Plant Circular RNA Database

Detail information of Zm00001d026270_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d026270_circ_g.2
					
						ID in PlantcircBase
						zma_circ_010352
					
						Alias
						zma_circ_0000079
					
						Organism
						
							Zea mays						
					
						Position
						
							chr10: 142462153-142468180  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.3 Zm00001d026270_circ_g.4 Zm00001d026270_circ_g.5 						
					
						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_T004:10
Zm00001d026270_T003:7
Zm00001d026270_T001:10
Zm00001d026270_T014:8
Zm00001d026270_T018:9
Zm00001d026270_T005:10
Zm00001d026270_T019:10
Zm00001d026270_T013:10
Zm00001d026270_T010:10
Zm00001d026270_T021:10
Zm00001d026270_T006:10
Zm00001d026270_T016:7
Zm00001d026270_T002:8
Zm00001d026270_T009:10
Zm00001d026270_T020:9
Zm00001d026270_T017:8
Zm00001d026270_T007:10
Zm00001d026270_T015:4
Zm00001d026270_T011:10

General Information
CircRNA Name	Zm00001d026270_circ_g.2
ID in PlantcircBase	zma_circ_010352
Alias	zma_circ_0000079
Organism	Zea mays
Position	chr10: 142462153-142468180 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.3 Zm00001d026270_circ_g.4 Zm00001d026270_circ_g.5
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_T004:10 Zm00001d026270_T003:7 Zm00001d026270_T001:10 Zm00001d026270_T014:8 Zm00001d026270_T018:9 Zm00001d026270_T005:10 Zm00001d026270_T019:10 Zm00001d026270_T013:10 Zm00001d026270_T010:10 Zm00001d026270_T021:10 Zm00001d026270_T006:10 Zm00001d026270_T016:7 Zm00001d026270_T002:8 Zm00001d026270_T009:10 Zm00001d026270_T020:9 Zm00001d026270_T017:8 Zm00001d026270_T007:10 Zm00001d026270_T015:4 Zm00001d026270_T011:10

			
						 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
TGAACAGTAAACAACCCGAGCCTCGTGCAACTTTTCctgatcaatgatatcatccaaaggatta
ttagggagatccaaggaacttattatatccaaaatcttcaactttttctctactgcagaatcgt
acctacaa

						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: 1104
Transcript exons: 142462153-142462246,142462848-142463017,142463114-142463
184,142465733-142465855,142466229-142466331,142466448-14
2466591,142466839-142466961,142467388-142467469,14246755
5-142467615,142468048-142468180
CTGATCAATGATATCATCCAAAGGATTATTAGGGAGATCCAAGGAACTTATTATATCCAAAATC
TTCAACTTTTTCTCTACTGCAGAATCGTACCTCTTTAAACAATCAGCTACATGGGCATCTTGCT
TCTTTTCCTCGTCTTCTACTATCTTGCACGTGTAGCATGCCCAATCATCCGTAATCGTCCCAGT
CCATGGTGGTGTTAGACAATGAGGGTGAACATGCCGAGAACAACCAGAACAATGAAGCAACAGG
CTCTGCTCCTCCTCTGTGTTGCAAATTTGACACATGTGGAACTCCTCATCAGATTCTGTTGATT
CATGATCTGACTCAGATGGAGAATAATCATCGGTGTCGTCATCGCTCACATCTACCACTTTCGC
TACTTTCCTAACTCGCCCTTTAAATGATACATCCAGTGCACGTTTACGCTGAATCTCTGTGACT
GTTTCTTCACCTTGCTGAAAAGAATCAGGTTTTGGAGGTAAAGGGTAGTTTTCTTCTACCAACT
TAAGAAGAAGCTCCCGAGGGCCAGAAACAAAGTCTTCCATTTCAACTCCATATTTTGTGACAGC
TTCTTCAGTTCTAGCTTCTCCAGTGCTCTGAAGGCCAATCACCACACATTTGTTCTCTGCCAAG
GCCTCTTTAGCTAACCTCACAACAGCAGGTACCTTTGCAGACATGCACATGTGCCTGAAGAAAC
GCTGATGGCTGGCCCAATACAATCGCCATATTTGATTTGAATTGCCATCAGCAAATAATTCACT
TGCTGATAAAAGTTCAAGGCGCAGTTCAGCCCAGAATTCAGCTGCTCTTCTGTACATGTTCATC
ATTCTTTCCTCAAGTGGAGCCTCCACTATATAAAAATCAGCCCCTTTGTAACTTAATGTACGGC
ATACATACATACCCCTAGCTTTCATGTCCATGGCAACAAGTTCAAGTGCTCCCACACCACCTTT
CTCAAGAGCACCTAAAAATTGTGGAAAAGTTTGAAATGATGTTCCTTCACCCCAAAGTCCAAGA
CGAACCATATAGCCCAAATTTCGTGGTTCTGATGCACCAGTTGCTGAACAGTAAACAACCCGAG
CCTCGTGCAACTTTTC
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	CTTCACCCCAAAGTCCAAGACGAACCATATAGCCCAAATTTCGTGGTTCTGATGCACCAGTTGC TGAACAGTAAACAACCCGAGCCTCGTGCAACTTTTCctgatcaatgatatcatccaaaggatta ttagggagatccaaggaacttattatatccaaaatcttcaactttttctctactgcagaatcgt acctacaa
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: 1104 Transcript exons: 142462153-142462246,142462848-142463017,142463114-142463 184,142465733-142465855,142466229-142466331,142466448-14 2466591,142466839-142466961,142467388-142467469,14246755 5-142467615,142468048-142468180 CTGATCAATGATATCATCCAAAGGATTATTAGGGAGATCCAAGGAACTTATTATATCCAAAATC TTCAACTTTTTCTCTACTGCAGAATCGTACCTCTTTAAACAATCAGCTACATGGGCATCTTGCT TCTTTTCCTCGTCTTCTACTATCTTGCACGTGTAGCATGCCCAATCATCCGTAATCGTCCCAGT CCATGGTGGTGTTAGACAATGAGGGTGAACATGCCGAGAACAACCAGAACAATGAAGCAACAGG CTCTGCTCCTCCTCTGTGTTGCAAATTTGACACATGTGGAACTCCTCATCAGATTCTGTTGATT CATGATCTGACTCAGATGGAGAATAATCATCGGTGTCGTCATCGCTCACATCTACCACTTTCGC TACTTTCCTAACTCGCCCTTTAAATGATACATCCAGTGCACGTTTACGCTGAATCTCTGTGACT GTTTCTTCACCTTGCTGAAAAGAATCAGGTTTTGGAGGTAAAGGGTAGTTTTCTTCTACCAACT TAAGAAGAAGCTCCCGAGGGCCAGAAACAAAGTCTTCCATTTCAACTCCATATTTTGTGACAGC TTCTTCAGTTCTAGCTTCTCCAGTGCTCTGAAGGCCAATCACCACACATTTGTTCTCTGCCAAG GCCTCTTTAGCTAACCTCACAACAGCAGGTACCTTTGCAGACATGCACATGTGCCTGAAGAAAC GCTGATGGCTGGCCCAATACAATCGCCATATTTGATTTGAATTGCCATCAGCAAATAATTCACT TGCTGATAAAAGTTCAAGGCGCAGTTCAGCCCAGAATTCAGCTGCTCTTCTGTACATGTTCATC ATTCTTTCCTCAAGTGGAGCCTCCACTATATAAAAATCAGCCCCTTTGTAACTTAATGTACGGC ATACATACATACCCCTAGCTTTCATGTCCATGGCAACAAGTTCAAGTGCTCCCACACCACCTTT CTCAAGAGCACCTAAAAATTGTGGAAAAGTTTGAAATGATGTTCCTTCACCCCAAAGTCCAAGA CGAACCATATAGCCCAAATTTCGTGGTTCTGATGCACCAGTTGCTGAACAGTAAACAACCCGAG CCTCGTGCAACTTTTC
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.134239823

Conservation Information
Conserved circRNAs	NA
PMCS	0.134239823

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							142468073-142462160(+)
142468110-142462155(-)
142462171-142468050(-)
						
					

						Potential amino acid sequence
						
							MMFLHPKVQDEPYSPNFVVLMHQLLNSKQPEPRATFPDQ*(+)
MVRLGLWGEGTSFQTFPQFLGALEKGGVGALELVAMDMKARGMYVCRTLSYKGADFYIVEAPLE
ERMMNMYRRAAEFWAELRLELLSASELFADGNSNQIWRLYWASHQRFFRHMCMSAKVPAVVRLA
KEALAENKCVVIGLQSTGEARTEEAVTKYGVEMEDFVSGPRELLLKLVEENYPLPPKPDSFQQG
EETVTEIQRKRALDVSFKGRVRKVAKVVDVSDDDTDDYSPSESDHESTESDEEFHMCQICNTEE
EQSLLLHCSGCSRHVHPHCLTPPWTGTITDDWACYTCKIVEDEEKKQDAHVADCLKRYDSAVEK
KLKILDIISSLDLPNNPLDDIIDQEKLHEARVVYCSATGASEPRNLGYMVRLGLWGEGTSFQTF
PQFLGALEKGGVGALELVAMDMKARGMYVCRTLSYKGADFYIVEAPLEERMMNMYRRAAEFWAE
LRLELLSASELFADGNSNQIWRLYWASHQRFFRHMCMSAKVPAVVRLAKEALAENKCVVIGLQS
TGEARTEEAVTKYGVEMEDFVSGPRELLLKLVEENYPLPPKPDSFQQGEETVTEIQRKRALDVS
FKGRVRKVAKVVDVSDDDTDDYSPSESDHESTESDEEFHMCQICNTEEEQSLLLHCSGCSRHVH
PHCLTPPWTGTITDDWACYTCKIVEDEEKKQDAHVADCLKRYDSAVEKKLKILDIISSLDLPNN
PLDDIIDQEKLHEARVVYCSATGASEPRNLGYMVRLGLWGEGTSFQTFPQFLGALEKGGVGALE
LVAMDMKARGMYVCRTLSYKGADFYIVEAPLEERMMNMYRRAAEFWAELRLELLSASELFADGN
SNQIWRLYWASHQRFFRHMCMSAKVPAVVRLAKEALAENKCVVIGLQSTGEARTEEAVTKYGVE
MEDFVSGPRELLLKLVEENYPLPPKPDSFQQGEETVTEIQRKRALDVSFKGRVRKVAKVVDVSD
DDTDDYSPSESDHESTESDEEFHMCQICNTEEEQSLLLHCSGCSRHVHPHCLTPPWTGTITDDW
ACYTCKIVEDEEKKQDAHVADCLKRYDSAVEKKLKILDIISSLDLPNNPLDDIIDQEKLHEARV
VYCSATGASEPRNLGYMVRLGLWGEGTSFQTFPQFLGALEKGGVGALELVAMDMKARGMYVCRT
LSYKGADFYIVEAPLEERMMNMYRRAAEFWAELRLELLSASELFADGNSNQIWRLYWASHQRFF
RHMCMSAKVPAVVRLAKEALAENKCVVIGLQSTGEARTEEAVTKYGVEMEDFVSGPRELLLKLV
EENYPLPPKPDSFQQGEETVTEIQRKRALDVSFKGRVRKVAKVVDVSDDDTDDYSPSESDHEST
ESDEEFHMCQICNTEEEQSLLLHCSGCSRHVHPHCLTPPWTGTITDDWACYTCKIVEDEEKKQD
AHVADCLKRYDSAVEKKLKILDIISSLDLPNNPLDDIIDQ(-)
MISLIRKSCTRLGLFTVQQLVHQNHEIWAIWFVLDFGVKEHHFKLFHNF*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	142468073-142462160(+) 142468110-142462155(-) 142462171-142468050(-)
Potential amino acid sequence	MMFLHPKVQDEPYSPNFVVLMHQLLNSKQPEPRATFPDQ(+) MVRLGLWGEGTSFQTFPQFLGALEKGGVGALELVAMDMKARGMYVCRTLSYKGADFYIVEAPLE ERMMNMYRRAAEFWAELRLELLSASELFADGNSNQIWRLYWASHQRFFRHMCMSAKVPAVVRLA KEALAENKCVVIGLQSTGEARTEEAVTKYGVEMEDFVSGPRELLLKLVEENYPLPPKPDSFQQG EETVTEIQRKRALDVSFKGRVRKVAKVVDVSDDDTDDYSPSESDHESTESDEEFHMCQICNTEE EQSLLLHCSGCSRHVHPHCLTPPWTGTITDDWACYTCKIVEDEEKKQDAHVADCLKRYDSAVEK KLKILDIISSLDLPNNPLDDIIDQEKLHEARVVYCSATGASEPRNLGYMVRLGLWGEGTSFQTF PQFLGALEKGGVGALELVAMDMKARGMYVCRTLSYKGADFYIVEAPLEERMMNMYRRAAEFWAE LRLELLSASELFADGNSNQIWRLYWASHQRFFRHMCMSAKVPAVVRLAKEALAENKCVVIGLQS TGEARTEEAVTKYGVEMEDFVSGPRELLLKLVEENYPLPPKPDSFQQGEETVTEIQRKRALDVS FKGRVRKVAKVVDVSDDDTDDYSPSESDHESTESDEEFHMCQICNTEEEQSLLLHCSGCSRHVH PHCLTPPWTGTITDDWACYTCKIVEDEEKKQDAHVADCLKRYDSAVEKKLKILDIISSLDLPNN PLDDIIDQEKLHEARVVYCSATGASEPRNLGYMVRLGLWGEGTSFQTFPQFLGALEKGGVGALE LVAMDMKARGMYVCRTLSYKGADFYIVEAPLEERMMNMYRRAAEFWAELRLELLSASELFADGN SNQIWRLYWASHQRFFRHMCMSAKVPAVVRLAKEALAENKCVVIGLQSTGEARTEEAVTKYGVE MEDFVSGPRELLLKLVEENYPLPPKPDSFQQGEETVTEIQRKRALDVSFKGRVRKVAKVVDVSD DDTDDYSPSESDHESTESDEEFHMCQICNTEEEQSLLLHCSGCSRHVHPHCLTPPWTGTITDDW ACYTCKIVEDEEKKQDAHVADCLKRYDSAVEKKLKILDIISSLDLPNNPLDDIIDQEKLHEARV VYCSATGASEPRNLGYMVRLGLWGEGTSFQTFPQFLGALEKGGVGALELVAMDMKARGMYVCRT LSYKGADFYIVEAPLEERMMNMYRRAAEFWAELRLELLSASELFADGNSNQIWRLYWASHQRFF RHMCMSAKVPAVVRLAKEALAENKCVVIGLQSTGEARTEEAVTKYGVEMEDFVSGPRELLLKLV EENYPLPPKPDSFQQGEETVTEIQRKRALDVSFKGRVRKVAKVVDVSDDDTDDYSPSESDHEST ESDEEFHMCQICNTEEEQSLLLHCSGCSRHVHPHCLTPPWTGTITDDWACYTCKIVEDEEKKQD AHVADCLKRYDSAVEKKLKILDIISSLDLPNNPLDDIIDQ(-) MISLIRKSCTRLGLFTVQQLVHQNHEIWAIWFVLDFGVKEHHFKLFHNF(-)
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.2

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