Plant Circular RNA Database

Detail information of AT1G04850_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT1G04850_circ_g.5
					
						ID in PlantcircBase
						ath_circ_000716
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 1365873-1367934  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, CIRI-full
					
						Parent gene
						
							AT1G04850						
					
						Parent gene annotation
						
							F13M7.16 protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G04850_circ_g.2 AT1G04850_circ_g.3 AT1G04850_circ_g.4 AT1G04850_circ_g.6 AT1G04850_circ_g.7 AT1G04850_circ_g.8 AT1G04850_circ_g.9 AT1G04850_circ_g.10 AT1G04850_circ_g.11 AT1G04850_circ_g.12 AT1G04850_circ_g.13 						
					
						Support reads
						5
					
						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
						AT1G04850.2:9
AT1G04850.1:9

General Information
CircRNA Name	AT1G04850_circ_g.5
ID in PlantcircBase	ath_circ_000716
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 1365873-1367934 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, CIRI-full
Parent gene	AT1G04850
Parent gene annotation	F13M7.16 protein
Parent gene strand	-
Alternative splicing	AT1G04850_circ_g.2 AT1G04850_circ_g.3 AT1G04850_circ_g.4 AT1G04850_circ_g.6 AT1G04850_circ_g.7 AT1G04850_circ_g.8 AT1G04850_circ_g.9 AT1G04850_circ_g.10 AT1G04850_circ_g.11 AT1G04850_circ_g.12 AT1G04850_circ_g.13
Support reads	5
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	AT1G04850.2:9 AT1G04850.1:9

			
						 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  
						
							TGGCAACCTTAGGAGCTTCCAAGCTGATGGGTTTGATTGTCTCCAATGTCTTATCTACAAACTC
AGTATGCCCTGTTCTTTTCGTGTGCAAATCGCTTTCcttgtgggcttgcttaagggacctcaag
cattctctcatttgttcagtctttgtggccggtctaattggcaatgtaacctgccaaaaaaaaa
agatgtct

									
								

					

						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: 313
Transcript exons: 1365873-1367934
CTTGTGGGCTTGCTTAAGGGACCTCAAGCATTCTCTCATTTGTTCAGTCTTTGTGGCCGGTCTA
ATTGGCAATGTAACCTTCTTCTCCTCCACAACTGGCACTGAGGGTTTTGCAGCTGCAGTTGCAG
GATCTTCCGGAGGCAATCCGAGTTTTCGCCTTCTTTCAGCCTTCTGCAGCCTCTCCACTACCAC
TAGCATTATCATCAATCTCCATGGCAACCTTAGGAGCTTCCAAGCTGATGGGTTTGATTGTCTC
CAATGTCTTATCTACAAACTCAGTATGCCCTGTTCTTTTCGTGTGCAAATCGCTTTC
						
					

						Genomic sequence
						
							CTTGTGGGCTTGCTTAAGGGACCTCAAGCATTCTCTCATTTGTTCAGTCTTTGTGGCCGGTCTA
ATTGGCAATGTAACCTGCCAAAAAAAAAAGATGTCTCTATAAGAAAAAGCATATAACAAGAGAT
GATAAAATATAACTAGCTTTTGATACTTTTTTGTTTACCTTCTTCTCCTCCACAACTGGCACTG
AGGGTTTTGCAGCTGCAGTTGCAGGATCTTCCGGAGGCAATCCGAGTTTTCGCCTTCTTTCAGC
CTGTTAAAATGTATGAGTCTTCAAGGTTTTTTTGTTGAGAAATATAAATGTAATGCATAACGTA
CGTAAATCTACTGCATTGAAGATACCTTGTCTTCTTCAAGCTTTTGACGGATCTTTTCCCTAGC
CCGTTTTTCTTCTTCTTTCTCAGCTTTACGCAAAAACATAAGACTGAAACACACAACCAATAAG
TAGTCGATTAAGAAAAACAAAAATAAGAATACAGCTGATAAGCCTGACATTATAACCAGAAAAG
ACTAACCGTTTTCTTTCGTTTACTTCTTCCATCCGCTTTGCTTCTAAGAGTTCCTTGCCAATCC
TAATTCGCTCCTGAACCAAATACTAACGTGTTAAAAGATGATAACAAAGTAATGCTTACAGTTT
CAGCAATGACACAATATGTTTCAAGCACATAATTAAGTTATTTAAGATAACAGTAACACATTTA
AAAAAAGGATCAGAGACAGAAAACCTTCTCTCTTTCACGTTCCATCCGTTTTTCTTCCTCTTCT
TTCTTCTTCCGTGCACGTTCCCTGAGACATGGATCAACGAATATAAATTGAAGTGTAGACATTT
TCATGGTCTAGGTTATGCATGATAAAAGTGTAGTGTCGATATGCCATTGGGCACGCTATAAAAG
AAAACAAATAGGGACAGTAAAACAGAATACTCATCGACCTTAATTCTTGTGCTTTTAGCTTCAC
TTCTTCTGGCGTAAGAGCAGGTTTGGCAGGCCCAACATTGGAGTTGGAAGGCACCTAGGCAAAC
AGTCAATAACATAGAAATAACAGTAAGGAAACAATGGAGTAATTTTAAGACCACATACATGTCA
TATAACAAGATATAAGATTGTTGAAGGTGATATATACAGAAAATTTTGACCTCCAAATTGTCGC
ATCAAGCAAAAAACCACTTTGAGATAAGAACTAAAAACCGAGATTTGGAATGCAATTATCAAGA
AACAAAACGGTCCAGAACAGACATTCTGCTGAAAAGTAATAATTGACAAAACACCCACCTTTGG
CATTTCATCTACGTCAGGATCATTCTCATGCTCCACCACCCAATTAACTGCAGCCTCAAGACTG
GCATTACCTGAAGGAATGAATTTCAAAGTGTGTAAAAGAATTTCGAGATTCAGATGACATCTGA
ACAAAAAAAAAAGAGATAACGAGAAAAGGAGAAGAAGATCTAATTGCACACAATGAGATAGATG
ACAGTTTTATATATCAATCCGGAGTTCAAAAAGGAGAGACGTGAACAAGAGCTCAGTTGCCCAC
AATCAAGCTTTACACGCTATTCACAAAGCATAACAATTAATCAATAAGCTACTCCCTGATTCCC
TATTGTGATCAGTGGCCATAAATTTTGGAGCTGTTATGCATATGACCATGTTACACTTCAGATA
ATTCTTAGAGGAGATATGAAAACTACGTGAACCAAAGATTATAATAGGAGCCCACAACCAAAAG
TTAGATTTATACCAGAGTAATGGAGTGCTCGGGTAGCACGAGCTTTAGGGAAGCCCATCGCTTC
AAGTTCCTCGAGAATGTTATTGTCAACGTCTGGAACAACCATCTCTGCAGAGTGACCATAAGAA
ATAGCGTTAAAGTCACATTCAGAAACTCATGCAATACATATACATTAACATGGCAATGTACCTT
CTGCAGCCTCTCCACTACCACTAGCATTATCATCAATCTCCATGGCAACCTTAGGAGCTTCCAA
GCTGATGGGTTTGATTGTCTCCAATGTCTTATCTACAAACTCAGTATGCCCTGTTCTTTTCGTG
TGCAAATCGCTTTC
						
					

			
		

Sequences
Splice junction sequence	TGGCAACCTTAGGAGCTTCCAAGCTGATGGGTTTGATTGTCTCCAATGTCTTATCTACAAACTC AGTATGCCCTGTTCTTTTCGTGTGCAAATCGCTTTCcttgtgggcttgcttaagggacctcaag cattctctcatttgttcagtctttgtggccggtctaattggcaatgtaacctgccaaaaaaaaa agatgtct
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: 313 Transcript exons: 1365873-1367934 CTTGTGGGCTTGCTTAAGGGACCTCAAGCATTCTCTCATTTGTTCAGTCTTTGTGGCCGGTCTA ATTGGCAATGTAACCTTCTTCTCCTCCACAACTGGCACTGAGGGTTTTGCAGCTGCAGTTGCAG GATCTTCCGGAGGCAATCCGAGTTTTCGCCTTCTTTCAGCCTTCTGCAGCCTCTCCACTACCAC TAGCATTATCATCAATCTCCATGGCAACCTTAGGAGCTTCCAAGCTGATGGGTTTGATTGTCTC CAATGTCTTATCTACAAACTCAGTATGCCCTGTTCTTTTCGTGTGCAAATCGCTTTC
Genomic sequence	CTTGTGGGCTTGCTTAAGGGACCTCAAGCATTCTCTCATTTGTTCAGTCTTTGTGGCCGGTCTA ATTGGCAATGTAACCTGCCAAAAAAAAAAGATGTCTCTATAAGAAAAAGCATATAACAAGAGAT GATAAAATATAACTAGCTTTTGATACTTTTTTGTTTACCTTCTTCTCCTCCACAACTGGCACTG AGGGTTTTGCAGCTGCAGTTGCAGGATCTTCCGGAGGCAATCCGAGTTTTCGCCTTCTTTCAGC CTGTTAAAATGTATGAGTCTTCAAGGTTTTTTTGTTGAGAAATATAAATGTAATGCATAACGTA CGTAAATCTACTGCATTGAAGATACCTTGTCTTCTTCAAGCTTTTGACGGATCTTTTCCCTAGC CCGTTTTTCTTCTTCTTTCTCAGCTTTACGCAAAAACATAAGACTGAAACACACAACCAATAAG TAGTCGATTAAGAAAAACAAAAATAAGAATACAGCTGATAAGCCTGACATTATAACCAGAAAAG ACTAACCGTTTTCTTTCGTTTACTTCTTCCATCCGCTTTGCTTCTAAGAGTTCCTTGCCAATCC TAATTCGCTCCTGAACCAAATACTAACGTGTTAAAAGATGATAACAAAGTAATGCTTACAGTTT CAGCAATGACACAATATGTTTCAAGCACATAATTAAGTTATTTAAGATAACAGTAACACATTTA AAAAAAGGATCAGAGACAGAAAACCTTCTCTCTTTCACGTTCCATCCGTTTTTCTTCCTCTTCT TTCTTCTTCCGTGCACGTTCCCTGAGACATGGATCAACGAATATAAATTGAAGTGTAGACATTT TCATGGTCTAGGTTATGCATGATAAAAGTGTAGTGTCGATATGCCATTGGGCACGCTATAAAAG AAAACAAATAGGGACAGTAAAACAGAATACTCATCGACCTTAATTCTTGTGCTTTTAGCTTCAC TTCTTCTGGCGTAAGAGCAGGTTTGGCAGGCCCAACATTGGAGTTGGAAGGCACCTAGGCAAAC AGTCAATAACATAGAAATAACAGTAAGGAAACAATGGAGTAATTTTAAGACCACATACATGTCA TATAACAAGATATAAGATTGTTGAAGGTGATATATACAGAAAATTTTGACCTCCAAATTGTCGC ATCAAGCAAAAAACCACTTTGAGATAAGAACTAAAAACCGAGATTTGGAATGCAATTATCAAGA AACAAAACGGTCCAGAACAGACATTCTGCTGAAAAGTAATAATTGACAAAACACCCACCTTTGG CATTTCATCTACGTCAGGATCATTCTCATGCTCCACCACCCAATTAACTGCAGCCTCAAGACTG GCATTACCTGAAGGAATGAATTTCAAAGTGTGTAAAAGAATTTCGAGATTCAGATGACATCTGA ACAAAAAAAAAAGAGATAACGAGAAAAGGAGAAGAAGATCTAATTGCACACAATGAGATAGATG ACAGTTTTATATATCAATCCGGAGTTCAAAAAGGAGAGACGTGAACAAGAGCTCAGTTGCCCAC AATCAAGCTTTACACGCTATTCACAAAGCATAACAATTAATCAATAAGCTACTCCCTGATTCCC TATTGTGATCAGTGGCCATAAATTTTGGAGCTGTTATGCATATGACCATGTTACACTTCAGATA ATTCTTAGAGGAGATATGAAAACTACGTGAACCAAAGATTATAATAGGAGCCCACAACCAAAAG TTAGATTTATACCAGAGTAATGGAGTGCTCGGGTAGCACGAGCTTTAGGGAAGCCCATCGCTTC AAGTTCCTCGAGAATGTTATTGTCAACGTCTGGAACAACCATCTCTGCAGAGTGACCATAAGAA ATAGCGTTAAAGTCACATTCAGAAACTCATGCAATACATATACATTAACATGGCAATGTACCTT CTGCAGCCTCTCCACTACCACTAGCATTATCATCAATCTCCATGGCAACCTTAGGAGCTTCCAA GCTGATGGGTTTGATTGTCTCCAATGTCTTATCTACAAACTCAGTATGCCCTGTTCTTTTCGTG TGCAAATCGCTTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.117982841

Conservation Information
Conserved circRNAs	NA
PMCS	0.117982841

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1367836-1365875(-)
						
						Potential amino acid sequence
						
							MEIDDNASGSGEAAEEMVVPDVDNNILEELEAMGFPKARATRALHYSGNASLEAAVNWVVEHEN
DPDVDEMPKVPSNSNVGPAKPALTPEEVKLKAQELRERARKKKEEEEKRMEREREKERIRIGKE
LLEAKRMEEVNERKRLMFLRKAEKEEEKRAREKIRQKLEEDKAERRRKLGLPPEDPATAAAKPS
VPVVEEKKVTLPIRPATKTEQMRECLRSLKQAHKESDLHTKRTGHTEFVDKTLETIKPISLEAP
KVAMEIDDNASGSGEAAEEMVVPDVDNNILEELEAMGFPKARATRALHYSGNASLEAAVNWVVE
HENDPDVDEMPKVPSNSNVGPAKPALTPEEVKLKAQELRERARKKKEEEEKRMEREREKERIRI
GKELLEAKRMEEVNERKRLMFLRKAEKEEEKRAREKIRQKLEEDKAERRRKLGLPPEDPATAAA
KPSVPVVEEKKVTLPIRPATKTEQMRECLRSLKQAHKESDLHTKRTGHTEFVDKTLETIKPISL
EAPKVAMEIDDNASGSGEAAEEMVVPDVDNNILEELEAMGFPKARATRALHYSGNASLEAAVNW
VVEHENDPDVDEMPKVPSNSNVGPAKPALTPEEVKLKAQELRERARKKKEEEEKRMEREREKER
IRIGKELLEAKRMEEVNERKRLMFLRKAEKEEEKRAREKIRQKLEEDKAERRRKLGLPPEDPAT
AAAKPSVPVVEEKKVTLPIRPATKTEQMRECLRSLKQAHKESDLHTKRTGHTEFVDKTLETIKP
ISLEAPKVAMEIDDNASGSGEAAEEMVVPDVDNNILEELEAMGFPKARATRALHYSGNASLEAA
VNWVVEHENDPDVDEMPKVPSNSNVGPAKPALTPEEVKLKAQELRERARKKKEEEEKRMERERE
KERIRIGKELLEAKRMEEVNERKRLMFLRKAEKEEEKRAREKIRQKLEEDKAERRRKLGLPPED
PATAAAKPSVPVVEEKKVTLPIRPATKTEQMRECLRSLKQAHK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1367836-1365875(-)
Potential amino acid sequence	MEIDDNASGSGEAAEEMVVPDVDNNILEELEAMGFPKARATRALHYSGNASLEAAVNWVVEHEN DPDVDEMPKVPSNSNVGPAKPALTPEEVKLKAQELRERARKKKEEEEKRMEREREKERIRIGKE LLEAKRMEEVNERKRLMFLRKAEKEEEKRAREKIRQKLEEDKAERRRKLGLPPEDPATAAAKPS VPVVEEKKVTLPIRPATKTEQMRECLRSLKQAHKESDLHTKRTGHTEFVDKTLETIKPISLEAP KVAMEIDDNASGSGEAAEEMVVPDVDNNILEELEAMGFPKARATRALHYSGNASLEAAVNWVVE HENDPDVDEMPKVPSNSNVGPAKPALTPEEVKLKAQELRERARKKKEEEEKRMEREREKERIRI GKELLEAKRMEEVNERKRLMFLRKAEKEEEKRAREKIRQKLEEDKAERRRKLGLPPEDPATAAA KPSVPVVEEKKVTLPIRPATKTEQMRECLRSLKQAHKESDLHTKRTGHTEFVDKTLETIKPISL EAPKVAMEIDDNASGSGEAAEEMVVPDVDNNILEELEAMGFPKARATRALHYSGNASLEAAVNW VVEHENDPDVDEMPKVPSNSNVGPAKPALTPEEVKLKAQELRERARKKKEEEEKRMEREREKER IRIGKELLEAKRMEEVNERKRLMFLRKAEKEEEKRAREKIRQKLEEDKAERRRKLGLPPEDPAT AAAKPSVPVVEEKKVTLPIRPATKTEQMRECLRSLKQAHKESDLHTKRTGHTEFVDKTLETIKP ISLEAPKVAMEIDDNASGSGEAAEEMVVPDVDNNILEELEAMGFPKARATRALHYSGNASLEAA VNWVVEHENDPDVDEMPKVPSNSNVGPAKPALTPEEVKLKAQELRERARKKKEEEEKRMERERE KERIRIGKELLEAKRMEEVNERKRLMFLRKAEKEEEKRAREKIRQKLEEDKAERRRKLGLPPED PATAAAKPSVPVVEEKKVTLPIRPATKTEQMRECLRSLKQAHK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT1G04850_circ_g.5

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