEEQTAFAALTIVCDGCFSNLRRSLCNPQVEVPSCFVGL
VLENCNLPYANHGHVVLADPSPILMYPISSTEVRCLVDVPGQKVPSIANGEMKNYLKTVVAPQM
PHEVYDSFIAAVDKGNIKSMPNRSMPASPYPTPGALLMGDAFNMRHPLTGGGMTVALADIVVLR
NLLRPLRDLSDGASLCKYLESFYTLRKPVAATINTLANALYQVFCSSENEARNEMREACFDYLG
LGGMCTSGPVSLLSGLNPRPLTLVCHFFAVAVYGVIRLLIPFPSPKRIWLGAKLISDKRRVHVI
ERDLSEPDRIVGELLQPGGYLKLLELGIEDCVEEIDAQRVYGYALFKNGKRIRLAYPLEKFHED
VSGRSFHNGRFIQRMREKAASLPNVQLEQGTVLSLLEENGTIKGVRYKNKAGEEQTAFAALTIV
CDGCFSNLRRSLCNPQVEVPSCFVGLVLENCNLPYANHGHVVLADPSPILMYPISSTEVRCLVD
VPGQKVPSIANGEMKNYLKTVVAPQMPHEVYDSFIAAVDKGNIKSMPNRSMPASPYPTPGALLM
GDAFNMRHPLTGGGMTVALADIVVLRNLLRPLRDLSDGASLCKYLESFYTLRKPVAATINTLAN
ALYQVFCSSENEARNEMREACFDYLGLGGMCTSGPVSLLSGLNPRPLTLVCHFFAVAVYGVIRL
LIPFPSPKRIWLGAKLIS(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	21715826-21714301(-)
Potential amino acid sequence	MREKAASLPNVQLEQGTVLSLLEENGTIKGVRYKNKAGEEQTAFAALTIVCDGCFSNLRRSLCN PQVEVPSCFVGLVLENCNLPYANHGHVVLADPSPILMYPISSTEVRCLVDVPGQKVPSIANGEM KNYLKTVVAPQMPHEVYDSFIAAVDKGNIKSMPNRSMPASPYPTPGALLMGDAFNMRHPLTGGG MTVALADIVVLRNLLRPLRDLSDGASLCKYLESFYTLRKPVAATINTLANALYQVFCSSENEAR NEMREACFDYLGLGGMCTSGPVSLLSGLNPRPLTLVCHFFAVAVYGVIRLLIPFPSPKRIWLGA KLISDKRRVHVIERDLSEPDRIVGELLQPGGYLKLLELGIEDCVEEIDAQRVYGYALFKNGKRI RLAYPLEKFHEDVSGRSFHNGRFIQRMREKAASLPNVQLEQGTVLSLLEENGTIKGVRYKNKAG EEQTAFAALTIVCDGCFSNLRRSLCNPQVEVPSCFVGLVLENCNLPYANHGHVVLADPSPILMY PISSTEVRCLVDVPGQKVPSIANGEMKNYLKTVVAPQMPHEVYDSFIAAVDKGNIKSMPNRSMP ASPYPTPGALLMGDAFNMRHPLTGGGMTVALADIVVLRNLLRPLRDLSDGASLCKYLESFYTLR KPVAATINTLANALYQVFCSSENEARNEMREACFDYLGLGGMCTSGPVSLLSGLNPRPLTLVCH FFAVAVYGVIRLLIPFPSPKRIWLGAKLISDKRRVHVIERDLSEPDRIVGELLQPGGYLKLLEL GIEDCVEEIDAQRVYGYALFKNGKRIRLAYPLEKFHEDVSGRSFHNGRFIQRMREKAASLPNVQ LEQGTVLSLLEENGTIKGVRYKNKAGEEQTAFAALTIVCDGCFSNLRRSLCNPQVEVPSCFVGL VLENCNLPYANHGHVVLADPSPILMYPISSTEVRCLVDVPGQKVPSIANGEMKNYLKTVVAPQM PHEVYDSFIAAVDKGNIKSMPNRSMPASPYPTPGALLMGDAFNMRHPLTGGGMTVALADIVVLR NLLRPLRDLSDGASLCKYLESFYTLRKPVAATINTLANALYQVFCSSENEARNEMREACFDYLG LGGMCTSGPVSLLSGLNPRPLTLVCHFFAVAVYGVIRLLIPFPSPKRIWLGAKLISDKRRVHVI ERDLSEPDRIVGELLQPGGYLKLLELGIEDCVEEIDAQRVYGYALFKNGKRIRLAYPLEKFHED VSGRSFHNGRFIQRMREKAASLPNVQLEQGTVLSLLEENGTIKGVRYKNKAGEEQTAFAALTIV CDGCFSNLRRSLCNPQVEVPSCFVGLVLENCNLPYANHGHVVLADPSPILMYPISSTEVRCLVD VPGQKVPSIANGEMKNYLKTVVAPQMPHEVYDSFIAAVDKGNIKSMPNRSMPASPYPTPGALLM GDAFNMRHPLTGGGMTVALADIVVLRNLLRPLRDLSDGASLCKYLESFYTLRKPVAATINTLAN ALYQVFCSSENEARNEMREACFDYLGLGGMCTSGPVSLLSGLNPRPLTLVCHFFAVAVYGVIRL LIPFPSPKRIWLGAKLIS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT1G58440_circ_g.2

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