Plant Circular RNA Database

Detail information of AT5G53620_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT5G53620_circ_g.6
					
						ID in PlantcircBase
						ath_circ_043969
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 21781579-21784067  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT5G53620						
					
						Parent gene annotation
						
							At5g53620
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G53620_circ_g.1 AT5G53620_circ_g.2 AT5G53620_circ_g.3 AT5G53620_circ_g.4 AT5G53620_circ_g.5 AT5G53620_circ_g.7 AT5G53620_circ_g.8 AT5G53620_circ_g.9 AT5G53620_circ_g.10 						
					
						Support reads
						2
					
						Tissues
						inflorescences
					
						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
						AT5G53620.1:9
AT5G53620.3:9
AT5G53620.2:9

General Information
CircRNA Name	AT5G53620_circ_g.6
ID in PlantcircBase	ath_circ_043969
Alias	NA
Organism	Arabidpsis thaliana
Position	chr5: 21781579-21784067 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	KNIFE, PcircRNA_finder
Parent gene	AT5G53620
Parent gene annotation	At5g53620
Parent gene strand	+
Alternative splicing	AT5G53620_circ_g.1 AT5G53620_circ_g.2 AT5G53620_circ_g.3 AT5G53620_circ_g.4 AT5G53620_circ_g.5 AT5G53620_circ_g.7 AT5G53620_circ_g.8 AT5G53620_circ_g.9 AT5G53620_circ_g.10
Support reads	2
Tissues	inflorescences
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	AT5G53620.1:9 AT5G53620.3:9 AT5G53620.2:9

			
						 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  
						
							TGGCTTGGTACAATCCTTTGGTCAAGGGTACGGAGATATTCAAACTAGCCAAGTAGCACAATAC
GGAACTACGACAACACCATCCTCTGTGAATGAACAGgatttggaacagttaaagctgaacagga
cagatgagagaacgatttatgaggttaatttcttctttcttgcaatgttgttacttagtttttg
tacttatt

									
								

					

						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
						
							GATTTGGAACAGTTAAAGCTGAACAGGACAGATGAGAGAACGATTTATGAGGTTAATTTCTTCT
TTCTTGCAATGTTGTTACTTAGTTTTTGTACTTATTGGAGAGTGGGGACGACTTCTTAATGGGG
TTTGTTGTTGTGCAGAATGGAAGAGAACAGGATGGTTATTCAAATAGTGAGATGTTGCAGCAAC
AGATTCTTAATGTTTCTAGAAAGAAAGGAGAATTACAGCAGTTGGAGATTGAGCTTCGAGCTCA
GATGATTGCGAGACATGAGATCATGGAGATCCAGAGCAACTATGAATCTCAATTCACAGAGTAT
GCTAATGCTGCTGCTAGAATGCAGGTTAGGTTTCATCCTCCTGGTATATTAGCAGGTTTTTTAT
TTATTTATTTCATCGAGCATTGTGTTGCGTGGAAGTTAAAGGACTGTTGCTGACTTTTTAGGAG
CAACTTCATGAGAATGAGAGATCTATTCGGGAGGCAGAGAGGAAGTTAGAAGAGAAAGACAGAG
AGCTACATGCGATTAAACTAGATAATGAAGCGGTCTGTTTGTTTATTCATTACTACTAGATTTT
TTTGTGATATAAATTTGAATGATTTGTTACTCTCCTTGTTCTGCTACTAGGCTTGGGCCAAAGA
GGGTATCCTAAGAGAACAAAATAAAGAACTTGCCACATTCAGGTGCTGTTAATTCCTTATCTCT
TTTCTCTTTGTTTAGTCTGTACGAGTTTACCTATTATACTGCATTAATCTATTATTCTTCTATC
TTATATTGGGTTCTGCTACTTTCGTTTTTGACAAATATTATATCAGGCCTTTGATTTCTACTTG
TATAAGACGTTTCAGGCATGAGGTTTTAGAAAATATAACAGGATACATTTTCTCTTTCTTTAAT
ATGCAGAAGAGAGCGTGATCACTCTGAAGCTGAGAGGTCCCAGAATATACATAAAATATCTGAA
CTTCAGGAGCATATTCAAGAGAAAGAGAGTCAGCTCAGTGAATTGCAGGAACAAGTTAGTTTTC
CCTTGTTTTTGTGACACGATCAAATTTTTTTAAACATCTCATGCTTATGGATCTTTCAGTTATA
TATCATTGTCATTTTTGAAATTCTAATACACTAAAACAAGAGTCGTTAATTTTAATGGCTTGTA
GAATAGGATTGCTCAAGAAACTATCCTGTACAAGGATGAGCAACTAAGAGAAGCACAAGGTTGG
ATTGCTCGTGCCCAAGAGATTGATGCTTTACAATCATCTACAAATCATTCGTTGCAGGCTGAAT
TGCGAGAACGTACTGAGCAGTATAACCAGCTCTGGCATGGTTGTCAGAGGCAGGTCAGTTGCCC
TGAGTATCTTCCGATTCCTAATTGATTTTCCATGAGACGCTTCTACTCTAGTCTTATGTTGTTC
CTTGTTATTGAGTTCAGTTTGCAGAGATGGAGAGATTGCATGTGCACACAGTGCAACAGCTTCA
GCAAGAGCTTGCTAATGTAAGGGAAGCTGGTGGTTCCAAAACAAACTCCGGTGGAGCCTCCCAG
ACTATTCAGAACAGCGGGAACCAATTTGATGCTCATGGAAACAGCGCAGAAAGTGCAAACATTA
GTGTCCATTCAAATGGAAAAAGCGCAGATAACATCTCATCTTTTACTTCAACTGATGATAAGGC
TACCCAGGTACATGTTTGTTTCTGTGGATTCTCTTGAATGATTTCCCTCTAATTGGCGTTTTGT
GTTGGATTTACAAGATGATAGCTTATCACAATACAATGTTAGCTTGTGGTGAGATGAATCTGTA
CATTTGCTAATGCAGTTGGCTTATCAGCCGATTTAATTGTTAAACATTAGATATTGAAACTGTC
AAGCAAAAGTGAAATAATTGGATATTCCCAGCACTCCAAAAAGTACTGTGTTGAAAATTAAGAA
GGCCAGTATAAAAGTTCTTTGATTTTGTATTTGGAAGTAGTTGTTTCATCACTTGTCTATTCAA
TCTAGTGCTGATTGTTCGAAATTCTAGATTTGTCATGCTCCACTTCATATCCTAACTGTAACTA
CCTTTTTCCCGTAACTATTTGTAGAACAACCGTGTTGATGGGATATCAGCTTCCAATCTTGCGA
CACATGGGTTCCTTCAAGCTGGTCAGATGACCCCTCTGCATTCATTTGTCATGCATCAACAAGA
GATTTCTCAGCTTGTTCAGCCTCAGGTCCCTTCACAACATATTGAACAATCAGTGTTGCTACAG
CAAAAGGTGTGAGCTTAAGAATGCAGCTTGTGTTTCATTTTTTATAGTTAATGACCATTGTCTT
TCATTCTCTTTTTGTAGGCTCAGGCTGTACCAGATAGTTCACAGATGCCTATGCAGAATCATGT
GCATCCATCTCAAGGTGTTCATGGCTTGGTACAATCCTTTGGTCAAGGGTACGGAGATATTCAA
ACTAGCCAAGTAGCACAATACGGAACTACGACAACACCATCCTCTGTGAATGAACAG
						
					

			
		

Sequences
Splice junction sequence	TGGCTTGGTACAATCCTTTGGTCAAGGGTACGGAGATATTCAAACTAGCCAAGTAGCACAATAC GGAACTACGACAACACCATCCTCTGTGAATGAACAGgatttggaacagttaaagctgaacagga cagatgagagaacgatttatgaggttaatttcttctttcttgcaatgttgttacttagtttttg tacttatt
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	GATTTGGAACAGTTAAAGCTGAACAGGACAGATGAGAGAACGATTTATGAGGTTAATTTCTTCT TTCTTGCAATGTTGTTACTTAGTTTTTGTACTTATTGGAGAGTGGGGACGACTTCTTAATGGGG TTTGTTGTTGTGCAGAATGGAAGAGAACAGGATGGTTATTCAAATAGTGAGATGTTGCAGCAAC AGATTCTTAATGTTTCTAGAAAGAAAGGAGAATTACAGCAGTTGGAGATTGAGCTTCGAGCTCA GATGATTGCGAGACATGAGATCATGGAGATCCAGAGCAACTATGAATCTCAATTCACAGAGTAT GCTAATGCTGCTGCTAGAATGCAGGTTAGGTTTCATCCTCCTGGTATATTAGCAGGTTTTTTAT TTATTTATTTCATCGAGCATTGTGTTGCGTGGAAGTTAAAGGACTGTTGCTGACTTTTTAGGAG CAACTTCATGAGAATGAGAGATCTATTCGGGAGGCAGAGAGGAAGTTAGAAGAGAAAGACAGAG AGCTACATGCGATTAAACTAGATAATGAAGCGGTCTGTTTGTTTATTCATTACTACTAGATTTT TTTGTGATATAAATTTGAATGATTTGTTACTCTCCTTGTTCTGCTACTAGGCTTGGGCCAAAGA GGGTATCCTAAGAGAACAAAATAAAGAACTTGCCACATTCAGGTGCTGTTAATTCCTTATCTCT TTTCTCTTTGTTTAGTCTGTACGAGTTTACCTATTATACTGCATTAATCTATTATTCTTCTATC TTATATTGGGTTCTGCTACTTTCGTTTTTGACAAATATTATATCAGGCCTTTGATTTCTACTTG TATAAGACGTTTCAGGCATGAGGTTTTAGAAAATATAACAGGATACATTTTCTCTTTCTTTAAT ATGCAGAAGAGAGCGTGATCACTCTGAAGCTGAGAGGTCCCAGAATATACATAAAATATCTGAA CTTCAGGAGCATATTCAAGAGAAAGAGAGTCAGCTCAGTGAATTGCAGGAACAAGTTAGTTTTC CCTTGTTTTTGTGACACGATCAAATTTTTTTAAACATCTCATGCTTATGGATCTTTCAGTTATA TATCATTGTCATTTTTGAAATTCTAATACACTAAAACAAGAGTCGTTAATTTTAATGGCTTGTA GAATAGGATTGCTCAAGAAACTATCCTGTACAAGGATGAGCAACTAAGAGAAGCACAAGGTTGG ATTGCTCGTGCCCAAGAGATTGATGCTTTACAATCATCTACAAATCATTCGTTGCAGGCTGAAT TGCGAGAACGTACTGAGCAGTATAACCAGCTCTGGCATGGTTGTCAGAGGCAGGTCAGTTGCCC TGAGTATCTTCCGATTCCTAATTGATTTTCCATGAGACGCTTCTACTCTAGTCTTATGTTGTTC CTTGTTATTGAGTTCAGTTTGCAGAGATGGAGAGATTGCATGTGCACACAGTGCAACAGCTTCA GCAAGAGCTTGCTAATGTAAGGGAAGCTGGTGGTTCCAAAACAAACTCCGGTGGAGCCTCCCAG ACTATTCAGAACAGCGGGAACCAATTTGATGCTCATGGAAACAGCGCAGAAAGTGCAAACATTA GTGTCCATTCAAATGGAAAAAGCGCAGATAACATCTCATCTTTTACTTCAACTGATGATAAGGC TACCCAGGTACATGTTTGTTTCTGTGGATTCTCTTGAATGATTTCCCTCTAATTGGCGTTTTGT GTTGGATTTACAAGATGATAGCTTATCACAATACAATGTTAGCTTGTGGTGAGATGAATCTGTA CATTTGCTAATGCAGTTGGCTTATCAGCCGATTTAATTGTTAAACATTAGATATTGAAACTGTC AAGCAAAAGTGAAATAATTGGATATTCCCAGCACTCCAAAAAGTACTGTGTTGAAAATTAAGAA GGCCAGTATAAAAGTTCTTTGATTTTGTATTTGGAAGTAGTTGTTTCATCACTTGTCTATTCAA TCTAGTGCTGATTGTTCGAAATTCTAGATTTGTCATGCTCCACTTCATATCCTAACTGTAACTA CCTTTTTCCCGTAACTATTTGTAGAACAACCGTGTTGATGGGATATCAGCTTCCAATCTTGCGA CACATGGGTTCCTTCAAGCTGGTCAGATGACCCCTCTGCATTCATTTGTCATGCATCAACAAGA GATTTCTCAGCTTGTTCAGCCTCAGGTCCCTTCACAACATATTGAACAATCAGTGTTGCTACAG CAAAAGGTGTGAGCTTAAGAATGCAGCTTGTGTTTCATTTTTTATAGTTAATGACCATTGTCTT TCATTCTCTTTTTGTAGGCTCAGGCTGTACCAGATAGTTCACAGATGCCTATGCAGAATCATGT GCATCCATCTCAAGGTGTTCATGGCTTGGTACAATCCTTTGGTCAAGGGTACGGAGATATTCAA ACTAGCCAAGTAGCACAATACGGAACTACGACAACACCATCCTCTGTGAATGAACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.118785784

Conservation Information
Conserved circRNAs	NA
PMCS	0.118785784

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							21781758-21784064(+)
						
					

						Potential amino acid sequence
						
							MLQQQILNVSRKKGELQQLEIELRAQMIARHEIMEIQSNYESQFTEYANAAARMQEQLHENERS
IREAERKLEEKDRELHAIKLDNEAAWAKEGILREQNKELATFRRERDHSEAERSQNIHKISELQ
EHIQEKESQLSELQEQNRIAQETILYKDEQLREAQGWIARAQEIDALQSSTNHSLQAELRERTE
QYNQLWHGCQRQFAEMERLHVHTVQQLQQELANVREAGGSKTNSGGASQTIQNSGNQFDAHGNS
AESANISVHSNGKSADNISSFTSTDDKATQNNRVDGISASNLATHGFLQAGQMTPLHSFVMHQQ
EISQLVQPQVPSQHIEQSVLLQQKAQAVPDSSQMPMQNHVHPSQGVHGLVQSFGQGYGDIQTSQ
VAQYGTTTTPSSVNEQDLEQLKLNRTDERTIYENGREQDGYSNSEMLQQQILNVSRKKGELQQL
EIELRAQMIARHEIMEIQSNYESQFTEYANAAARMQEQLHENERSIREAERKLEEKDRELHAIK
LDNEAAWAKEGILREQNKELATFRRERDHSEAERSQNIHKISELQEHIQEKESQLSELQEQNRI
AQETILYKDEQLREAQGWIARAQEIDALQSSTNHSLQAELRERTEQYNQLWHGCQRQFAEMERL
HVHTVQQLQQELANVREAGGSKTNSGGASQTIQNSGNQFDAHGNSAESANISVHSNGKSADNIS
SFTSTDDKATQNNRVDGISASNLATHGFLQAGQMTPLHSFVMHQQEISQLVQPQVPSQHIEQSV
LLQQKAQAVPDSSQMPMQNHVHPSQGVHGLVQSFGQGYGDIQTSQVAQYGTTTTPSSVNEQDLE
QLKLNRTDERTIYENGREQDGYSNSEMLQQQILNVSRKKGELQQLEIELRAQMIARHEIMEIQS
NYESQFTEYANAAARMQEQLHENERSIREAERKLEEKDRELHAIKLDNEAAWAKEGILREQNKE
LATFRRERDHSEAERSQNIHKISELQEHIQEKESQLSELQEQNRIAQETILYKDEQLREAQGWI
ARAQEIDALQSSTNHSLQAELRERTEQYNQLWHGCQRQFAEMERLHVHTVQQLQQELANVREAG
GSKTNSGGASQTIQNSGNQFDAHGNSAESANISVHSNGKSADNISSFTSTDDKATQNNRVDGIS
ASNLATHGFLQAGQMTPLHSFVMHQQEISQLVQPQVPSQHIEQSVLLQQKAQAVPDSSQMPMQN
HVHPSQGVHGLVQSFGQGYGDIQTSQVAQYGTTTTPSSVNEQDLEQLKLNRTDERTIYENGREQ
DGYSNSEMLQQQILNVSRKKGELQQLEIELRAQMIARHEIMEIQSNYESQFTEYANAAARMQEQ
LHENERSIREAERKLEEKDRELHAIKLDNEAAWAKEGILREQNKELATFRRERDHSEAERSQNI
HKISELQEHIQEKESQLSELQEQNRIAQETILYKDEQLREAQGWIARAQEIDALQSSTNHSLQA
ELRERTEQYNQLWHGCQRQFAEMERLHVHTVQQLQQELANVREAGGSKTNSGGASQTIQNSGNQ
FDAHGNSAESANISVHSNGKSADNISSFTSTDDKATQNNRVDGISASNLATHGFLQAGQMTPLH
SFVMHQQEISQLVQPQVPSQHIEQSVLLQQKAQAVPDSSQMPMQNHVHPSQGVHGLVQSFGQGY
GDIQTSQVAQYGTTTTPSSVNEQ(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	21781758-21784064(+)
Potential amino acid sequence	MLQQQILNVSRKKGELQQLEIELRAQMIARHEIMEIQSNYESQFTEYANAAARMQEQLHENERS IREAERKLEEKDRELHAIKLDNEAAWAKEGILREQNKELATFRRERDHSEAERSQNIHKISELQ EHIQEKESQLSELQEQNRIAQETILYKDEQLREAQGWIARAQEIDALQSSTNHSLQAELRERTE QYNQLWHGCQRQFAEMERLHVHTVQQLQQELANVREAGGSKTNSGGASQTIQNSGNQFDAHGNS AESANISVHSNGKSADNISSFTSTDDKATQNNRVDGISASNLATHGFLQAGQMTPLHSFVMHQQ EISQLVQPQVPSQHIEQSVLLQQKAQAVPDSSQMPMQNHVHPSQGVHGLVQSFGQGYGDIQTSQ VAQYGTTTTPSSVNEQDLEQLKLNRTDERTIYENGREQDGYSNSEMLQQQILNVSRKKGELQQL EIELRAQMIARHEIMEIQSNYESQFTEYANAAARMQEQLHENERSIREAERKLEEKDRELHAIK LDNEAAWAKEGILREQNKELATFRRERDHSEAERSQNIHKISELQEHIQEKESQLSELQEQNRI AQETILYKDEQLREAQGWIARAQEIDALQSSTNHSLQAELRERTEQYNQLWHGCQRQFAEMERL HVHTVQQLQQELANVREAGGSKTNSGGASQTIQNSGNQFDAHGNSAESANISVHSNGKSADNIS SFTSTDDKATQNNRVDGISASNLATHGFLQAGQMTPLHSFVMHQQEISQLVQPQVPSQHIEQSV LLQQKAQAVPDSSQMPMQNHVHPSQGVHGLVQSFGQGYGDIQTSQVAQYGTTTTPSSVNEQDLE QLKLNRTDERTIYENGREQDGYSNSEMLQQQILNVSRKKGELQQLEIELRAQMIARHEIMEIQS NYESQFTEYANAAARMQEQLHENERSIREAERKLEEKDRELHAIKLDNEAAWAKEGILREQNKE LATFRRERDHSEAERSQNIHKISELQEHIQEKESQLSELQEQNRIAQETILYKDEQLREAQGWI ARAQEIDALQSSTNHSLQAELRERTEQYNQLWHGCQRQFAEMERLHVHTVQQLQQELANVREAG GSKTNSGGASQTIQNSGNQFDAHGNSAESANISVHSNGKSADNISSFTSTDDKATQNNRVDGIS ASNLATHGFLQAGQMTPLHSFVMHQQEISQLVQPQVPSQHIEQSVLLQQKAQAVPDSSQMPMQN HVHPSQGVHGLVQSFGQGYGDIQTSQVAQYGTTTTPSSVNEQDLEQLKLNRTDERTIYENGREQ DGYSNSEMLQQQILNVSRKKGELQQLEIELRAQMIARHEIMEIQSNYESQFTEYANAAARMQEQ LHENERSIREAERKLEEKDRELHAIKLDNEAAWAKEGILREQNKELATFRRERDHSEAERSQNI HKISELQEHIQEKESQLSELQEQNRIAQETILYKDEQLREAQGWIARAQEIDALQSSTNHSLQA ELRERTEQYNQLWHGCQRQFAEMERLHVHTVQQLQQELANVREAGGSKTNSGGASQTIQNSGNQ FDAHGNSAESANISVHSNGKSADNISSFTSTDDKATQNNRVDGISASNLATHGFLQAGQMTPLH SFVMHQQEISQLVQPQVPSQHIEQSVLLQQKAQAVPDSSQMPMQNHVHPSQGVHGLVQSFGQGY GDIQTSQVAQYGTTTTPSSVNEQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT5G53620_circ_g.6

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