Plant Circular RNA Database

Detail information of AT5G44800_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT5G44800_circ_g.1
					
						ID in PlantcircBase
						ath_circ_042459
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 18085776-18087184  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT5G44800						
					
						Parent gene annotation
						
							PKR1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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
						AT5G44800.1:4

General Information
CircRNA Name	AT5G44800_circ_g.1
ID in PlantcircBase	ath_circ_042459
Alias	NA
Organism	Arabidpsis thaliana
Position	chr5: 18085776-18087184 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT5G44800
Parent gene annotation	PKR1
Parent gene strand	-
Alternative splicing	NA
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	AT5G44800.1:4

			
						 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  
						
							CTTTCCTCTCTGAACTCGGTTCACCAGTATCATCAGTCACCAGTGCAGGTGATTCAGCTCCAAC
TTGTTCTTCAGCTGTTTCCTCATTCCATTCCACAGGctgacgatgtggaagccaaccatccata
ttactaagaggctgctgaaaaggttcttcctttatgttctgtggttttagtttacccataggag
gttcctgg

									
								

					

						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: 882
Transcript exons: 18085776-18086301,18086614-18086696,18086793-18086907,18
087027-18087184
CTGACGATGTGGAAGCCAACCATCCATATTACTAAGAGGCTGCTGAAAAGGTTCTTCCTTTATG
TTCTGTGGTTTTAGTTTACCCATAGGAGGTTCCTGGTCATTTGCTTCCCTCTCAACCAAGTTCG
ATGTTTGGGGTAGATTGAAGGGAAAATGGGGTCCTGTTATGGGTCTGTTCTGTCTACTACCTGG
ACGAGAATAATTTCTCCGGGAGGATTCTGACTGAGTAAAATTAGGAGCACACAGTCCAAGGACT
GGCAGGTTGTTTGGGGGTAAAGATGGCAGACATTCTGCGCCATGATGATGTTGGCTTAGAAGAT
CTGGTTTAGGATCTGAAGAACTGGCTTTTCTTTTCTGTGCATCACATTGCTGGCTAGCTTTGCT
ATCGTCCAAGTCCATTGATGTAGGGCTTTCTTCGTCCTGATTAGCTACTTCAGTTACCTGATCC
ACATTGCCGCTAGGAAGAGACTCTTCAACAGAATTCCTTCTCGCAATCAGGTTCTTTTGCCTCT
CTCGCAGTTTGGTAAACTTTTCTTTTAGGGCTCGCCCTGCCGGTGTATATTCCTTCTTAAGTTC
TGGTTCTGGTTCTTTCTCATCTTCACCACCACTCTCATTTACAGGTCCACTGGTATGTGGGGCA
TATGCTTCCCTATACGAAACAGCCTTTCTCAAACGCTTCCCTCTGCCAAGCGCTGCTTCTTCCT
CGCTCTGATATTTCTCCCATCTCATACGCAGAAGCCTGTCCCATTCATTTTCTTCAGTAAAATT
AACGACATCATCATCTTTCCTCTCTGAACTCGGTTCACCAGTATCATCAGTCACCAGTGCAGGT
GATTCAGCTCCAACTTGTTCTTCAGCTGTTTCCTCATTCCATTCCACAGG
						
					

						Genomic sequence
						
							CTGACGATGTGGAAGCCAACCATCCATATTACTAAGAGGCTGCTGAAAAGGTTCTTCCTTTATG
TTCTGTGGTTTTAGTTTACCCATAGGAGGTTCCTGGTCATTTGCTTCCCTCTCAACCAAGTTCG
ATGTTTGGGGTAGATTGAAGGGAAAATGGGGTCCTGTTATGGGTCTGTTCTGTCTACTACCTGG
ACGAGAATAATTTCTCCGGGAGGATTCTGACTGAGTAAAATTAGGAGCACACAGTCCAAGGACT
GGCAGGTTGTTTGGGGGTAAAGATGGCAGACATTCTGCGCCATGATGATGTTGGCTTAGAAGAT
CTGGTTTAGGATCTGAAGAACTGGCTTTTCTTTTCTGTGCATCACATTGCTGGCTAGCTTTGCT
ATCGTCCAAGTCCATTGATGTAGGGCTTTCTTCGTCCTGATTAGCTACTTCAGTTACCTGATCC
ACATTGCCGCTAGGAAGAGACTCTTCAACAGAATTCCTTCTCGCAATCAGGTTCTTTTGCCTCT
CTCGCAGTTTGGTACTGTTTTGCAGAACATAAAGATACAGTTATTCAAATTCTTAATCAAGAAT
GATGAGGAGCTAAAGGTTTTAATTCACCAGCAAATTAATATGACAAAAATTCTATATCGTCTAT
CGAAATATACACAAATTGATATTGCTACAGAATCTTCTTTTGTCTTCTCATCAGGAAAGATCAC
AATCTTTAGGCTAAGTAATATTTATCTTGAAAGCAGACGTGAATATATTTGCAAAAGGTACAAA
AGTTTCCAACTTCACTATTATCAAGCTAGTAAATAATCGAACAATGAATAGACTTAGGACTAAA
ACTTACAACTTTTCTTTTAGGGCTCGCCCTGCCGGTGTATATTCCTTCTTAAGTTCTGGTTCTG
GTTCTTTCTCATCTTCACCACCACTCTGCAATAATTATAAATTAGGAATACTGGTAATTGTCAC
GACAAAGGTATTCATAACCACAAAAAGATGCTTTTAGGAGTAGAGTAAAATGGTTACCTCATTT
ACAGGTCCACTGGTATGTGGGGCATATGCTTCCCTATACGAAACAGCCTTTCTCAAACGCTTCC
CTCTGCCAAGCGCTGCTTCTTCCTCGCTCTGATATTTCTCCCATCTACATATACAGTTGTCCGT
ATGAAAATTAGCTAACAAGTAATAAGCAGTTGAAACAAGAACATATGCTGCCAAGACCAAAGCC
AAGACGCTGAACTCAGAGAAAGAGGGAACTCCAACCTCATACGCAGAAGCCTGTCCCATTCATT
TTCTTCAGTAAAATTAACGACATCATCATCTTTCCTCTCTGAACTCGGTTCACCAGTATCATCA
GTCACCAGTGCAGGTGATTCAGCTCCAACTTGTTCTTCAGCTGTTTCCTCATTCCATTCCACAG
G
						
					

			
		

Sequences
Splice junction sequence	CTTTCCTCTCTGAACTCGGTTCACCAGTATCATCAGTCACCAGTGCAGGTGATTCAGCTCCAAC TTGTTCTTCAGCTGTTTCCTCATTCCATTCCACAGGctgacgatgtggaagccaaccatccata ttactaagaggctgctgaaaaggttcttcctttatgttctgtggttttagtttacccataggag gttcctgg
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: 882 Transcript exons: 18085776-18086301,18086614-18086696,18086793-18086907,18 087027-18087184 CTGACGATGTGGAAGCCAACCATCCATATTACTAAGAGGCTGCTGAAAAGGTTCTTCCTTTATG TTCTGTGGTTTTAGTTTACCCATAGGAGGTTCCTGGTCATTTGCTTCCCTCTCAACCAAGTTCG ATGTTTGGGGTAGATTGAAGGGAAAATGGGGTCCTGTTATGGGTCTGTTCTGTCTACTACCTGG ACGAGAATAATTTCTCCGGGAGGATTCTGACTGAGTAAAATTAGGAGCACACAGTCCAAGGACT GGCAGGTTGTTTGGGGGTAAAGATGGCAGACATTCTGCGCCATGATGATGTTGGCTTAGAAGAT CTGGTTTAGGATCTGAAGAACTGGCTTTTCTTTTCTGTGCATCACATTGCTGGCTAGCTTTGCT ATCGTCCAAGTCCATTGATGTAGGGCTTTCTTCGTCCTGATTAGCTACTTCAGTTACCTGATCC ACATTGCCGCTAGGAAGAGACTCTTCAACAGAATTCCTTCTCGCAATCAGGTTCTTTTGCCTCT CTCGCAGTTTGGTAAACTTTTCTTTTAGGGCTCGCCCTGCCGGTGTATATTCCTTCTTAAGTTC TGGTTCTGGTTCTTTCTCATCTTCACCACCACTCTCATTTACAGGTCCACTGGTATGTGGGGCA TATGCTTCCCTATACGAAACAGCCTTTCTCAAACGCTTCCCTCTGCCAAGCGCTGCTTCTTCCT CGCTCTGATATTTCTCCCATCTCATACGCAGAAGCCTGTCCCATTCATTTTCTTCAGTAAAATT AACGACATCATCATCTTTCCTCTCTGAACTCGGTTCACCAGTATCATCAGTCACCAGTGCAGGT GATTCAGCTCCAACTTGTTCTTCAGCTGTTTCCTCATTCCATTCCACAGG
Genomic sequence	CTGACGATGTGGAAGCCAACCATCCATATTACTAAGAGGCTGCTGAAAAGGTTCTTCCTTTATG TTCTGTGGTTTTAGTTTACCCATAGGAGGTTCCTGGTCATTTGCTTCCCTCTCAACCAAGTTCG ATGTTTGGGGTAGATTGAAGGGAAAATGGGGTCCTGTTATGGGTCTGTTCTGTCTACTACCTGG ACGAGAATAATTTCTCCGGGAGGATTCTGACTGAGTAAAATTAGGAGCACACAGTCCAAGGACT GGCAGGTTGTTTGGGGGTAAAGATGGCAGACATTCTGCGCCATGATGATGTTGGCTTAGAAGAT CTGGTTTAGGATCTGAAGAACTGGCTTTTCTTTTCTGTGCATCACATTGCTGGCTAGCTTTGCT ATCGTCCAAGTCCATTGATGTAGGGCTTTCTTCGTCCTGATTAGCTACTTCAGTTACCTGATCC ACATTGCCGCTAGGAAGAGACTCTTCAACAGAATTCCTTCTCGCAATCAGGTTCTTTTGCCTCT CTCGCAGTTTGGTACTGTTTTGCAGAACATAAAGATACAGTTATTCAAATTCTTAATCAAGAAT GATGAGGAGCTAAAGGTTTTAATTCACCAGCAAATTAATATGACAAAAATTCTATATCGTCTAT CGAAATATACACAAATTGATATTGCTACAGAATCTTCTTTTGTCTTCTCATCAGGAAAGATCAC AATCTTTAGGCTAAGTAATATTTATCTTGAAAGCAGACGTGAATATATTTGCAAAAGGTACAAA AGTTTCCAACTTCACTATTATCAAGCTAGTAAATAATCGAACAATGAATAGACTTAGGACTAAA ACTTACAACTTTTCTTTTAGGGCTCGCCCTGCCGGTGTATATTCCTTCTTAAGTTCTGGTTCTG GTTCTTTCTCATCTTCACCACCACTCTGCAATAATTATAAATTAGGAATACTGGTAATTGTCAC GACAAAGGTATTCATAACCACAAAAAGATGCTTTTAGGAGTAGAGTAAAATGGTTACCTCATTT ACAGGTCCACTGGTATGTGGGGCATATGCTTCCCTATACGAAACAGCCTTTCTCAAACGCTTCC CTCTGCCAAGCGCTGCTTCTTCCTCGCTCTGATATTTCTCCCATCTACATATACAGTTGTCCGT ATGAAAATTAGCTAACAAGTAATAAGCAGTTGAAACAAGAACATATGCTGCCAAGACCAAAGCC AAGACGCTGAACTCAGAGAAAGAGGGAACTCCAACCTCATACGCAGAAGCCTGTCCCATTCATT TTCTTCAGTAAAATTAACGACATCATCATCTTTCCTCTCTGAACTCGGTTCACCAGTATCATCA GTCACCAGTGCAGGTGATTCAGCTCCAACTTGTTCTTCAGCTGTTTCCTCATTCCATTCCACAG G

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.236062787

Conservation Information
Conserved circRNAs	NA
PMCS	0.236062787

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							18087032-18085778(-)
						
						Potential amino acid sequence
						
							MRWEKYQSEEEAALGRGKRLRKAVSYREAYAPHTSGPVNESGGEDEKEPEPELKKEYTPAGRAL
KEKFTKLRERQKNLIARRNSVEESLPSGNVDQVTEVANQDEESPTSMDLDDSKASQQCDAQKRK
ASSSDPKPDLLSQHHHGAECLPSLPPNNLPVLGLCAPNFTQSESSRRNYSRPGSRQNRPITGPH
FPFNLPQTSNLVEREANDQEPPMGKLKPQNIKEEPFQQPLSNMDGWLPHRQPVEWNEETAEEQV
GAESPALVTDDTGEPSSERKDDDVVNFTEENEWDRLLRMRWEKYQSEEEAALGRGKRLRKAVSY
REAYAPHTSGPVNESGGEDEKEPEPELKKEYTPAGRALKEKFTKLRERQKNLIARRNSVEESLP
SGNVDQVTEVANQDEESPTSMDLDDSKASQQCDAQKRKASSSDPKPDLLSQHHHGAECLPSLPP
NNLPVLGLCAPNFTQSESSRRNYSRPGSRQNRPITGPHFPFNLPQTSNLVEREANDQEPPMGKL
KPQNIKEEPFQQPLSNMDGWLPHRQPVEWNEETAEEQVGAESPALVTDDTGEPSSERKDDDVVN
FTEENEWDRLLRMRWEKYQSEEEAALGRGKRLRKAVSYREAYAPHTSGPVNESGGEDEKEPEPE
LKKEYTPAGRALKEKFTKLRERQKNLIARRNSVEESLPSGNVDQVTEVANQDEESPTSMDLDDS
KASQQCDAQKRKASSSDPKPDLLSQHHHGAECLPSLPPNNLPVLGLCAPNFTQSESSRRNYSRP
GSRQNRPITGPHFPFNLPQTSNLVEREANDQEPPMGKLKPQNIKEEPFQQPLSNMDGWLPHRQP
VEWNEETAEEQVGAESPALVTDDTGEPSSERKDDDVVNFTEENEWDRLLRMRWEKYQSEEEAAL
GRGKRLRKAVSYREAYAPHTSGPVNESGGEDEKEPEPELKKEYTPAGRALKEKFTKLRERQKNL
IARRNSVEESLPSGNVDQVTEVANQDEESPTSMDLDDSKASQQCDAQKRKASSSDPKPDLLSQH
HHGAECLPSLPPNNLPVLGLCAPNFTQSESSRRNYSRPGSRQNRPITGPHFPFNLPQTSNLVER
EANDQEPPMGKLKPQNIKEEPFQQPLSNMDGWLPHRQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	18087032-18085778(-)
Potential amino acid sequence	MRWEKYQSEEEAALGRGKRLRKAVSYREAYAPHTSGPVNESGGEDEKEPEPELKKEYTPAGRAL KEKFTKLRERQKNLIARRNSVEESLPSGNVDQVTEVANQDEESPTSMDLDDSKASQQCDAQKRK ASSSDPKPDLLSQHHHGAECLPSLPPNNLPVLGLCAPNFTQSESSRRNYSRPGSRQNRPITGPH FPFNLPQTSNLVEREANDQEPPMGKLKPQNIKEEPFQQPLSNMDGWLPHRQPVEWNEETAEEQV GAESPALVTDDTGEPSSERKDDDVVNFTEENEWDRLLRMRWEKYQSEEEAALGRGKRLRKAVSY REAYAPHTSGPVNESGGEDEKEPEPELKKEYTPAGRALKEKFTKLRERQKNLIARRNSVEESLP SGNVDQVTEVANQDEESPTSMDLDDSKASQQCDAQKRKASSSDPKPDLLSQHHHGAECLPSLPP NNLPVLGLCAPNFTQSESSRRNYSRPGSRQNRPITGPHFPFNLPQTSNLVEREANDQEPPMGKL KPQNIKEEPFQQPLSNMDGWLPHRQPVEWNEETAEEQVGAESPALVTDDTGEPSSERKDDDVVN FTEENEWDRLLRMRWEKYQSEEEAALGRGKRLRKAVSYREAYAPHTSGPVNESGGEDEKEPEPE LKKEYTPAGRALKEKFTKLRERQKNLIARRNSVEESLPSGNVDQVTEVANQDEESPTSMDLDDS KASQQCDAQKRKASSSDPKPDLLSQHHHGAECLPSLPPNNLPVLGLCAPNFTQSESSRRNYSRP GSRQNRPITGPHFPFNLPQTSNLVEREANDQEPPMGKLKPQNIKEEPFQQPLSNMDGWLPHRQP VEWNEETAEEQVGAESPALVTDDTGEPSSERKDDDVVNFTEENEWDRLLRMRWEKYQSEEEAAL GRGKRLRKAVSYREAYAPHTSGPVNESGGEDEKEPEPELKKEYTPAGRALKEKFTKLRERQKNL IARRNSVEESLPSGNVDQVTEVANQDEESPTSMDLDDSKASQQCDAQKRKASSSDPKPDLLSQH HHGAECLPSLPPNNLPVLGLCAPNFTQSESSRRNYSRPGSRQNRPITGPHFPFNLPQTSNLVER EANDQEPPMGKLKPQNIKEEPFQQPLSNMDGWLPHRQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT5G44800_circ_g.1

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