Plant Circular RNA Database

Detail information of AT1G49730_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G49730_circ_g.1
					
						ID in PlantcircBase
						ath_circ_006499
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 18403013-18405102  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							AT1G49730						
					
						Parent gene annotation
						
							Protein kinase superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G49730_circ_g.2 AT1G49730_circ_g.3 						
					
						Support reads
						26
					
						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  
						
							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
						AT1G49730.5:6
AT1G49730.2:7
AT1G49730.3:7
AT1G49730.4:8
AT1G49730.1:8

General Information
CircRNA Name	AT1G49730_circ_g.1
ID in PlantcircBase	ath_circ_006499
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 18403013-18405102 JBrowse»
Reference genome	TAIR10.38
Type	u-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	AT1G49730
Parent gene annotation	Protein kinase superfamily protein
Parent gene strand	-
Alternative splicing	AT1G49730_circ_g.2 AT1G49730_circ_g.3
Support reads	26
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	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	AT1G49730.5:6 AT1G49730.2:7 AT1G49730.3:7 AT1G49730.4:8 AT1G49730.1:8

			
						 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  
						
							AAAGCGTTCATGTAGCGGCAACATTTGCCTCTGTTGGTTATGTTGGAGCACACAGTAGCTACTA
GAGTGAAATTTGATCCACTGAAATCTAATGGACAATcttcatcaactgctcttctcccggttat
gagctccagcaacacaactccgtagctgtacacatcactcttctctgtcaactcttgcgttact
acatattc

									
								

					

						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
						
							CTTCATCAACTGCTCTTCTCCCGGTTATGAGCTCCAGCAACACAACTCCGTAGCTGTACACATC
ACTCTTCTCTGTCAACTCTTGCGTTACTACATATTCCGGATCTACATAACCTGAAAAAACTTCA
AGTTTTTAAAACTCAGCTTCCATCAAAAGTAGTCAAGTTATTCTGTTCAGTATCTCTCCCAAAC
CTGGAGTTCCACGGATATCGGTATTCACAGGCTCAAAGCAAACAGAGCCATCTCTAGACGAATG
TGCAAGGCCAAAATCTGAAAGCTGCACCAAGAAAACATTATTAGTTATCCAAATACCAAAGGGT
TCTCTAACACAGAAGATGTGCAGTACTACATACCTTAGCGACGAAGTTCTCATCGAGTAATATA
TTGCTTGATTTAATATCTCTATGACAGAGAGGAGGATCACAGTAGAAATGAAGATATTCCTGGA
GGAGAGAACAACGTGCAGCCAAGAACCAAAAACTGTAAAAGATATATTATCAAATCAGTTTACA
GAGAAAATGTAGATGAAAGACTTTGGAATATTTACCAAAGCATTTGCCACATCAATTGCAATTT
TCATTCTTGTTCCCCAACTAGGTGGAGGCTTTCCAATGGCTGCAAAGGAAAAAATTGAAACAAG
AAAAGTATTCAACACTCAGGACTCGTACACTTATGGTAGAAGAAGCATATACATACCATGTAAG
TGATCTTTTAAGCTGCCATTTTTCATATAGTCGTAGACCAAGAACCTGAATGATTGAAACAATA
TAAAATGAGAACACTTATGGTTTAGATAAATGCAGAAGGCGAAAAAGCAATGTATGGTTCTTCA
CCTTTCTTTCTTGTTGATGCAAAAGCCTTTCAAAGCAACGAGGTTACGGTGATGCAGCTTAGCT
AAAAGCCCTATCTCTCTACAAAAATCTTGTTCAGCTTGTTCAGAGACTTTGTTCATCTTTTTTA
CCGCTGCAATCAGACCATCGTTGAACTCGGCTTTGTAAACAGTACCAAAACCTCCCTGACCGAT
AACCGTGTTGAAATCATTTGTTGCATTTGTCATTTCCTTGTAGCTGAACTTTCTGAAAGCTGAG
GAAGAATCATCTGCAGAAAAAAGCGTTTTCAAGTCATTTCTTAGGTATCTTATATTATAAAACA
AAGAACTCAACTCTCTATTTTCACACCTTCATGAATCTTGAATACAGGAAGGGAAGAAGGAACT
GATTTTGTTGACTTTCTATCCAAGCTCTCAGATTCATCCAGTTCCCGGTTCTTTCTACGGATAA
GAATTACCAAGACTACAAGCATCGTAAGAGCAACAGCTGTAACAACAATCCCAATGGTTGGAAC
CATTGTTAAGTGATATGGATTGGTGCTTCTACTTGTAGTCATTTGAGAATCACTGTTGCTTGGG
CTAATACCACCAACCGTGCTTGGAGAAGGTTCTGGACTTGCCACTGGTGAAAATGACTCTGTCG
ATACACAATGAGTTACTAAAGAAACTGATGAGATACTAAGAAAATTGCAGTCATGAGTCTAACC
TGAAGGAATGTTAAGCTCTGTCACTTGAAAGAAACAACTAAGGAGTTCAAGAGCTGATGTATCG
TCTATTCGGCTTGCTAATGTAGCATAAGTCGCATCACGACAAGTACACAGAGTAATGTTATTAG
TCTCTGCACCTATGAGATTACGAAGGTAAGTGATGCCAGAGTTCAAACACTTTCTGCATTGGTG
TCCCGGCGAAAATGGGAGTCTGCAGTTTCTTGAAACATGTCCAAATCCCGGAGACTGATGCATT
TGTGTAACAGTGGTTCGACCGTCACAGTCATACTTAACAAGGATCTTGGTTCCCAAACCGCAGA
AACTAGTGGCGTTTCTCGAGACTCCGTAGCCCTCCATGGCTCTAGAGATGGAAGCAATGCAGGT
TTCAGATAAATCTGATGTGACTCCAAGATTAGTTGACAAGTTCGCGTAACGAGCCACGGACACC
GCAACAAAAGCGTTCATGTAGCGGCAACATTTGCCTCTGTTGGTTATGTTGGAGCACACAGTAG
CTACTAGAGTGAAATTTGATCCACTGAAATCTAATGGACAAT
						
					

			
		

Sequences
Splice junction sequence	AAAGCGTTCATGTAGCGGCAACATTTGCCTCTGTTGGTTATGTTGGAGCACACAGTAGCTACTA GAGTGAAATTTGATCCACTGAAATCTAATGGACAATcttcatcaactgctcttctcccggttat gagctccagcaacacaactccgtagctgtacacatcactcttctctgtcaactcttgcgttact acatattc
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	CTTCATCAACTGCTCTTCTCCCGGTTATGAGCTCCAGCAACACAACTCCGTAGCTGTACACATC ACTCTTCTCTGTCAACTCTTGCGTTACTACATATTCCGGATCTACATAACCTGAAAAAACTTCA AGTTTTTAAAACTCAGCTTCCATCAAAAGTAGTCAAGTTATTCTGTTCAGTATCTCTCCCAAAC CTGGAGTTCCACGGATATCGGTATTCACAGGCTCAAAGCAAACAGAGCCATCTCTAGACGAATG TGCAAGGCCAAAATCTGAAAGCTGCACCAAGAAAACATTATTAGTTATCCAAATACCAAAGGGT TCTCTAACACAGAAGATGTGCAGTACTACATACCTTAGCGACGAAGTTCTCATCGAGTAATATA TTGCTTGATTTAATATCTCTATGACAGAGAGGAGGATCACAGTAGAAATGAAGATATTCCTGGA GGAGAGAACAACGTGCAGCCAAGAACCAAAAACTGTAAAAGATATATTATCAAATCAGTTTACA GAGAAAATGTAGATGAAAGACTTTGGAATATTTACCAAAGCATTTGCCACATCAATTGCAATTT TCATTCTTGTTCCCCAACTAGGTGGAGGCTTTCCAATGGCTGCAAAGGAAAAAATTGAAACAAG AAAAGTATTCAACACTCAGGACTCGTACACTTATGGTAGAAGAAGCATATACATACCATGTAAG TGATCTTTTAAGCTGCCATTTTTCATATAGTCGTAGACCAAGAACCTGAATGATTGAAACAATA TAAAATGAGAACACTTATGGTTTAGATAAATGCAGAAGGCGAAAAAGCAATGTATGGTTCTTCA CCTTTCTTTCTTGTTGATGCAAAAGCCTTTCAAAGCAACGAGGTTACGGTGATGCAGCTTAGCT AAAAGCCCTATCTCTCTACAAAAATCTTGTTCAGCTTGTTCAGAGACTTTGTTCATCTTTTTTA CCGCTGCAATCAGACCATCGTTGAACTCGGCTTTGTAAACAGTACCAAAACCTCCCTGACCGAT AACCGTGTTGAAATCATTTGTTGCATTTGTCATTTCCTTGTAGCTGAACTTTCTGAAAGCTGAG GAAGAATCATCTGCAGAAAAAAGCGTTTTCAAGTCATTTCTTAGGTATCTTATATTATAAAACA AAGAACTCAACTCTCTATTTTCACACCTTCATGAATCTTGAATACAGGAAGGGAAGAAGGAACT GATTTTGTTGACTTTCTATCCAAGCTCTCAGATTCATCCAGTTCCCGGTTCTTTCTACGGATAA GAATTACCAAGACTACAAGCATCGTAAGAGCAACAGCTGTAACAACAATCCCAATGGTTGGAAC CATTGTTAAGTGATATGGATTGGTGCTTCTACTTGTAGTCATTTGAGAATCACTGTTGCTTGGG CTAATACCACCAACCGTGCTTGGAGAAGGTTCTGGACTTGCCACTGGTGAAAATGACTCTGTCG ATACACAATGAGTTACTAAAGAAACTGATGAGATACTAAGAAAATTGCAGTCATGAGTCTAACC TGAAGGAATGTTAAGCTCTGTCACTTGAAAGAAACAACTAAGGAGTTCAAGAGCTGATGTATCG TCTATTCGGCTTGCTAATGTAGCATAAGTCGCATCACGACAAGTACACAGAGTAATGTTATTAG TCTCTGCACCTATGAGATTACGAAGGTAAGTGATGCCAGAGTTCAAACACTTTCTGCATTGGTG TCCCGGCGAAAATGGGAGTCTGCAGTTTCTTGAAACATGTCCAAATCCCGGAGACTGATGCATT TGTGTAACAGTGGTTCGACCGTCACAGTCATACTTAACAAGGATCTTGGTTCCCAAACCGCAGA AACTAGTGGCGTTTCTCGAGACTCCGTAGCCCTCCATGGCTCTAGAGATGGAAGCAATGCAGGT TTCAGATAAATCTGATGTGACTCCAAGATTAGTTGACAAGTTCGCGTAACGAGCCACGGACACC GCAACAAAAGCGTTCATGTAGCGGCAACATTTGCCTCTGTTGGTTATGTTGGAGCACACAGTAG CTACTAGAGTGAAATTTGATCCACTGAAATCTAATGGACAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.127404769

Conservation Information
Conserved circRNAs	NA
PMCS	0.127404769

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							18405014-18403015(-)
						
					

						Potential amino acid sequence
						
							MNAFVAVSVARYANLSTNLGVTSDLSETCIASISRAMEGYGVSRNATSFCGLGTKILVKYDCDG
RTTVTQMHQSPGFGHVSRNCRLPFSPGHQCRKCLNSGITYLRNLIGAETNNITLCTCRDATYAT
LASRIDDTSALELLSCFFQVTELNIPSESFSPVASPEPSPSTVGGISPSNSDSQMTTSRSTNPY
HLTMVPTIGIVVTAVALTMLVVLVILIRRKNRELDESESLDRKSTKSVPSSLPVFKIHEDDSSS
AFRKFSYKEMTNATNDFNTVIGQGGFGTVYKAEFNDGLIAAVKKMNKVSEQAEQDFCREIGLLA
KLHHRNLVALKGFCINKKERFLVYDYMKNGSLKDHLHAIGKPPPSWGTRMKIAIDVANALEYLH
FYCDPPLCHRDIKSSNILLDENFVAKLSDFGLAHSSRDGSVCFEPVNTDIRGTPGYVDPEYVVT
QELTEKSDVYSYGVVLLELITGRRAVDEDCPLDFSGSNFTLVATVCSNITNRGKCCRYMNAFVA
VSVARYANLSTNLGVTSDLSETCIASISRAMEGYGVSRNATSFCGLGTKILVKYDCDGRTTVTQ
MHQSPGFGHVSRNCRLPFSPGHQCRKCLNSGITYLRNLIGAETNNITLCTCRDATYATLASRID
DTSALELLSCFFQVTELNIPSESFSPVASPEPSPSTVGGISPSNSDSQMTTSRSTNPYHLTMVP
TIGIVVTAVALTMLVVLVILIRRKNRELDESESLDRKSTKSVPSSLPVFKIHEDDSSSAFRKFS
YKEMTNATNDFNTVIGQGGFGTVYKAEFNDGLIAAVKKMNKVSEQAEQDFCREIGLLAKLHHRN
LVALKGFCINKKERFLVYDYMKNGSLKDHLHAIGKPPPSWGTRMKIAIDVANALEYLHFYCDPP
LCHRDIKSSNILLDENFVAKLSDFGLAHSSRDGSVCFEPVNTDIRGTPGYVDPEYVVTQELTEK
SDVYSYGVVLLELITGRRAVDEDCPLDFSGSNFTLVATVCSNITNRGKCCRYMNAFVAVSVARY
ANLSTNLGVTSDLSETCIASISRAMEGYGVSRNATSFCGLGTKILVKYDCDGRTTVTQMHQSPG
FGHVSRNCRLPFSPGHQCRKCLNSGITYLRNLIGAETNNITLCTCRDATYATLASRIDDTSALE
LLSCFFQVTELNIPSESFSPVASPEPSPSTVGGISPSNSDSQMTTSRSTNPYHLTMVPTIGIVV
TAVALTMLVVLVILIRRKNRELDESESLDRKSTKSVPSSLPVFKIHEDDSSSAFRKFSYKEMTN
ATNDFNTVIGQGGFGTVYKAEFNDGLIAAVKKMNKVSEQAEQDFCREIGLLAKLHHRNLVALKG
FCINKKERFLVYDYMKNGSLKDHLHAIGKPPPSWGTRMKIAIDVANALEYLHFYCDPPLCHRDI
KSSNILLDENFVAKLSDFGLAHSSRDGSVCFEPVNTDIRGTPGYVDPEYVVTQELTEKSDVYSY
GVVLLELITGRRAVDEDCPLDFSGSNFTLVATVCSNITNRGKCCRYMNAFVAVSVARYANLSTN
LGVTSDLSETCIASISRAMEGYGVSRNATSFCGLGTKILVKYDCDGRTTVTQMHQSPGFGHVSR
NCRLPFSPGHQCRKCLNSGITYLRNLIGAETNNITLCTCRDATYATLASRIDDTSALELLSCFF
QVTELNIPSESFSPVASPEPSPSTVGGISPSNSDSQMTTSRSTNPYHLTMVPTIGIVVTAVALT
MLVVLVILIRRKNRELDESESLDRKSTKSVPSSLPVFKIHEDDSSSAFRKFSYKEMTNATNDFN
TVIGQGGFGTVYKAEFNDGLIAAVKKMNKVSEQAEQDFCREIGLLAKLHHRNLVALKGFCINKK
ERFLVYDYMKNGSLKDHLHAIGKPPPSWGTRMKIAIDVANALEYLHFYCDPPLCHRDIKSSNIL
LDENFVAKLSDFGLAHSSRDGSVCFEPVNTDIRGTPGYVDPEYVVTQELTEKSDVYSYGVVLLE
LITGRRAVDE(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	18405014-18403015(-)
Potential amino acid sequence	MNAFVAVSVARYANLSTNLGVTSDLSETCIASISRAMEGYGVSRNATSFCGLGTKILVKYDCDG RTTVTQMHQSPGFGHVSRNCRLPFSPGHQCRKCLNSGITYLRNLIGAETNNITLCTCRDATYAT LASRIDDTSALELLSCFFQVTELNIPSESFSPVASPEPSPSTVGGISPSNSDSQMTTSRSTNPY HLTMVPTIGIVVTAVALTMLVVLVILIRRKNRELDESESLDRKSTKSVPSSLPVFKIHEDDSSS AFRKFSYKEMTNATNDFNTVIGQGGFGTVYKAEFNDGLIAAVKKMNKVSEQAEQDFCREIGLLA KLHHRNLVALKGFCINKKERFLVYDYMKNGSLKDHLHAIGKPPPSWGTRMKIAIDVANALEYLH FYCDPPLCHRDIKSSNILLDENFVAKLSDFGLAHSSRDGSVCFEPVNTDIRGTPGYVDPEYVVT QELTEKSDVYSYGVVLLELITGRRAVDEDCPLDFSGSNFTLVATVCSNITNRGKCCRYMNAFVA VSVARYANLSTNLGVTSDLSETCIASISRAMEGYGVSRNATSFCGLGTKILVKYDCDGRTTVTQ MHQSPGFGHVSRNCRLPFSPGHQCRKCLNSGITYLRNLIGAETNNITLCTCRDATYATLASRID DTSALELLSCFFQVTELNIPSESFSPVASPEPSPSTVGGISPSNSDSQMTTSRSTNPYHLTMVP TIGIVVTAVALTMLVVLVILIRRKNRELDESESLDRKSTKSVPSSLPVFKIHEDDSSSAFRKFS YKEMTNATNDFNTVIGQGGFGTVYKAEFNDGLIAAVKKMNKVSEQAEQDFCREIGLLAKLHHRN LVALKGFCINKKERFLVYDYMKNGSLKDHLHAIGKPPPSWGTRMKIAIDVANALEYLHFYCDPP LCHRDIKSSNILLDENFVAKLSDFGLAHSSRDGSVCFEPVNTDIRGTPGYVDPEYVVTQELTEK SDVYSYGVVLLELITGRRAVDEDCPLDFSGSNFTLVATVCSNITNRGKCCRYMNAFVAVSVARY ANLSTNLGVTSDLSETCIASISRAMEGYGVSRNATSFCGLGTKILVKYDCDGRTTVTQMHQSPG FGHVSRNCRLPFSPGHQCRKCLNSGITYLRNLIGAETNNITLCTCRDATYATLASRIDDTSALE LLSCFFQVTELNIPSESFSPVASPEPSPSTVGGISPSNSDSQMTTSRSTNPYHLTMVPTIGIVV TAVALTMLVVLVILIRRKNRELDESESLDRKSTKSVPSSLPVFKIHEDDSSSAFRKFSYKEMTN ATNDFNTVIGQGGFGTVYKAEFNDGLIAAVKKMNKVSEQAEQDFCREIGLLAKLHHRNLVALKG FCINKKERFLVYDYMKNGSLKDHLHAIGKPPPSWGTRMKIAIDVANALEYLHFYCDPPLCHRDI KSSNILLDENFVAKLSDFGLAHSSRDGSVCFEPVNTDIRGTPGYVDPEYVVTQELTEKSDVYSY GVVLLELITGRRAVDEDCPLDFSGSNFTLVATVCSNITNRGKCCRYMNAFVAVSVARYANLSTN LGVTSDLSETCIASISRAMEGYGVSRNATSFCGLGTKILVKYDCDGRTTVTQMHQSPGFGHVSR NCRLPFSPGHQCRKCLNSGITYLRNLIGAETNNITLCTCRDATYATLASRIDDTSALELLSCFF QVTELNIPSESFSPVASPEPSPSTVGGISPSNSDSQMTTSRSTNPYHLTMVPTIGIVVTAVALT MLVVLVILIRRKNRELDESESLDRKSTKSVPSSLPVFKIHEDDSSSAFRKFSYKEMTNATNDFN TVIGQGGFGTVYKAEFNDGLIAAVKKMNKVSEQAEQDFCREIGLLAKLHHRNLVALKGFCINKK ERFLVYDYMKNGSLKDHLHAIGKPPPSWGTRMKIAIDVANALEYLHFYCDPPLCHRDIKSSNIL LDENFVAKLSDFGLAHSSRDGSVCFEPVNTDIRGTPGYVDPEYVVTQELTEKSDVYSYGVVLLE LITGRRAVDE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT1G49730_circ_g.1

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