Plant Circular RNA Database

Detail information of AT1G48090_circ_g.27

			
						 General Information
					
						CircRNA Name
						AT1G48090_circ_g.27
					
						ID in PlantcircBase
						ath_circ_006252
					
						Alias
						Ath_circ_FC0689
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 17751411-17753054  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT1G48090						
					
						Parent gene annotation
						
							calcium-dependent lipid-binding family protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G48090_circ_g.22 AT1G48090_circ_g.23 AT1G48090_circ_g.24 AT1G48090_circ_g.25 AT1G48090_circ_g.26 AT1G48090_circ_g.28 						
					
						Support reads
						3
					
						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
						AT1G48090.6:4
AT1G48090.4:4
AT1G48090.3:4
AT1G48090.1:4
AT1G48090.2:4
AT1G48090.5:4

General Information
CircRNA Name	AT1G48090_circ_g.27
ID in PlantcircBase	ath_circ_006252
Alias	Ath_circ_FC0689
Organism	Arabidpsis thaliana
Position	chr1: 17751411-17753054 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT1G48090
Parent gene annotation	calcium-dependent lipid-binding family protein
Parent gene strand	-
Alternative splicing	AT1G48090_circ_g.22 AT1G48090_circ_g.23 AT1G48090_circ_g.24 AT1G48090_circ_g.25 AT1G48090_circ_g.26 AT1G48090_circ_g.28
Support reads	3
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	AT1G48090.6:4 AT1G48090.4:4 AT1G48090.3:4 AT1G48090.1:4 AT1G48090.2:4 AT1G48090.5:4

			
						 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  
						
							ATTTATGGCCTTCCATTCATCTTTAGTCAATCTTTCCTCCATCAATTTTGATCCGCCAGCCACA
CTATCTACCTCAGGGTCATCTTCAGCTTCTGTCCGCctgctttgctcctccaatactatttgaa
gttgctcttgagcccgtcgagtcacttcctctagtttcatctgtaattaccggtgcaaataaaa
ttaaatgc

									
								

					

						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: 633
Transcript exons: 17751411-17751478,17751671-17751766,17752464-17752577,17
752700-17753054
CTGCTTTGCTCCTCCAATACTATTTGAAGTTGCTCTTGAGCCCGTCGAGTCACTTCCTCTAGTT
TCATCTGAAGCACAGCAGCAGTTTCCAGCGCAACAGTAGGGCTAACTGCATTACTTCGCTTCAC
AAACTCTAATACACGATCATAACTTTCAGTCCATATCGTAGCATGACAAGGGGATATCGTGGCT
GATAGCCTCCAATCAATGTTCTCTCCAATTGGTGCGTTCACAAAACTAGCCATCAAGGCATTGG
TCTTTCTCTCACTGGATACACTCTGCGCTAGAGAACCTTCTGGTGCAGATAAGCCATAGAACCT
CAGTGATACATCACACTGAGTACTTCGATGTCTGAACTTGGTCGTCACATCGAGCTGCTCAAAC
CTACCACACAGCACCTCAGTCTGATTTATATCAACAATCCTAGCCGCACCTTGACCAATTGATA
CCGTTACAAGAAAGTGAGTCATATTCTGCATGTCTTTTCCTGAATACAAATTCATCTCTTCATC
TGGCTGATGACTCAGTAACTTATTTATGGCCTTCCATTCATCTTTAGTCAATCTTTCCTCCATC
AATTTTGATCCGCCAGCCACACTATCTACCTCAGGGTCATCTTCAGCTTCTGTCCGC
						
					

						Genomic sequence
						
							CTGCTTTGCTCCTCCAATACTATTTGAAGTTGCTCTTGAGCCCGTCGAGTCACTTCCTCTAGTT
TCATCTGTAATTACCGGTGCAAATAAAATTAAATGCTATGGTACGTATGCAGGAAAATAAACAT
ACAATAATCTATGAATGATCAACCTTGAAGGATCATACATGTCTTATTTTCACCATGACAATAT
AAGCAAAAAAAACTATGTAAGAAACAGGGTAAGAGTAGGAAAATTTCCACTAAGCATTAGACCA
GTACCTGAAGCACAGCAGCAGTTTCCAGCGCAACAGTAGGGCTAACTGCATTACTTCGCTTCAC
AAACTCTAATACACGATCATAACTTTCAGTCCATATCTGCAAATACGTAAAACCTTCAATTGTG
CTCAAAGCAGTGGTATCAGATAGAAAGACAAAAGAACAAAGTAAATAGGGTGCAACGTGGAACT
ATTACGCAGAAAATTATCAAGACAGAATAAAATGAAATAACATTAAGGCCATCAAAAGCATCGG
ACTAAGTCAATTCAAATATTTTAGAAGAAACAATCTTTGATATGTGACTACGTATTTCGGACTC
TTCCTATTCCCACACACCAAGTTATCTAATCTGAAAAACAATTTTCTATTCTGGATGAGTGTTA
GTGACCCCTTGGTAGCAGCTGGATTTGGTAACATTATAATTTTCGTAGTTGGGTGTTAAACTTC
CATACTAGATAGACTTTATTTTGTCTCTAACTATATACAACTGAATTTCCCAACTTAGAAAAAC
ATAGGACCATGAGAGTTACAAGTAATTCTTAATTTCAAAGAAATTTAACAACATACAACCTTCT
CCCTTCATAATTTCCAAAAGGGAAGCAGGAGATTTAATTTCCAATAACACTTTCTAAGGTCCAG
ACAATTGACAATCCCCCATTTTCAGAAAACCAATGCCACCAGCTAGATAATAAATAGAAGCTGC
TATACTCTGGACGAATCTTAAAGTATGTAAATATTACGCAGATCGTAAACGACCATGCTTCAAG
AGTATACATATAATATATGAAGAGATTACCGTAGCATGACAAGGGGATATCGTGGCTGATAGCC
TCCAATCAATGTTCTCTCCAATTGGTGCGTTCACAAAACTAGCCATCAAGGCATTGGTCTTTCT
CTCACTGGATACACTCTGCAAAGCCAGCATGAAACAGAGAGGGAAGGGGGGAGGTCAAACTTCA
TTTTATAGGCAGGCATATTATCTAATCAAAGAGACTGCTGACCCTGTTAATATGGTGAAAATTG
GAAACAAACCTGCGCTAGAGAACCTTCTGGTGCAGATAAGCCATAGAACCTCAGTGATACATCA
CACTGAGTACTTCGATGTCTGAACTTGGTCGTCACATCGAGCTGCTCAAACCTACCACACAGCA
CCTCAGTCTGATTTATATCAACAATCCTAGCCGCACCTTGACCAATTGATACCGTTACAAGAAA
GTGAGTCATATTCTGCATGTCTTTTCCTGAATACAAATTCATCTCTTCATCTGGCTGATGACTC
AGTAACTTATTTATGGCCTTCCATTCATCTTTAGTCAATCTTTCCTCCATCAATTTTGATCCGC
CAGCCACACTATCTACCTCAGGGTCATCTTCAGCTTCTGTCCGC
						
					

			
		

Sequences
Splice junction sequence	ATTTATGGCCTTCCATTCATCTTTAGTCAATCTTTCCTCCATCAATTTTGATCCGCCAGCCACA CTATCTACCTCAGGGTCATCTTCAGCTTCTGTCCGCctgctttgctcctccaatactatttgaa gttgctcttgagcccgtcgagtcacttcctctagtttcatctgtaattaccggtgcaaataaaa ttaaatgc
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: 633 Transcript exons: 17751411-17751478,17751671-17751766,17752464-17752577,17 752700-17753054 CTGCTTTGCTCCTCCAATACTATTTGAAGTTGCTCTTGAGCCCGTCGAGTCACTTCCTCTAGTT TCATCTGAAGCACAGCAGCAGTTTCCAGCGCAACAGTAGGGCTAACTGCATTACTTCGCTTCAC AAACTCTAATACACGATCATAACTTTCAGTCCATATCGTAGCATGACAAGGGGATATCGTGGCT GATAGCCTCCAATCAATGTTCTCTCCAATTGGTGCGTTCACAAAACTAGCCATCAAGGCATTGG TCTTTCTCTCACTGGATACACTCTGCGCTAGAGAACCTTCTGGTGCAGATAAGCCATAGAACCT CAGTGATACATCACACTGAGTACTTCGATGTCTGAACTTGGTCGTCACATCGAGCTGCTCAAAC CTACCACACAGCACCTCAGTCTGATTTATATCAACAATCCTAGCCGCACCTTGACCAATTGATA CCGTTACAAGAAAGTGAGTCATATTCTGCATGTCTTTTCCTGAATACAAATTCATCTCTTCATC TGGCTGATGACTCAGTAACTTATTTATGGCCTTCCATTCATCTTTAGTCAATCTTTCCTCCATC AATTTTGATCCGCCAGCCACACTATCTACCTCAGGGTCATCTTCAGCTTCTGTCCGC
Genomic sequence	CTGCTTTGCTCCTCCAATACTATTTGAAGTTGCTCTTGAGCCCGTCGAGTCACTTCCTCTAGTT TCATCTGTAATTACCGGTGCAAATAAAATTAAATGCTATGGTACGTATGCAGGAAAATAAACAT ACAATAATCTATGAATGATCAACCTTGAAGGATCATACATGTCTTATTTTCACCATGACAATAT AAGCAAAAAAAACTATGTAAGAAACAGGGTAAGAGTAGGAAAATTTCCACTAAGCATTAGACCA GTACCTGAAGCACAGCAGCAGTTTCCAGCGCAACAGTAGGGCTAACTGCATTACTTCGCTTCAC AAACTCTAATACACGATCATAACTTTCAGTCCATATCTGCAAATACGTAAAACCTTCAATTGTG CTCAAAGCAGTGGTATCAGATAGAAAGACAAAAGAACAAAGTAAATAGGGTGCAACGTGGAACT ATTACGCAGAAAATTATCAAGACAGAATAAAATGAAATAACATTAAGGCCATCAAAAGCATCGG ACTAAGTCAATTCAAATATTTTAGAAGAAACAATCTTTGATATGTGACTACGTATTTCGGACTC TTCCTATTCCCACACACCAAGTTATCTAATCTGAAAAACAATTTTCTATTCTGGATGAGTGTTA GTGACCCCTTGGTAGCAGCTGGATTTGGTAACATTATAATTTTCGTAGTTGGGTGTTAAACTTC CATACTAGATAGACTTTATTTTGTCTCTAACTATATACAACTGAATTTCCCAACTTAGAAAAAC ATAGGACCATGAGAGTTACAAGTAATTCTTAATTTCAAAGAAATTTAACAACATACAACCTTCT CCCTTCATAATTTCCAAAAGGGAAGCAGGAGATTTAATTTCCAATAACACTTTCTAAGGTCCAG ACAATTGACAATCCCCCATTTTCAGAAAACCAATGCCACCAGCTAGATAATAAATAGAAGCTGC TATACTCTGGACGAATCTTAAAGTATGTAAATATTACGCAGATCGTAAACGACCATGCTTCAAG AGTATACATATAATATATGAAGAGATTACCGTAGCATGACAAGGGGATATCGTGGCTGATAGCC TCCAATCAATGTTCTCTCCAATTGGTGCGTTCACAAAACTAGCCATCAAGGCATTGGTCTTTCT CTCACTGGATACACTCTGCAAAGCCAGCATGAAACAGAGAGGGAAGGGGGGAGGTCAAACTTCA TTTTATAGGCAGGCATATTATCTAATCAAAGAGACTGCTGACCCTGTTAATATGGTGAAAATTG GAAACAAACCTGCGCTAGAGAACCTTCTGGTGCAGATAAGCCATAGAACCTCAGTGATACATCA CACTGAGTACTTCGATGTCTGAACTTGGTCGTCACATCGAGCTGCTCAAACCTACCACACAGCA CCTCAGTCTGATTTATATCAACAATCCTAGCCGCACCTTGACCAATTGATACCGTTACAAGAAA GTGAGTCATATTCTGCATGTCTTTTCCTGAATACAAATTCATCTCTTCATCTGGCTGATGACTC AGTAACTTATTTATGGCCTTCCATTCATCTTTAGTCAATCTTTCCTCCATCAATTTTGATCCGC CAGCCACACTATCTACCTCAGGGTCATCTTCAGCTTCTGTCCGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.185856572

Conservation Information
Conserved circRNAs	NA
PMCS	0.185856572

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17752997-17751413(-)
						
						Potential amino acid sequence
						
							MEERLTKDEWKAINKLLSHQPDEEMNLYSGKDMQNMTHFLVTVSIGQGAARIVDINQTEVLCGR
FEQLDVTTKFRHRSTQCDVSLRFYGLSAPEGSLAQSVSSERKTNALMASFVNAPIGENIDWRLS
ATISPCHATIWTESYDRVLEFVKRSNAVSPTVALETAAVLQMKLEEVTRRAQEQLQIVLEEQSR
RTEAEDDPEVDSVAGGSKLMEERLTKDEWKAINKLLSHQPDEEMNLYSGKDMQNMTHFLVTVSI
GQGAARIVDINQTEVLCGRFEQLDVTTKFRHRSTQCDVSLRFYGLSAPEGSLAQSVSSERKTNA
LMASFVNAPIGENIDWRLSATISPCHATIWTESYDRVLEFVKRSNAVSPTVALETAAVLQMKLE
EVTRRAQEQLQIVLEEQSRRTEAEDDPEVDSVAGGSKLMEERLTKDEWKAINKLLSHQPDEEMN
LYSGKDMQNMTHFLVTVSIGQGAARIVDINQTEVLCGRFEQLDVTTKFRHRSTQCDVSLRFYGL
SAPEGSLAQSVSSERKTNALMASFVNAPIGENIDWRLSATISPCHATIWTESYDRVLEFVKRSN
AVSPTVALETAAVLQMKLEEVTRRAQEQLQIVLEEQSRRTEAEDDPEVDSVAGGSKLMEERLTK
DEWKAINKLLSHQPDEEMNLYSGKDMQNMTHFLVTVSIGQGAARIVDINQTEVLCGRFEQLDVT
TKFRHRSTQCDVSLRFYGLSAPEGSLAQSVSSERKTNALMASFVNAPIGENIDWRLSATISPCH
ATIWTESYDRVLEFVKRSNAVSPTVALETAAVLQMKLEEVTRRAQEQLQIVLEEQS(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	17752997-17751413(-)
Potential amino acid sequence	MEERLTKDEWKAINKLLSHQPDEEMNLYSGKDMQNMTHFLVTVSIGQGAARIVDINQTEVLCGR FEQLDVTTKFRHRSTQCDVSLRFYGLSAPEGSLAQSVSSERKTNALMASFVNAPIGENIDWRLS ATISPCHATIWTESYDRVLEFVKRSNAVSPTVALETAAVLQMKLEEVTRRAQEQLQIVLEEQSR RTEAEDDPEVDSVAGGSKLMEERLTKDEWKAINKLLSHQPDEEMNLYSGKDMQNMTHFLVTVSI GQGAARIVDINQTEVLCGRFEQLDVTTKFRHRSTQCDVSLRFYGLSAPEGSLAQSVSSERKTNA LMASFVNAPIGENIDWRLSATISPCHATIWTESYDRVLEFVKRSNAVSPTVALETAAVLQMKLE EVTRRAQEQLQIVLEEQSRRTEAEDDPEVDSVAGGSKLMEERLTKDEWKAINKLLSHQPDEEMN LYSGKDMQNMTHFLVTVSIGQGAARIVDINQTEVLCGRFEQLDVTTKFRHRSTQCDVSLRFYGL SAPEGSLAQSVSSERKTNALMASFVNAPIGENIDWRLSATISPCHATIWTESYDRVLEFVKRSN AVSPTVALETAAVLQMKLEEVTRRAQEQLQIVLEEQSRRTEAEDDPEVDSVAGGSKLMEERLTK DEWKAINKLLSHQPDEEMNLYSGKDMQNMTHFLVTVSIGQGAARIVDINQTEVLCGRFEQLDVT TKFRHRSTQCDVSLRFYGLSAPEGSLAQSVSSERKTNALMASFVNAPIGENIDWRLSATISPCH ATIWTESYDRVLEFVKRSNAVSPTVALETAAVLQMKLEEVTRRAQEQLQIVLEEQS(-)
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 AT1G48090_circ_g.27

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