Plant Circular RNA Database

Detail information of AT5G61820_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G61820_circ_g.1
					
						ID in PlantcircBase
						ath_circ_045258
					
						Alias
						Ath_circ_FC3898
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 24834752-24836226  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							AT5G61820						
					
						Parent gene annotation
						
							Putative uncharacterized protein At5g61820
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						57
					
						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
						AT5G61820.1:3
AT5G61820.2:3

General Information
CircRNA Name	AT5G61820_circ_g.1
ID in PlantcircBase	ath_circ_045258
Alias	Ath_circ_FC3898
Organism	Arabidpsis thaliana
Position	chr5: 24834752-24836226 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	AT5G61820
Parent gene annotation	Putative uncharacterized protein At5g61820
Parent gene strand	-
Alternative splicing	NA
Support reads	57
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	AT5G61820.1:3 AT5G61820.2:3

			
						 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  
						
							TTTCCTCTGTCCCTAGGAAGCCTTGGCTCGGCGATATGCTTAATGAGAGCAGAACTAAGCACAA
GATCATCGATCTCCTGTGGTAACGAGCCATCATCTCctcaaaatgttgtttattaggcaaggag
ctatctggttccggcagctgctgagcaacgaggatgtaaaagagtcccataactccggtatgac
caacggca

									
								

					

						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
						
							CTCAAAATGTTGTTTATTAGGCAAGGAGCTATCTGGTTCCGGCAGCTGCTGAGCAACGAGGATG
TAAAAGAGTCCCATAACTCCGGTATGACCAACGGCATTACTGTAATTAGATTCCAAAGTCAATG
TCTCTCCATAGCTCACTTTCACTGGATCAGCTGGATAACAAGACGACATTCCAACAATGTAACC
AGCTTCGTTTCCAGGTTCATCTCCATTGCCATACTTCGGCATTGAAGCGCATATCCCTTCACCG
TTCTGATCCACAACACAACAAGAGTCTCAATTCAATAACAAAGTTTCAATCTTTTCGTTTTGCA
GTAGCCTAAACTAAATCAGTCTCTTAGTTACCTCTCGGTATAGAGCACCACCGATACCACCAGC
GTGCTGGTGAGCTACCCCGTAGACAATATACCCATCAAATGGCATCACTAAGCTCTTTTTCTTA
ACGTCAACGCATCCATCGCCATTGGTTTTGCACGGTTTCACCTCGTATTCCACCTGAAAATCAC
AAAGACCCGGAAAATTATTAGAGAATGAAGTAGAAGTAACGGCATTAAGCAGATATGAAAGTTC
TTACTGACATGGCAAATATGTTCTTGGCTATCTCCTTTTGATCTTTCCCAAGAATCTGTAACAT
CGAAAATATAAACCTTAGCGGGCAAAACCGAGCTGTCCCAATCAACCCATCTCACGGTATACTT
CAAATACAGAGTTCTTGTTTTCTCCCCATTGTCAAATCCGCTTTTCACCCGACATTGAGTCTTA
TCATAGCAGCAGTATAAACCTCCTTTGTATCCAGGCCTTATAGCTCGACCATACTCATCAATGG
TAACATTATACAGATCACACAAACATTCTATGCATCCTTTCTTATCTTCCACACCTCTGGTGTC
TATCGCGTGAATGTTAAGAAGCCATTTGAATTCATAACCATCAGGTGTTTCCTCAGGATTACCG
ATTTCAATAGCGTAGGGATCAGGAACATACGTCGAGGTTTCGCGGGTTTCTGATCCTAAACCAA
AGAAATGTCTGAGTGTTAAACTCCTGCACAACCCTCCATTTTTCACAAGAATAATATCTGACTT
GGAATCAAGATTGCTTTCAGGATCTTCCCTGGAAAATCCATGATTCCTGAACATTTCTCTCTGT
GGAAGCTTGGAACCTTTACGTACATAGTATGGCTCGACAATCCAATGGTGGAGATAGGTCTCGT
GTAGAGGAACGGGTTTGCCCGCTTCGTCAACCACTTCAGCATCGAAAGCTTTGAGGCCGATATG
ACCTCTTGGGAAATCGATGTCGAATAAGTAAGGATTTGCAACTGATCCTGGATTCATCACAAGT
TTTGGTGAGTAAAAGACAGCGGATTTGATCTTTTCCTCTGTCCCTAGGAAGCCTTGGCTCGGCG
ATATGCTTAATGAGAGCAGAACTAAGCACAAGATCATCGATCTCCTGTGGTAACGAGCCATCAT
CTC
						
					

			
		

Sequences
Splice junction sequence	TTTCCTCTGTCCCTAGGAAGCCTTGGCTCGGCGATATGCTTAATGAGAGCAGAACTAAGCACAA GATCATCGATCTCCTGTGGTAACGAGCCATCATCTCctcaaaatgttgtttattaggcaaggag ctatctggttccggcagctgctgagcaacgaggatgtaaaagagtcccataactccggtatgac caacggca
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	CTCAAAATGTTGTTTATTAGGCAAGGAGCTATCTGGTTCCGGCAGCTGCTGAGCAACGAGGATG TAAAAGAGTCCCATAACTCCGGTATGACCAACGGCATTACTGTAATTAGATTCCAAAGTCAATG TCTCTCCATAGCTCACTTTCACTGGATCAGCTGGATAACAAGACGACATTCCAACAATGTAACC AGCTTCGTTTCCAGGTTCATCTCCATTGCCATACTTCGGCATTGAAGCGCATATCCCTTCACCG TTCTGATCCACAACACAACAAGAGTCTCAATTCAATAACAAAGTTTCAATCTTTTCGTTTTGCA GTAGCCTAAACTAAATCAGTCTCTTAGTTACCTCTCGGTATAGAGCACCACCGATACCACCAGC GTGCTGGTGAGCTACCCCGTAGACAATATACCCATCAAATGGCATCACTAAGCTCTTTTTCTTA ACGTCAACGCATCCATCGCCATTGGTTTTGCACGGTTTCACCTCGTATTCCACCTGAAAATCAC AAAGACCCGGAAAATTATTAGAGAATGAAGTAGAAGTAACGGCATTAAGCAGATATGAAAGTTC TTACTGACATGGCAAATATGTTCTTGGCTATCTCCTTTTGATCTTTCCCAAGAATCTGTAACAT CGAAAATATAAACCTTAGCGGGCAAAACCGAGCTGTCCCAATCAACCCATCTCACGGTATACTT CAAATACAGAGTTCTTGTTTTCTCCCCATTGTCAAATCCGCTTTTCACCCGACATTGAGTCTTA TCATAGCAGCAGTATAAACCTCCTTTGTATCCAGGCCTTATAGCTCGACCATACTCATCAATGG TAACATTATACAGATCACACAAACATTCTATGCATCCTTTCTTATCTTCCACACCTCTGGTGTC TATCGCGTGAATGTTAAGAAGCCATTTGAATTCATAACCATCAGGTGTTTCCTCAGGATTACCG ATTTCAATAGCGTAGGGATCAGGAACATACGTCGAGGTTTCGCGGGTTTCTGATCCTAAACCAA AGAAATGTCTGAGTGTTAAACTCCTGCACAACCCTCCATTTTTCACAAGAATAATATCTGACTT GGAATCAAGATTGCTTTCAGGATCTTCCCTGGAAAATCCATGATTCCTGAACATTTCTCTCTGT GGAAGCTTGGAACCTTTACGTACATAGTATGGCTCGACAATCCAATGGTGGAGATAGGTCTCGT GTAGAGGAACGGGTTTGCCCGCTTCGTCAACCACTTCAGCATCGAAAGCTTTGAGGCCGATATG ACCTCTTGGGAAATCGATGTCGAATAAGTAAGGATTTGCAACTGATCCTGGATTCATCACAAGT TTTGGTGAGTAAAAGACAGCGGATTTGATCTTTTCCTCTGTCCCTAGGAAGCCTTGGCTCGGCG ATATGCTTAATGAGAGCAGAACTAAGCACAAGATCATCGATCTCCTGTGGTAACGAGCCATCAT CTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.161120118

Conservation Information
Conserved circRNAs	NA
PMCS	0.161120118

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							24836224-24834754(-)
						
					

						Potential amino acid sequence
						
							MMARYHRRSMILCLVLLSLSISPSQGFLGTEEKIKSAVFYSPKLVMNPGSVANPYLFDIDFPRG
HIGLKAFDAEVVDEAGKPVPLHETYLHHWIVEPYYVRKGSKLPQREMFRNHGFSREDPESNLDS
KSDIILVKNGGLCRSLTLRHFFGLGSETRETSTYVPDPYAIEIGNPEETPDGYEFKWLLNIHAI
DTRGVEDKKGCIECLCDLYNVTIDEYGRAIRPGYKGGLYCCYDKTQCRVKSGFDNGEKTRTLYL
KYTVRWVDWDSSVLPAKVYIFDVTDSWERSKGDSQEHICHVEYEVKPCKTNGDGCVDVKKKSLV
MPFDGYIVYGVAHQHAGGIGGALYRENGEGICASMPKYGNGDEPGNEAGYIVGMSSCYPADPVK
VSYGETLTLESNYSNAVGHTGVMGLFYILVAQQLPEPDSSLPNKQHFEEMMARYHRRSMILCLV
LLSLSISPSQGFLGTEEKIKSAVFYSPKLVMNPGSVANPYLFDIDFPRGHIGLKAFDAEVVDEA
GKPVPLHETYLHHWIVEPYYVRKGSKLPQREMFRNHGFSREDPESNLDSKSDIILVKNGGLCRS
LTLRHFFGLGSETRETSTYVPDPYAIEIGNPEETPDGYEFKWLLNIHAIDTRGVEDKKGCIECL
CDLYNVTIDEYGRAIRPGYKGGLYCCYDKTQCRVKSGFDNGEKTRTLYLKYTVRWVDWDSSVLP
AKVYIFDVTDSWERSKGDSQEHICHVEYEVKPCKTNGDGCVDVKKKSLVMPFDGYIVYGVAHQH
AGGIGGALYRENGEGICASMPKYGNGDEPGNEAGYIVGMSSCYPADPVKVSYGETLTLESNYSN
AVGHTGVMGLFYILVAQQLPEPDSSLPNKQHFEEMMARYHRRSMILCLVLLSLSISPSQGFLGT
EEKIKSAVFYSPKLVMNPGSVANPYLFDIDFPRGHIGLKAFDAEVVDEAGKPVPLHETYLHHWI
VEPYYVRKGSKLPQREMFRNHGFSREDPESNLDSKSDIILVKNGGLCRSLTLRHFFGLGSETRE
TSTYVPDPYAIEIGNPEETPDGYEFKWLLNIHAIDTRGVEDKKGCIECLCDLYNVTIDEYGRAI
RPGYKGGLYCCYDKTQCRVKSGFDNGEKTRTLYLKYTVRWVDWDSSVLPAKVYIFDVTDSWERS
KGDSQEHICHVEYEVKPCKTNGDGCVDVKKKSLVMPFDGYIVYGVAHQHAGGIGGALYRENGEG
ICASMPKYGNGDEPGNEAGYIVGMSSCYPADPVKVSYGETLTLESNYSNAVGHTGVMGLFYILV
AQQLPEPDSSLPNKQHFEEMMARYHRRSMILCLVLLSLSISPSQGFLGTEEKIKSAVFYSPKLV
MNPGSVANPYLFDIDFPRGHIGLKAFDAEVVDEAGKPVPLHETYLHHWIVEPYYVRKGSKLPQR
EMFRNHGFSREDPESNLDSKSDIILVKNGGLCRSLTLRHFFGLGSETRETSTYVPDPYAIEIGN
PEETPDGYEFKWLLNIHAIDTRGVEDKKGCIECLCDLYNVTIDEYGRAIRPGYKGGLYCCYDKT
QCRVKSGFDNGEKTRTLYLKYTVRWVDWDSSVLPAKVYIFDVTDSWERSKGDSQEHICHVEYEV
KPCKTNGDGCVDVKKKSLVMPFDGYIVYGVAHQHAGGIGGALYRENGEGICASMPKYGNGDEPG
NEAGYIVGMSSCYPADPVKVSYGETLTLESNYSNAVGHTGVMGLFYILVAQQLPEPDSSLPNKQ
HFE(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	24836224-24834754(-)
Potential amino acid sequence	MMARYHRRSMILCLVLLSLSISPSQGFLGTEEKIKSAVFYSPKLVMNPGSVANPYLFDIDFPRG HIGLKAFDAEVVDEAGKPVPLHETYLHHWIVEPYYVRKGSKLPQREMFRNHGFSREDPESNLDS KSDIILVKNGGLCRSLTLRHFFGLGSETRETSTYVPDPYAIEIGNPEETPDGYEFKWLLNIHAI DTRGVEDKKGCIECLCDLYNVTIDEYGRAIRPGYKGGLYCCYDKTQCRVKSGFDNGEKTRTLYL KYTVRWVDWDSSVLPAKVYIFDVTDSWERSKGDSQEHICHVEYEVKPCKTNGDGCVDVKKKSLV MPFDGYIVYGVAHQHAGGIGGALYRENGEGICASMPKYGNGDEPGNEAGYIVGMSSCYPADPVK VSYGETLTLESNYSNAVGHTGVMGLFYILVAQQLPEPDSSLPNKQHFEEMMARYHRRSMILCLV LLSLSISPSQGFLGTEEKIKSAVFYSPKLVMNPGSVANPYLFDIDFPRGHIGLKAFDAEVVDEA GKPVPLHETYLHHWIVEPYYVRKGSKLPQREMFRNHGFSREDPESNLDSKSDIILVKNGGLCRS LTLRHFFGLGSETRETSTYVPDPYAIEIGNPEETPDGYEFKWLLNIHAIDTRGVEDKKGCIECL CDLYNVTIDEYGRAIRPGYKGGLYCCYDKTQCRVKSGFDNGEKTRTLYLKYTVRWVDWDSSVLP AKVYIFDVTDSWERSKGDSQEHICHVEYEVKPCKTNGDGCVDVKKKSLVMPFDGYIVYGVAHQH AGGIGGALYRENGEGICASMPKYGNGDEPGNEAGYIVGMSSCYPADPVKVSYGETLTLESNYSN AVGHTGVMGLFYILVAQQLPEPDSSLPNKQHFEEMMARYHRRSMILCLVLLSLSISPSQGFLGT EEKIKSAVFYSPKLVMNPGSVANPYLFDIDFPRGHIGLKAFDAEVVDEAGKPVPLHETYLHHWI VEPYYVRKGSKLPQREMFRNHGFSREDPESNLDSKSDIILVKNGGLCRSLTLRHFFGLGSETRE TSTYVPDPYAIEIGNPEETPDGYEFKWLLNIHAIDTRGVEDKKGCIECLCDLYNVTIDEYGRAI RPGYKGGLYCCYDKTQCRVKSGFDNGEKTRTLYLKYTVRWVDWDSSVLPAKVYIFDVTDSWERS KGDSQEHICHVEYEVKPCKTNGDGCVDVKKKSLVMPFDGYIVYGVAHQHAGGIGGALYRENGEG ICASMPKYGNGDEPGNEAGYIVGMSSCYPADPVKVSYGETLTLESNYSNAVGHTGVMGLFYILV AQQLPEPDSSLPNKQHFEEMMARYHRRSMILCLVLLSLSISPSQGFLGTEEKIKSAVFYSPKLV MNPGSVANPYLFDIDFPRGHIGLKAFDAEVVDEAGKPVPLHETYLHHWIVEPYYVRKGSKLPQR EMFRNHGFSREDPESNLDSKSDIILVKNGGLCRSLTLRHFFGLGSETRETSTYVPDPYAIEIGN PEETPDGYEFKWLLNIHAIDTRGVEDKKGCIECLCDLYNVTIDEYGRAIRPGYKGGLYCCYDKT QCRVKSGFDNGEKTRTLYLKYTVRWVDWDSSVLPAKVYIFDVTDSWERSKGDSQEHICHVEYEV KPCKTNGDGCVDVKKKSLVMPFDGYIVYGVAHQHAGGIGGALYRENGEGICASMPKYGNGDEPG NEAGYIVGMSSCYPADPVKVSYGETLTLESNYSNAVGHTGVMGLFYILVAQQLPEPDSSLPNKQ HFE(-)
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 AT5G61820_circ_g.1

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