Plant Circular RNA Database

Detail information of Zm00001d037346_circ_g.7

			
						 General Information
					
						CircRNA Name
						Zm00001d037346_circ_g.7
					
						ID in PlantcircBase
						zma_circ_009026
					
						Alias
						Zm06circ00051, zma_circ_0002159, GRMZM2G467799_C3
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 122271567-122272850  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d037346						
					
						Parent gene annotation
						
							Chromatin structure-remodeling complex protein SYD
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d037346_circ_g.6 						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm, 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  
						
							GT-AG							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
						Zm00001d037346_T008:6
Zm00001d037346_T021:6
Zm00001d037346_T019:6
Zm00001d037346_T022:6
Zm00001d037346_T016:6
Zm00001d037346_T014:1
Zm00001d037346_T024:3
Zm00001d037346_T020:6
Zm00001d037346_T012:4
Zm00001d037346_T007:6
Zm00001d037346_T013:6
Zm00001d037346_T023:5
Zm00001d037346_T006:6
Zm00001d037346_T018:6
Zm00001d037346_T017:6
Zm00001d037346_T005:6

General Information
CircRNA Name	Zm00001d037346_circ_g.7
ID in PlantcircBase	zma_circ_009026
Alias	Zm06circ00051, zma_circ_0002159, GRMZM2G467799_C3
Organism	Zea mays
Position	chr6: 122271567-122272850 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d037346
Parent gene annotation	Chromatin structure-remodeling complex protein SYD
Parent gene strand	+
Alternative splicing	Zm00001d037346_circ_g.6
Support reads	NA
Tissues	leaf, endosperm, 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	GT-AG 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	Zm00001d037346_T008:6 Zm00001d037346_T021:6 Zm00001d037346_T019:6 Zm00001d037346_T022:6 Zm00001d037346_T016:6 Zm00001d037346_T014:1 Zm00001d037346_T024:3 Zm00001d037346_T020:6 Zm00001d037346_T012:4 Zm00001d037346_T007:6 Zm00001d037346_T013:6 Zm00001d037346_T023:5 Zm00001d037346_T006:6 Zm00001d037346_T018:6 Zm00001d037346_T017:6 Zm00001d037346_T005:6

			
						 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  
						
							TCACTACTGATTGATTATTGTCCAGGTTGATCTGCAAGCACAGGCTAGGGCCCACAGGATTGGT
CAAAAGAAGGAGGTTCTTGTTTTACGTTTAGAAACGgtcgaaaatgagcttcctgaaaaaattg
aaagacttgtaagatgtgaggcatctgcttatcagaaacttctcatgacaagggtggaagaaaa
tcttggtg

									
								

					

						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: 630
Transcript exons: 122271567-122271683,122271792-122271872,122271970-122272
077,122272255-122272424,122272582-122272660,122272776-12
2272850
GTCGAAAATGAGCTTCCTGAAAAAATTGAAAGACTTGTAAGATGTGAGGCATCTGCTTATCAGA
AACTTCTCATGACAAGGGTGGAAGAAAATCTTGGTGGAATTGGAGCCGTTAAGGTTCGCTCCGT
TCACAACTCTGTCATGGAATTGAGGAACATATGCAACCATCCATACTTGAGCCAGCTTCATGTT
GAAGAGATTGAGGGCTACCTACCTAAACATTACCTACCATCTATTTTGAGGCTCTGCGGAAAAC
TTGAGATGTTGGACAGATTGCTGCCTAAACTCAAAGCTACGGGCCATAGGGTTCTACTTTTTTC
TACAATGACAAGATTGCTTGATGTAATGGAGGATTACTTGGTTTGGAAAAAGTATAAATATCTT
CGATTGGATGGGCACACTTCTGGCCATGAAAGAGGAGCTCTTATCGATAAATTTAACGATCCTA
ATTCTCAAGCATTCATTTTTCTTCTTAGTATACGAGCTGGAGGTGTTGGGGTCAATCTCCAAGC
TGCCGATACAGTTATCATATTTGATACTGATTGGAATCCTCAGGTTGATCTGCAAGCACAGGCT
AGGGCCCACAGGATTGGTCAAAAGAAGGAGGTTCTTGTTTTACGTTTAGAAACG
						
					

						Genomic sequence
						
							GTCGAAAATGAGCTTCCTGAAAAAATTGAAAGACTTGTAAGATGTGAGGCATCTGCTTATCAGA
AACTTCTCATGACAAGGGTGGAAGAAAATCTTGGTGGAATTGGAGCCGTTAAGGTGTGTATCAT
CTTACTGTTCTGAGTTGTGCTAGCTGGTATGTTTTATTGATCATTTCCTAAGTATTTGAAGGAT
TTGGTCCTTAAGATACTACTTTATTATCTTTAGGTTCGCTCCGTTCACAACTCTGTCATGGAAT
TGAGGAACATATGCAACCATCCATACTTGAGCCAGCTTCATGTTGAAGAGGTAGAATACATCTT
CCATTTCTTCCTCACTGTTGTTGTTGTTGTTGTTATTTTTGAATCCTTATGTTTGCCATCAACA
ATTTGGGTTCTCTTTATAGATTGAGGGCTACCTACCTAAACATTACCTACCATCTATTTTGAGG
CTCTGCGGAAAACTTGAGATGTTGGACAGATTGCTGCCTAAACTCAAAGCTACGGGCCATAGGG
TGAGTGTATCTGGATATAATTTGACTTGTAATTTGATTGTTCATTTTTCTCTCTAGTTGCTGGT
TGAACTGGAATGTTCTTCCCTCTCTGGTCCCTTACCTTTTTTCGTGCCTTCGTTCCTTTTGTGG
TGATTACTGATTAGTTCTGGATCACTGATGGCAACTATAATCTTCCAGGTTCTACTTTTTTCTA
CAATGACAAGATTGCTTGATGTAATGGAGGATTACTTGGTTTGGAAAAAGTATAAATATCTTCG
ATTGGATGGGCACACTTCTGGCCATGAAAGAGGAGCTCTTATCGATAAATTTAACGATCCTAAT
TCTCAAGCATTCATTTTTCTTCTTAGGTATGTTACAATTGTATCGCAAGTTTTTATAAAATGTG
ACGCTTAGCAAACTCACGAGTATGATTGAGCTACTGATTTGATTAATATTTATTTAAACTTATT
TATCTAATGACAAACAAATACTTAGCTCTATCGGTTTTCTACCTCTTTTTGTTAGTATACGAGC
TGGAGGTGTTGGGGTCAATCTCCAAGCTGCCGATACAGTTATCATATTTGATACTGATTGGAAT
CCTCAGGTAGCTAAATATCTAGTTATCACGTTATATATACTCTATTATAACGTTATATATACTC
TATTGCTCTTCTAAGAGAACACTGCATGCTGCTCACTACTGATTGATTATTGTCCAGGTTGATC
TGCAAGCACAGGCTAGGGCCCACAGGATTGGTCAAAAGAAGGAGGTTCTTGTTTTACGTTTAGA
AACG
						
					

			
		

Sequences
Splice junction sequence	TCACTACTGATTGATTATTGTCCAGGTTGATCTGCAAGCACAGGCTAGGGCCCACAGGATTGGT CAAAAGAAGGAGGTTCTTGTTTTACGTTTAGAAACGgtcgaaaatgagcttcctgaaaaaattg aaagacttgtaagatgtgaggcatctgcttatcagaaacttctcatgacaagggtggaagaaaa tcttggtg
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: 630 Transcript exons: 122271567-122271683,122271792-122271872,122271970-122272 077,122272255-122272424,122272582-122272660,122272776-12 2272850 GTCGAAAATGAGCTTCCTGAAAAAATTGAAAGACTTGTAAGATGTGAGGCATCTGCTTATCAGA AACTTCTCATGACAAGGGTGGAAGAAAATCTTGGTGGAATTGGAGCCGTTAAGGTTCGCTCCGT TCACAACTCTGTCATGGAATTGAGGAACATATGCAACCATCCATACTTGAGCCAGCTTCATGTT GAAGAGATTGAGGGCTACCTACCTAAACATTACCTACCATCTATTTTGAGGCTCTGCGGAAAAC TTGAGATGTTGGACAGATTGCTGCCTAAACTCAAAGCTACGGGCCATAGGGTTCTACTTTTTTC TACAATGACAAGATTGCTTGATGTAATGGAGGATTACTTGGTTTGGAAAAAGTATAAATATCTT CGATTGGATGGGCACACTTCTGGCCATGAAAGAGGAGCTCTTATCGATAAATTTAACGATCCTA ATTCTCAAGCATTCATTTTTCTTCTTAGTATACGAGCTGGAGGTGTTGGGGTCAATCTCCAAGC TGCCGATACAGTTATCATATTTGATACTGATTGGAATCCTCAGGTTGATCTGCAAGCACAGGCT AGGGCCCACAGGATTGGTCAAAAGAAGGAGGTTCTTGTTTTACGTTTAGAAACG
Genomic sequence	GTCGAAAATGAGCTTCCTGAAAAAATTGAAAGACTTGTAAGATGTGAGGCATCTGCTTATCAGA AACTTCTCATGACAAGGGTGGAAGAAAATCTTGGTGGAATTGGAGCCGTTAAGGTGTGTATCAT CTTACTGTTCTGAGTTGTGCTAGCTGGTATGTTTTATTGATCATTTCCTAAGTATTTGAAGGAT TTGGTCCTTAAGATACTACTTTATTATCTTTAGGTTCGCTCCGTTCACAACTCTGTCATGGAAT TGAGGAACATATGCAACCATCCATACTTGAGCCAGCTTCATGTTGAAGAGGTAGAATACATCTT CCATTTCTTCCTCACTGTTGTTGTTGTTGTTGTTATTTTTGAATCCTTATGTTTGCCATCAACA ATTTGGGTTCTCTTTATAGATTGAGGGCTACCTACCTAAACATTACCTACCATCTATTTTGAGG CTCTGCGGAAAACTTGAGATGTTGGACAGATTGCTGCCTAAACTCAAAGCTACGGGCCATAGGG TGAGTGTATCTGGATATAATTTGACTTGTAATTTGATTGTTCATTTTTCTCTCTAGTTGCTGGT TGAACTGGAATGTTCTTCCCTCTCTGGTCCCTTACCTTTTTTCGTGCCTTCGTTCCTTTTGTGG TGATTACTGATTAGTTCTGGATCACTGATGGCAACTATAATCTTCCAGGTTCTACTTTTTTCTA CAATGACAAGATTGCTTGATGTAATGGAGGATTACTTGGTTTGGAAAAAGTATAAATATCTTCG ATTGGATGGGCACACTTCTGGCCATGAAAGAGGAGCTCTTATCGATAAATTTAACGATCCTAAT TCTCAAGCATTCATTTTTCTTCTTAGGTATGTTACAATTGTATCGCAAGTTTTTATAAAATGTG ACGCTTAGCAAACTCACGAGTATGATTGAGCTACTGATTTGATTAATATTTATTTAAACTTATT TATCTAATGACAAACAAATACTTAGCTCTATCGGTTTTCTACCTCTTTTTGTTAGTATACGAGC TGGAGGTGTTGGGGTCAATCTCCAAGCTGCCGATACAGTTATCATATTTGATACTGATTGGAAT CCTCAGGTAGCTAAATATCTAGTTATCACGTTATATATACTCTATTATAACGTTATATATACTC TATTGCTCTTCTAAGAGAACACTGCATGCTGCTCACTACTGATTGATTATTGTCCAGGTTGATC TGCAAGCACAGGCTAGGGCCCACAGGATTGGTCAAAAGAAGGAGGTTCTTGTTTTACGTTTAGA AACG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.218766812

Conservation Information
Conserved circRNAs	NA
PMCS	0.218766812

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							122271640-122272847(+)
122271865-122272844(-)
122271620-122272797(-)
						
						Potential amino acid sequence
						
							MTRVEENLGGIGAVKVRSVHNSVMELRNICNHPYLSQLHVEEIEGYLPKHYLPSILRLCGKLEM
LDRLLPKLKATGHRVLLFSTMTRLLDVMEDYLVWKKYKYLRLDGHTSGHERGALIDKFNDPNSQ
AFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKKEVLVLRLETVENELP
EKIERLVRCEASAYQKLLMTRVEENLGGIGAVKVRSVHNSVMELRNICNHPYLSQLHVEEIEGY
LPKHYLPSILRLCGKLEMLDRLLPKLKATGHRVLLFSTMTRLLDVMEDYLVWKKYKYLRLDGHT
SGHERGALIDKFNDPNSQAFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIG
QKKEVLVLRLETVENELPEKIERLVRCEASAYQKLLMTRVEENLGGIGAVKVRSVHNSVMELRN
ICNHPYLSQLHVEEIEGYLPKHYLPSILRLCGKLEMLDRLLPKLKATGHRVLLFSTMTRLLDVM
EDYLVWKKYKYLRLDGHTSGHERGALIDKFNDPNSQAFIFLLSIRAGGVGVNLQAADTVIIFDT
DWNPQVDLQAQARAHRIGQKKEVLVLRLETVENELPEKIERLVRCEASAYQKLLMTRVEENLGG
IGAVKVRSVHNSVMELRNICNHPYLSQLHVEEIEGYLPKHYLPSILRLCGKLEMLDRLLPKLKA
TGHRVLLFSTMTRLLDVMEDYLVWKKYKYLRLDGHTSGHERGALIDKFNDPNSQAFIFLLSIRA
GGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKKEVLVLRLET(+)
MKLAQVWMVAYVPQFHDRVVNGANLNGSNSTKIFFHPCHEKFLISRCLTSYKSFNFFRKLIFDR
F*(-)
MPHILQVFQFFQEAHFRPFLNVKQEPPSFDQSCGP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	122271640-122272847(+) 122271865-122272844(-) 122271620-122272797(-)
Potential amino acid sequence	MTRVEENLGGIGAVKVRSVHNSVMELRNICNHPYLSQLHVEEIEGYLPKHYLPSILRLCGKLEM LDRLLPKLKATGHRVLLFSTMTRLLDVMEDYLVWKKYKYLRLDGHTSGHERGALIDKFNDPNSQ AFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKKEVLVLRLETVENELP EKIERLVRCEASAYQKLLMTRVEENLGGIGAVKVRSVHNSVMELRNICNHPYLSQLHVEEIEGY LPKHYLPSILRLCGKLEMLDRLLPKLKATGHRVLLFSTMTRLLDVMEDYLVWKKYKYLRLDGHT SGHERGALIDKFNDPNSQAFIFLLSIRAGGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIG QKKEVLVLRLETVENELPEKIERLVRCEASAYQKLLMTRVEENLGGIGAVKVRSVHNSVMELRN ICNHPYLSQLHVEEIEGYLPKHYLPSILRLCGKLEMLDRLLPKLKATGHRVLLFSTMTRLLDVM EDYLVWKKYKYLRLDGHTSGHERGALIDKFNDPNSQAFIFLLSIRAGGVGVNLQAADTVIIFDT DWNPQVDLQAQARAHRIGQKKEVLVLRLETVENELPEKIERLVRCEASAYQKLLMTRVEENLGG IGAVKVRSVHNSVMELRNICNHPYLSQLHVEEIEGYLPKHYLPSILRLCGKLEMLDRLLPKLKA TGHRVLLFSTMTRLLDVMEDYLVWKKYKYLRLDGHTSGHERGALIDKFNDPNSQAFIFLLSIRA GGVGVNLQAADTVIIFDTDWNPQVDLQAQARAHRIGQKKEVLVLRLET(+) MKLAQVWMVAYVPQFHDRVVNGANLNGSNSTKIFFHPCHEKFLISRCLTSYKSFNFFRKLIFDR F(-) MPHILQVFQFFQEAHFRPFLNVKQEPPSFDQSCGP(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020; Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d037346_circ_g.7

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