Plant Circular RNA Database

Detail information of Zm00001d026270_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d026270_circ_g.5
					
						ID in PlantcircBase
						zma_circ_010353
					
						Alias
						zma_circ_0000080
					
						Organism
						
							Zea mays						
					
						Position
						
							chr10: 142465733-142468180  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d026270						
					
						Parent gene annotation
						
							RING/FYVE/PHD zinc finger superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d026270_circ_g.2 Zm00001d026270_circ_g.3 Zm00001d026270_circ_g.4 						
					
						Support reads
						NA
					
						Tissues
						leaf, 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
						Zm00001d026270_T013:7
Zm00001d026270_T017:7
Zm00001d026270_T011:7
Zm00001d026270_T005:7
Zm00001d026270_T020:6
Zm00001d026270_T007:7
Zm00001d026270_T018:7
Zm00001d026270_T002:7
Zm00001d026270_T006:7
Zm00001d026270_T004:7
Zm00001d026270_T003:6
Zm00001d026270_T010:7
Zm00001d026270_T016:6
Zm00001d026270_T001:7
Zm00001d026270_T015:2
Zm00001d026270_T009:7
Zm00001d026270_T021:7
Zm00001d026270_T014:7
Zm00001d026270_T019:7

General Information
CircRNA Name	Zm00001d026270_circ_g.5
ID in PlantcircBase	zma_circ_010353
Alias	zma_circ_0000080
Organism	Zea mays
Position	chr10: 142465733-142468180 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d026270
Parent gene annotation	RING/FYVE/PHD zinc finger superfamily protein
Parent gene strand	-
Alternative splicing	Zm00001d026270_circ_g.2 Zm00001d026270_circ_g.3 Zm00001d026270_circ_g.4
Support reads	NA
Tissues	leaf, 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	Zm00001d026270_T013:7 Zm00001d026270_T017:7 Zm00001d026270_T011:7 Zm00001d026270_T005:7 Zm00001d026270_T020:6 Zm00001d026270_T007:7 Zm00001d026270_T018:7 Zm00001d026270_T002:7 Zm00001d026270_T006:7 Zm00001d026270_T004:7 Zm00001d026270_T003:6 Zm00001d026270_T010:7 Zm00001d026270_T016:6 Zm00001d026270_T001:7 Zm00001d026270_T015:2 Zm00001d026270_T009:7 Zm00001d026270_T021:7 Zm00001d026270_T014:7 Zm00001d026270_T019:7

			
						 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  
						
							CTTCACCCCAAAGTCCAAGACGAACCATATAGCCCAAATTTCGTGGTTCTGATGCACCAGTTGC
TGAACAGTAAACAACCCGAGCCTCGTGCAACTTTTCatggagaataatcatcggtgtcgtcatc
gctcacatctaccactttcgctactttcctaactcgccctttaaatgatacatccagtgcacgt
ttacgctg

									
								

					

						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: 769
Transcript exons: 142465733-142465855,142466229-142466331,142466448-142466
591,142466839-142466961,142467388-142467469,142467555-14
2467615,142468048-142468180
ATGGAGAATAATCATCGGTGTCGTCATCGCTCACATCTACCACTTTCGCTACTTTCCTAACTCG
CCCTTTAAATGATACATCCAGTGCACGTTTACGCTGAATCTCTGTGACTGTTTCTTCACCTTGC
TGAAAAGAATCAGGTTTTGGAGGTAAAGGGTAGTTTTCTTCTACCAACTTAAGAAGAAGCTCCC
GAGGGCCAGAAACAAAGTCTTCCATTTCAACTCCATATTTTGTGACAGCTTCTTCAGTTCTAGC
TTCTCCAGTGCTCTGAAGGCCAATCACCACACATTTGTTCTCTGCCAAGGCCTCTTTAGCTAAC
CTCACAACAGCAGGTACCTTTGCAGACATGCACATGTGCCTGAAGAAACGCTGATGGCTGGCCC
AATACAATCGCCATATTTGATTTGAATTGCCATCAGCAAATAATTCACTTGCTGATAAAAGTTC
AAGGCGCAGTTCAGCCCAGAATTCAGCTGCTCTTCTGTACATGTTCATCATTCTTTCCTCAAGT
GGAGCCTCCACTATATAAAAATCAGCCCCTTTGTAACTTAATGTACGGCATACATACATACCCC
TAGCTTTCATGTCCATGGCAACAAGTTCAAGTGCTCCCACACCACCTTTCTCAAGAGCACCTAA
AAATTGTGGAAAAGTTTGAAATGATGTTCCTTCACCCCAAAGTCCAAGACGAACCATATAGCCC
AAATTTCGTGGTTCTGATGCACCAGTTGCTGAACAGTAAACAACCCGAGCCTCGTGCAACTTTT
C
						
					

						Genomic sequence
						
							ATGGAGAATAATCATCGGTGTCGTCATCGCTCACATCTACCACTTTCGCTACTTTCCTAACTCG
CCCTTTAAATGATACATCCAGTGCACGTTTACGCTGAATCTCTGTGACTGTTTCTTCACCTAAT
ATAAGAATTTATATAAAAAAAATCACAACAGAGCAGGCAACAAGAAAAATCATAAGAATTGAGA
AAACAAGATGCAGAATTTTAATATAAATAACTAGGCACGATGAAAATATTTAATACTCTTTTCT
ACCAGATATTAACACCTATTAGCTAGATGAGAAAGGATCAAACCCCAGAGCATGACTTTGCTTG
CACAAGTGGGAACAGATTTTAGAATATGGCAGGCATATTTAGCAGAAGGAAAGATCATTGATCA
TAAACTTACAGGTACCAGCATTTTAAGCATTACACAATAGTTTGCAAACAAGTTGTGCCCAAGG
ATGGTAACAACTGGATGAGATTTACATGCTGAAATAACAGCAACAAACCTTGCTGAAAAGAATC
AGGTTTTGGAGGTAAAGGGTAGTTTTCTTCTACCAACTTAAGAAGAAGCTCCCGAGGGCCAGAA
ACAAAGTCTTCCATTTCAACTCCCTGATTTAAATTTCAAAGAAACTTTAGATTTTTGGAGCAGT
AATCTAATTTGCAAAGATCTGTGTTTGCTACAAATGAAAAAGAATTGAAGTGTTCAGTAGAAAA
TGTGAACAGACATATTTTGTGACAGCTTCTTCAGTTCTAGCTTCTCCAGTGCTCTGAAGGCCAA
TCACCACACATTTGTTCTCTGCCAAGGCCTCTTTAGCTAACCTCACAACAGCAGGTACCTTTGC
AGACATGCACATGTGCCTGAAGAAACGCTGTAAAACATAGTTCATCAGTTATGAAGCATAACGA
ACAGCAAGTATTTAAGCATGTTAGGCAATTGTTATCTGCATTGCACACTGTACTAATTTAAAAT
TTAGAATTGTTTCTCAAGTTCAAATATGCCACACATGGGGGTGATGTTATGTTGGAAAACAATA
CACACATGGATTGTCAAGGTGAAGTATGCAAAGGCCATAAAATTCCATTCAAACTCATTTTGGA
GAGGTAAGGAAGCAATACCTGATGGCTGGCCCAATACAATCGCCATATTTGATTTGAATTGCCA
TCAGCAAATAATTCACTTGCTGATAAAAGTTCAAGGCGCAGTTCAGCCCAGAATTCAGCTGCTC
TTCTGTACATGTTCTGAATTACAAATAAGATGAGAAACTTTATCATGAGCTGCATATAGATCCG
CAGCCTAGGAATAGTTACAGAAGCTGAAGTTGCACATGGATGTTACTATTTTTTTTGGAGGGGG
GGGGGGGAGTCCCGAGCAAGTTTGGATAGGCCACCACAAAAATAAAAATGAATAGAGTTAGATA
TGTTGTCCTGGATTTGCACAGGATATTTGGTAGTCTTTAGATGATTAGGCACGCTGTGTAGTTA
CAATATAACAACATTACAGCATTAACTTGCTGTACATACACCTTTCATGTTACACAGAAACTTT
TGGTAAAAGAAAAATAATAGGAGTATAGGACCCGATGTTACCCAGTCGTAAGGCAGAGAATATG
ATTAAATTTTGTTTAGTTTCAATGCAAAAAGCTTGTCAATACCGTATGGGCTTACCATCATTCT
TTCCTCAAGTGGAGCCTCCACTATATAAAAATCAGCCCCTTTGTAACTTAATGTACGGCATACA
TACATACCCCTGCAACAGTTTAATGATAGTACTCAACAAGCTACCCATCTGTACATAGCAATTG
AAACTCAGCAGAAGTCAGAAGAAATGCTACCTAGCTTTCATGTCCATGGCAACAAGTTCAAGTG
CTCCCACACCACCTTTCTCAAGAGCACCTAAAAAGTTCGTATAAATCTGAGCAACTGCATTTAG
GTTTATAATGAATCACAGAACATACAGAAGCAAGCAATTCAAGGCATGGGATTCAAGTATAAAG
ACTAGTCCTGAACAAAACATGAAGCAATAAGTGACAAGCATAGCATAACATAACTTAAACTACA
GCACTAGTCCCACTTCTTAAATGATAATTAAAACTCAGTGCAGCTTGAGTTATTAAGAGAACAG
GTAAACCAAACTTGTCCCTACTGCTCTGCTAGTATGATATGTTTTAGTGATCCATAAAAGATAT
GCTCATTCCAACTGATTAAGAGAACAGGCAAACTAGCATGGGCGCACCAATTACTTGTTGTCTT
ATTGGGTGCAGGATAACTTGATAAAAGAACTTAAAACAAAAGGAAATGTTCTCATGAAAGGATG
AAGCAACAAACCTAAAAATTGTGGAAAAGTTTGAAATGATGTTCCTTCACCCCAAAGTCCAAGA
CGAACCATATAGCCCAAATTTCGTGGTTCTGATGCACCAGTTGCTGAACAGTAAACAACCCGAG
CCTCGTGCAACTTTTC
						
					

			
		

Sequences
Splice junction sequence	CTTCACCCCAAAGTCCAAGACGAACCATATAGCCCAAATTTCGTGGTTCTGATGCACCAGTTGC TGAACAGTAAACAACCCGAGCCTCGTGCAACTTTTCatggagaataatcatcggtgtcgtcatc gctcacatctaccactttcgctactttcctaactcgccctttaaatgatacatccagtgcacgt ttacgctg
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: 769 Transcript exons: 142465733-142465855,142466229-142466331,142466448-142466 591,142466839-142466961,142467388-142467469,142467555-14 2467615,142468048-142468180 ATGGAGAATAATCATCGGTGTCGTCATCGCTCACATCTACCACTTTCGCTACTTTCCTAACTCG CCCTTTAAATGATACATCCAGTGCACGTTTACGCTGAATCTCTGTGACTGTTTCTTCACCTTGC TGAAAAGAATCAGGTTTTGGAGGTAAAGGGTAGTTTTCTTCTACCAACTTAAGAAGAAGCTCCC GAGGGCCAGAAACAAAGTCTTCCATTTCAACTCCATATTTTGTGACAGCTTCTTCAGTTCTAGC TTCTCCAGTGCTCTGAAGGCCAATCACCACACATTTGTTCTCTGCCAAGGCCTCTTTAGCTAAC CTCACAACAGCAGGTACCTTTGCAGACATGCACATGTGCCTGAAGAAACGCTGATGGCTGGCCC AATACAATCGCCATATTTGATTTGAATTGCCATCAGCAAATAATTCACTTGCTGATAAAAGTTC AAGGCGCAGTTCAGCCCAGAATTCAGCTGCTCTTCTGTACATGTTCATCATTCTTTCCTCAAGT GGAGCCTCCACTATATAAAAATCAGCCCCTTTGTAACTTAATGTACGGCATACATACATACCCC TAGCTTTCATGTCCATGGCAACAAGTTCAAGTGCTCCCACACCACCTTTCTCAAGAGCACCTAA AAATTGTGGAAAAGTTTGAAATGATGTTCCTTCACCCCAAAGTCCAAGACGAACCATATAGCCC AAATTTCGTGGTTCTGATGCACCAGTTGCTGAACAGTAAACAACCCGAGCCTCGTGCAACTTTT C
Genomic sequence	ATGGAGAATAATCATCGGTGTCGTCATCGCTCACATCTACCACTTTCGCTACTTTCCTAACTCG CCCTTTAAATGATACATCCAGTGCACGTTTACGCTGAATCTCTGTGACTGTTTCTTCACCTAAT ATAAGAATTTATATAAAAAAAATCACAACAGAGCAGGCAACAAGAAAAATCATAAGAATTGAGA AAACAAGATGCAGAATTTTAATATAAATAACTAGGCACGATGAAAATATTTAATACTCTTTTCT ACCAGATATTAACACCTATTAGCTAGATGAGAAAGGATCAAACCCCAGAGCATGACTTTGCTTG CACAAGTGGGAACAGATTTTAGAATATGGCAGGCATATTTAGCAGAAGGAAAGATCATTGATCA TAAACTTACAGGTACCAGCATTTTAAGCATTACACAATAGTTTGCAAACAAGTTGTGCCCAAGG ATGGTAACAACTGGATGAGATTTACATGCTGAAATAACAGCAACAAACCTTGCTGAAAAGAATC AGGTTTTGGAGGTAAAGGGTAGTTTTCTTCTACCAACTTAAGAAGAAGCTCCCGAGGGCCAGAA ACAAAGTCTTCCATTTCAACTCCCTGATTTAAATTTCAAAGAAACTTTAGATTTTTGGAGCAGT AATCTAATTTGCAAAGATCTGTGTTTGCTACAAATGAAAAAGAATTGAAGTGTTCAGTAGAAAA TGTGAACAGACATATTTTGTGACAGCTTCTTCAGTTCTAGCTTCTCCAGTGCTCTGAAGGCCAA TCACCACACATTTGTTCTCTGCCAAGGCCTCTTTAGCTAACCTCACAACAGCAGGTACCTTTGC AGACATGCACATGTGCCTGAAGAAACGCTGTAAAACATAGTTCATCAGTTATGAAGCATAACGA ACAGCAAGTATTTAAGCATGTTAGGCAATTGTTATCTGCATTGCACACTGTACTAATTTAAAAT TTAGAATTGTTTCTCAAGTTCAAATATGCCACACATGGGGGTGATGTTATGTTGGAAAACAATA CACACATGGATTGTCAAGGTGAAGTATGCAAAGGCCATAAAATTCCATTCAAACTCATTTTGGA GAGGTAAGGAAGCAATACCTGATGGCTGGCCCAATACAATCGCCATATTTGATTTGAATTGCCA TCAGCAAATAATTCACTTGCTGATAAAAGTTCAAGGCGCAGTTCAGCCCAGAATTCAGCTGCTC TTCTGTACATGTTCTGAATTACAAATAAGATGAGAAACTTTATCATGAGCTGCATATAGATCCG CAGCCTAGGAATAGTTACAGAAGCTGAAGTTGCACATGGATGTTACTATTTTTTTTGGAGGGGG GGGGGGGAGTCCCGAGCAAGTTTGGATAGGCCACCACAAAAATAAAAATGAATAGAGTTAGATA TGTTGTCCTGGATTTGCACAGGATATTTGGTAGTCTTTAGATGATTAGGCACGCTGTGTAGTTA CAATATAACAACATTACAGCATTAACTTGCTGTACATACACCTTTCATGTTACACAGAAACTTT TGGTAAAAGAAAAATAATAGGAGTATAGGACCCGATGTTACCCAGTCGTAAGGCAGAGAATATG ATTAAATTTTGTTTAGTTTCAATGCAAAAAGCTTGTCAATACCGTATGGGCTTACCATCATTCT TTCCTCAAGTGGAGCCTCCACTATATAAAAATCAGCCCCTTTGTAACTTAATGTACGGCATACA TACATACCCCTGCAACAGTTTAATGATAGTACTCAACAAGCTACCCATCTGTACATAGCAATTG AAACTCAGCAGAAGTCAGAAGAAATGCTACCTAGCTTTCATGTCCATGGCAACAAGTTCAAGTG CTCCCACACCACCTTTCTCAAGAGCACCTAAAAAGTTCGTATAAATCTGAGCAACTGCATTTAG GTTTATAATGAATCACAGAACATACAGAAGCAAGCAATTCAAGGCATGGGATTCAAGTATAAAG ACTAGTCCTGAACAAAACATGAAGCAATAAGTGACAAGCATAGCATAACATAACTTAAACTACA GCACTAGTCCCACTTCTTAAATGATAATTAAAACTCAGTGCAGCTTGAGTTATTAAGAGAACAG GTAAACCAAACTTGTCCCTACTGCTCTGCTAGTATGATATGTTTTAGTGATCCATAAAAGATAT GCTCATTCCAACTGATTAAGAGAACAGGCAAACTAGCATGGGCGCACCAATTACTTGTTGTCTT ATTGGGTGCAGGATAACTTGATAAAAGAACTTAAAACAAAAGGAAATGTTCTCATGAAAGGATG AAGCAACAAACCTAAAAATTGTGGAAAAGTTTGAAATGATGTTCCTTCACCCCAAAGTCCAAGA CGAACCATATAGCCCAAATTTCGTGGTTCTGATGCACCAGTTGCTGAACAGTAAACAACCCGAG CCTCGTGCAACTTTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.15566872

Conservation Information
Conserved circRNAs	NA
PMCS	0.15566872

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							142468073-142465740(+)
142465761-142468180(-)
142465736-142468050(-)
						
						Potential amino acid sequence
						
							MMFLHPKVQDEPYSPNFVVLMHQLLNSKQPEPRATFHGE*(+)
MTTPMIILHEKLHEARVVYCSATGASEPRNLGYMVRLGLWGEGTSFQTFPQFLGALEKGGVGAL
ELVAMDMKARGMYVCRTLSYKGADFYIVEAPLEERMMNMYRRAAEFWAELRLELLSASELFADG
NSNQIWRLYWASHQRFFRHMCMSAKVPAVVRLAKEALAENKCVVIGLQSTGEARTEEAVTKYGV
EMEDFVSGPRELLLKLVEENYPLPPKPDSFQQGEETVTEIQRKRALDVSFKGRVRKVAKVVDVS
DDDTDDYSP*(-)
MKSCTRLGLFTVQQLVHQNHEIWAIWFVLDFGVKEHHFKLFHNF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	142468073-142465740(+) 142465761-142468180(-) 142465736-142468050(-)
Potential amino acid sequence	MMFLHPKVQDEPYSPNFVVLMHQLLNSKQPEPRATFHGE(+) MTTPMIILHEKLHEARVVYCSATGASEPRNLGYMVRLGLWGEGTSFQTFPQFLGALEKGGVGAL ELVAMDMKARGMYVCRTLSYKGADFYIVEAPLEERMMNMYRRAAEFWAELRLELLSASELFADG NSNQIWRLYWASHQRFFRHMCMSAKVPAVVRLAKEALAENKCVVIGLQSTGEARTEEAVTKYGV EMEDFVSGPRELLLKLVEENYPLPPKPDSFQQGEETVTEIQRKRALDVSFKGRVRKVAKVVDVS DDDTDDYSP(-) MKSCTRLGLFTVQQLVHQNHEIWAIWFVLDFGVKEHHFKLFHNF*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d026270_circ_g.5

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