Plant Circular RNA Database

Detail information of AT3G44680_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT3G44680_circ_g.1
					
						ID in PlantcircBase
						ath_circ_026056
					
						Alias
						Ath_circ_FC2241
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 16226926-16229072  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							AT3G44680						
					
						Parent gene annotation
						
							Histone deacetylase 9
							
						Parent gene strand
						-
					
						Alternative splicing
						
							3_circ_ag.2 3_circ_ag.3 AT3G44630_circ_g.1 AT3G44630_circ_g.2 3_circ_ag.3 3_circ_ag.4 3_circ_ag.5 3_circ_igg.6 AT3G44670_circ_g.1 AT3G44670_circ_g.2 AT3G44680_circ_g.2 AT3G44680_circ_g.3 AT3G44680_circ_g.4 						
					
						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
						AT3G44680.1:12

General Information
CircRNA Name	AT3G44680_circ_g.1
ID in PlantcircBase	ath_circ_026056
Alias	Ath_circ_FC2241
Organism	Arabidpsis thaliana
Position	chr3: 16226926-16229072 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	PcircRNA_finder
Parent gene	AT3G44680
Parent gene annotation	Histone deacetylase 9
Parent gene strand	-
Alternative splicing	3_circ_ag.2 3_circ_ag.3 AT3G44630_circ_g.1 AT3G44630_circ_g.2 3_circ_ag.3 3_circ_ag.4 3_circ_ag.5 3_circ_igg.6 AT3G44670_circ_g.1 AT3G44670_circ_g.2 AT3G44680_circ_g.2 AT3G44680_circ_g.3 AT3G44680_circ_g.4
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	AT3G44680.1:12

			
						 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  
						
							TTGCTATGCAGGCCATATGCAAGGATAAGATGATGGGTCATACAAAGCCTGTGAGGTTTCATCG
GGTGATTCGGACCAAAATAGACACTCCCCACATCCCgatccgcacgtacatccgggttttgttc
gtcttcatcaaaatccggtatgtagaaatccggtggaacctaagagattcaagtaaaaaaactg
atcagtgt

									
								

					

						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
						
							GATCCGCACGTACATCCGGGTTTTGTTCGTCTTCATCAAAATCCGGTATGTAGAAATCCGGTGG
AACCTAAGAGATTCAAGTAAAAAAACTGATCAGTGTTAGATTGATAAAAGCATCAATTTGTCCT
ATGATGATCTGAGTTTACCTCCTGCATTTGTACGCTTGGAGCGTGTTGAATGTATCGCAAATTC
TCCAAAATCTGCACTTTGATGGAACTGATGTACGATTTGGTATTAAGATTCTCCTGTTTTCATT
TCAAACACACAAAATGATTCTCAATCTCTCTTTAGATTTTGTTAAAGCAATGAGGAACTATAAG
TTACATAAGAGCTCCTTACAATGTGACCACCCGGTATCTTCAAAGAAAAATCCGGCGCAAAATA
CTTTATGTAGTCGTTTTCAGGAATCTCTGCAGAAACAACTAACCCCTGAGCCCCCAAAGACCGC
AAACATTAAACTTTCTCTAACAAATATTGAAAACCTAACCATTAGGAAGTTCTGTGTCCAAAAG
AATGCCAGTCTCAACGGTCCAACAACGAGCTACATTCTCCTTTGTGTATCCTCCACCTCCTGTA
ACCTAATAAACAATCAGAAAGAACTGACTTCGTCATCAATGAACTTAAGATTACAGAAACGCGT
CATACATATATATAAGTTGAGAGATTAGATACCAGTAAGGGAAGATTGAACTTCTTCACGAATT
TAACACATTCAGCATGTCCTGTGAAATGCATAGAGAAAGCCATTTCAAAACCCGATTCGCAAAG
AAATTAGCAAACGGGAGATTGAAAGAGAGAAAGAGATTTTGATTACAAGAAGAAAAAGCACCAT
CAATAGAGAGATTAAAGCATCCTAGTCGATCCCTGGCTAGTGAATCTGCCCCGCATTGAAGAAC
AATTGCACCCGGTTGATATATCTCAACAACCTTGGATATTATCTAGAGATCAAAGGAAATGATG
AAACACAAATAAACGGTGAACGCATCGAGAATTTTTCATTGTTTTTAGTTAAAGAACTTACAGT
CCTGAAAAGACGGTTGAAACTACTGTCATCGATACCATCCTTCAGCGGCACATTAATGGCGTAA
AATTTCCCTTCTCTTTCTCCTATTTCCTTTTTAAAGAAAAAACATCACAATGACAATTCAACCA
AACACATTGAAACCGTCCTCACAAATCAGGAAAATGAATTCTGAATATTACCTTAACATCGCCT
GTCCCTGGAAAGAACTTATCCCCAAACTTATGAAAGCTAACAGTCATTACTCTACCACCACAAA
ATTTAAAGATATTGGCAATCAGTTTCTATAGTAACAGCTTTCGAGAAGTAGTGTTATGGATTTG
TAACTGTACCTGTCAGTGAAGTAAAACGCTTCTTCAACCCCATCACCATGATGAACATCTATAT
CTATGTATAGAACACGGGGATGGTGTTTTAACAACTCAAGAATTCCTAGCACGAGATCGTTGAT
GTAGCAAAACCCAGATGCATCACATTTTTTGGCATGGTGCAACCCGCCCGCCCAATTTATAGCA
ATGTCACAGAGTTTGTTGTTTAACCTGCGTGCAGCATCTATAGACAAAATTCTCGGTCAGTCGT
TTCTCTAAAGTGACAAGCAAACATGAATACCAACTGTGTATATTTACCTATGGTTCCGCCGGCG
TAAAGTTGACAAAATTCAAACAAATCTTCAAAGACAGGACAATCCTCTCCCAGATTATCTGCAA
CACAGTAACTTAATTTCAGCTTAACATGTAGATTACAAAAACAAATTAATGAAGACACAAAACT
TACATCTAGCCATTTCATTGGGGAACAAGTTCTGGTTTTCTGGATTAATTCGTTGCAGGAACTC
TACATAGTCAGGAGAATGGAACTGAGCCATCTCGATAGGATATGCTTTGTGTGGACGCTGAAAC
AATAGAGAACATATACAGATTTCAATCGAGATGTACCGTGATATCATAAACAAAAAGAATAAAA
GGATCAAGAACAAAAACAAGAAACATATATGATGAGCAAGAGACACTAACATAAACTTCCATCT
TGCTATGCAGGCCATATGCAAGGATAAGATGATGGGTCATACAAAGCCTGTGAGGTTTCATCGG
GTGATTCGGACCAAAATAGACACTCCCCACATCCC
						
					

			
		

Sequences
Splice junction sequence	TTGCTATGCAGGCCATATGCAAGGATAAGATGATGGGTCATACAAAGCCTGTGAGGTTTCATCG GGTGATTCGGACCAAAATAGACACTCCCCACATCCCgatccgcacgtacatccgggttttgttc gtcttcatcaaaatccggtatgtagaaatccggtggaacctaagagattcaagtaaaaaaactg atcagtgt
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	GATCCGCACGTACATCCGGGTTTTGTTCGTCTTCATCAAAATCCGGTATGTAGAAATCCGGTGG AACCTAAGAGATTCAAGTAAAAAAACTGATCAGTGTTAGATTGATAAAAGCATCAATTTGTCCT ATGATGATCTGAGTTTACCTCCTGCATTTGTACGCTTGGAGCGTGTTGAATGTATCGCAAATTC TCCAAAATCTGCACTTTGATGGAACTGATGTACGATTTGGTATTAAGATTCTCCTGTTTTCATT TCAAACACACAAAATGATTCTCAATCTCTCTTTAGATTTTGTTAAAGCAATGAGGAACTATAAG TTACATAAGAGCTCCTTACAATGTGACCACCCGGTATCTTCAAAGAAAAATCCGGCGCAAAATA CTTTATGTAGTCGTTTTCAGGAATCTCTGCAGAAACAACTAACCCCTGAGCCCCCAAAGACCGC AAACATTAAACTTTCTCTAACAAATATTGAAAACCTAACCATTAGGAAGTTCTGTGTCCAAAAG AATGCCAGTCTCAACGGTCCAACAACGAGCTACATTCTCCTTTGTGTATCCTCCACCTCCTGTA ACCTAATAAACAATCAGAAAGAACTGACTTCGTCATCAATGAACTTAAGATTACAGAAACGCGT CATACATATATATAAGTTGAGAGATTAGATACCAGTAAGGGAAGATTGAACTTCTTCACGAATT TAACACATTCAGCATGTCCTGTGAAATGCATAGAGAAAGCCATTTCAAAACCCGATTCGCAAAG AAATTAGCAAACGGGAGATTGAAAGAGAGAAAGAGATTTTGATTACAAGAAGAAAAAGCACCAT CAATAGAGAGATTAAAGCATCCTAGTCGATCCCTGGCTAGTGAATCTGCCCCGCATTGAAGAAC AATTGCACCCGGTTGATATATCTCAACAACCTTGGATATTATCTAGAGATCAAAGGAAATGATG AAACACAAATAAACGGTGAACGCATCGAGAATTTTTCATTGTTTTTAGTTAAAGAACTTACAGT CCTGAAAAGACGGTTGAAACTACTGTCATCGATACCATCCTTCAGCGGCACATTAATGGCGTAA AATTTCCCTTCTCTTTCTCCTATTTCCTTTTTAAAGAAAAAACATCACAATGACAATTCAACCA AACACATTGAAACCGTCCTCACAAATCAGGAAAATGAATTCTGAATATTACCTTAACATCGCCT GTCCCTGGAAAGAACTTATCCCCAAACTTATGAAAGCTAACAGTCATTACTCTACCACCACAAA ATTTAAAGATATTGGCAATCAGTTTCTATAGTAACAGCTTTCGAGAAGTAGTGTTATGGATTTG TAACTGTACCTGTCAGTGAAGTAAAACGCTTCTTCAACCCCATCACCATGATGAACATCTATAT CTATGTATAGAACACGGGGATGGTGTTTTAACAACTCAAGAATTCCTAGCACGAGATCGTTGAT GTAGCAAAACCCAGATGCATCACATTTTTTGGCATGGTGCAACCCGCCCGCCCAATTTATAGCA ATGTCACAGAGTTTGTTGTTTAACCTGCGTGCAGCATCTATAGACAAAATTCTCGGTCAGTCGT TTCTCTAAAGTGACAAGCAAACATGAATACCAACTGTGTATATTTACCTATGGTTCCGCCGGCG TAAAGTTGACAAAATTCAAACAAATCTTCAAAGACAGGACAATCCTCTCCCAGATTATCTGCAA CACAGTAACTTAATTTCAGCTTAACATGTAGATTACAAAAACAAATTAATGAAGACACAAAACT TACATCTAGCCATTTCATTGGGGAACAAGTTCTGGTTTTCTGGATTAATTCGTTGCAGGAACTC TACATAGTCAGGAGAATGGAACTGAGCCATCTCGATAGGATATGCTTTGTGTGGACGCTGAAAC AATAGAGAACATATACAGATTTCAATCGAGATGTACCGTGATATCATAAACAAAAAGAATAAAA GGATCAAGAACAAAAACAAGAAACATATATGATGAGCAAGAGACACTAACATAAACTTCCATCT TGCTATGCAGGCCATATGCAAGGATAAGATGATGGGTCATACAAAGCCTGTGAGGTTTCATCGG GTGATTCGGACCAAAATAGACACTCCCCACATCCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.168826114

Conservation Information
Conserved circRNAs	NA
PMCS	0.168826114

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							16229035-16226928(-)
						
					

						Potential amino acid sequence
						
							MKPHRLCMTHHLILAYGLHSKMEVYRPHKAYPIEMAQFHSPDYVEFLQRINPENQNLFPNEMAR
YNLGEDCPVFEDLFEFCQLYAGGTIDAARRLNNKLCDIAINWAGGLHHAKKCDASGFCYINDLV
LGILELLKHHPRVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDKFFPGTGDVKEIGEREGK
FYAINVPLKDGIDDSSFNRLFRTIISKVVEIYQPGAIVLQCGADSLARDRLGCFNLSIDGHAEC
VKFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENDYIKYFAPDFSLKIPGG
HIENLNTKSYISSIKVQILENLRYIQHAPSVQMQEVPPDFYIPDFDEDEQNPDVRADRDVGSVY
FGPNHPMKPHRLCMTHHLILAYGLHSKMEVYRPHKAYPIEMAQFHSPDYVEFLQRINPENQNLF
PNEMARYNLGEDCPVFEDLFEFCQLYAGGTIDAARRLNNKLCDIAINWAGGLHHAKKCDASGFC
YINDLVLGILELLKHHPRVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDKFFPGTGDVKEI
GEREGKFYAINVPLKDGIDDSSFNRLFRTIISKVVEIYQPGAIVLQCGADSLARDRLGCFNLSI
DGHAECVKFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENDYIKYFAPDFS
LKIPGGHIENLNTKSYISSIKVQILENLRYIQHAPSVQMQEVPPDFYIPDFDEDEQNPDVRADR
DVGSVYFGPNHPMKPHRLCMTHHLILAYGLHSKMEVYRPHKAYPIEMAQFHSPDYVEFLQRINP
ENQNLFPNEMARYNLGEDCPVFEDLFEFCQLYAGGTIDAARRLNNKLCDIAINWAGGLHHAKKC
DASGFCYINDLVLGILELLKHHPRVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDKFFPGT
GDVKEIGEREGKFYAINVPLKDGIDDSSFNRLFRTIISKVVEIYQPGAIVLQCGADSLARDRLG
CFNLSIDGHAECVKFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENDYIKY
FAPDFSLKIPGGHIENLNTKSYISSIKVQILENLRYIQHAPSVQMQEVPPDFYIPDFDEDEQNP
DVRADRDVGSVYFGPNHPMKPHRLCMTHHLILAYGLHSKMEVYRPHKAYPIEMAQFHSPDYVEF
LQRINPENQNLFPNEMARYNLGEDCPVFEDLFEFCQLYAGGTIDAARRLNNKLCDIAINWAGGL
HHAKKCDASGFCYINDLVLGILELLKHHPRVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGD
KFFPGTGDVKEIGEREGKFYAINVPLKDGIDDSSFNRLFRTIISKVVEIYQPGAIVLQCGADSL
ARDRLGCFNLSIDGHAECVKFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPE
NDYIKYFAPDFSLKIPGGHIENLNTKSYISSIKVQILENLRYIQHAPSVQMQEVPPDFYIPDFD
EDEQNPDVRAD(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	16229035-16226928(-)
Potential amino acid sequence	MKPHRLCMTHHLILAYGLHSKMEVYRPHKAYPIEMAQFHSPDYVEFLQRINPENQNLFPNEMAR YNLGEDCPVFEDLFEFCQLYAGGTIDAARRLNNKLCDIAINWAGGLHHAKKCDASGFCYINDLV LGILELLKHHPRVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDKFFPGTGDVKEIGEREGK FYAINVPLKDGIDDSSFNRLFRTIISKVVEIYQPGAIVLQCGADSLARDRLGCFNLSIDGHAEC VKFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENDYIKYFAPDFSLKIPGG HIENLNTKSYISSIKVQILENLRYIQHAPSVQMQEVPPDFYIPDFDEDEQNPDVRADRDVGSVY FGPNHPMKPHRLCMTHHLILAYGLHSKMEVYRPHKAYPIEMAQFHSPDYVEFLQRINPENQNLF PNEMARYNLGEDCPVFEDLFEFCQLYAGGTIDAARRLNNKLCDIAINWAGGLHHAKKCDASGFC YINDLVLGILELLKHHPRVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDKFFPGTGDVKEI GEREGKFYAINVPLKDGIDDSSFNRLFRTIISKVVEIYQPGAIVLQCGADSLARDRLGCFNLSI DGHAECVKFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENDYIKYFAPDFS LKIPGGHIENLNTKSYISSIKVQILENLRYIQHAPSVQMQEVPPDFYIPDFDEDEQNPDVRADR DVGSVYFGPNHPMKPHRLCMTHHLILAYGLHSKMEVYRPHKAYPIEMAQFHSPDYVEFLQRINP ENQNLFPNEMARYNLGEDCPVFEDLFEFCQLYAGGTIDAARRLNNKLCDIAINWAGGLHHAKKC DASGFCYINDLVLGILELLKHHPRVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDKFFPGT GDVKEIGEREGKFYAINVPLKDGIDDSSFNRLFRTIISKVVEIYQPGAIVLQCGADSLARDRLG CFNLSIDGHAECVKFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENDYIKY FAPDFSLKIPGGHIENLNTKSYISSIKVQILENLRYIQHAPSVQMQEVPPDFYIPDFDEDEQNP DVRADRDVGSVYFGPNHPMKPHRLCMTHHLILAYGLHSKMEVYRPHKAYPIEMAQFHSPDYVEF LQRINPENQNLFPNEMARYNLGEDCPVFEDLFEFCQLYAGGTIDAARRLNNKLCDIAINWAGGL HHAKKCDASGFCYINDLVLGILELLKHHPRVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGD KFFPGTGDVKEIGEREGKFYAINVPLKDGIDDSSFNRLFRTIISKVVEIYQPGAIVLQCGADSL ARDRLGCFNLSIDGHAECVKFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPE NDYIKYFAPDFSLKIPGGHIENLNTKSYISSIKVQILENLRYIQHAPSVQMQEVPPDFYIPDFD EDEQNPDVRAD(-)
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 AT3G44680_circ_g.1

Address

Any questions?

Supported by