Plant Circular RNA Database

Detail information of Zm00001d022502_circ_g.9

			
						 General Information
					
						CircRNA Name
						Zm00001d022502_circ_g.9
					
						ID in PlantcircBase
						zma_circ_009512
					
						Alias
						Zm07circ00101, zma_circ_0002604, GRMZM2G327394_C4
					
						Organism
						
							Zea mays						
					
						Position
						
							chr7: 179025330-179027705  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d022502						
					
						Parent gene annotation
						
							Exocyst complex component SEC8
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d022502_circ_g.1 Zm00001d022502_circ_g.2 Zm00001d022502_circ_g.3 Zm00001d022502_circ_g.4 Zm00001d022502_circ_g.5 Zm00001d022502_circ_g.6 Zm00001d022502_circ_g.7 Zm00001d022502_circ_g.8 Zm00001d022502_circ_g.10 Zm00001d022502_circ_g.11 Zm00001d022502_circ_g.12 Zm00001d022502_circ_g.13 Zm00001d022502_circ_g.14 Zm00001d022502_circ_g.15 Zm00001d022502_circ_g.16 						
					
						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
						Zm00001d022502_T006:3
Zm00001d022502_T004:3
Zm00001d022502_T017:3
Zm00001d022502_T008:3
Zm00001d022502_T010:3
Zm00001d022502_T001:3
Zm00001d022502_T018:3
Zm00001d022502_T014:3
Zm00001d022502_T009:3
Zm00001d022502_T012:3
Zm00001d022502_T002:3
Zm00001d022502_T013:3
Zm00001d022502_T007:3
Zm00001d022502_T016:2
Zm00001d022502_T019:3
Zm00001d022502_T003:3
Zm00001d022502_T015:3
Zm00001d022502_T005:3
Zm00001d022502_T011:3

General Information
CircRNA Name	Zm00001d022502_circ_g.9
ID in PlantcircBase	zma_circ_009512
Alias	Zm07circ00101, zma_circ_0002604, GRMZM2G327394_C4
Organism	Zea mays
Position	chr7: 179025330-179027705 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d022502
Parent gene annotation	Exocyst complex component SEC8
Parent gene strand	+
Alternative splicing	Zm00001d022502_circ_g.1 Zm00001d022502_circ_g.2 Zm00001d022502_circ_g.3 Zm00001d022502_circ_g.4 Zm00001d022502_circ_g.5 Zm00001d022502_circ_g.6 Zm00001d022502_circ_g.7 Zm00001d022502_circ_g.8 Zm00001d022502_circ_g.10 Zm00001d022502_circ_g.11 Zm00001d022502_circ_g.12 Zm00001d022502_circ_g.13 Zm00001d022502_circ_g.14 Zm00001d022502_circ_g.15 Zm00001d022502_circ_g.16
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	Zm00001d022502_T006:3 Zm00001d022502_T004:3 Zm00001d022502_T017:3 Zm00001d022502_T008:3 Zm00001d022502_T010:3 Zm00001d022502_T001:3 Zm00001d022502_T018:3 Zm00001d022502_T014:3 Zm00001d022502_T009:3 Zm00001d022502_T012:3 Zm00001d022502_T002:3 Zm00001d022502_T013:3 Zm00001d022502_T007:3 Zm00001d022502_T016:2 Zm00001d022502_T019:3 Zm00001d022502_T003:3 Zm00001d022502_T015:3 Zm00001d022502_T005:3 Zm00001d022502_T011:3

			
						 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  
						
							ATGGGTTCAATTGATGCCAAACTATGCGACTGAGCTTGTGGAGTATGTACGCACATTTTTAGAA
CGTGCTCATGAGAGATGTCGTGCATCATATATGGAGgagtgatggcttattggcttttgtgaat
aactttctgaaggagcacttcttgccagcaatatttgtagattaccgaaaatgcgttcagcagg
ccatatct

									
								

					

						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: 322
Transcript exons: 179025330-179025430,179027394-179027506,179027598-179027
705
GAGTGATGGCTTATTGGCTTTTGTGAATAACTTTCTGAAGGAGCACTTCTTGCCAGCAATATTT
GTAGATTACCGAAAATGCGTTCAGCAGGCCATATCTAGTCCAGCAGCATTTAGACCACGTGTAC
ATGCAACATCAGCATATAGTTCATCGGTGGAACTTGGACGCCCTGTGCTTCAAGGGCTTCTCGC
CATTGATATAATAGCCAAAGAGGTTCTTGGATGGGTTCAATTGATGCCAAACTATGCGACTGAG
CTTGTGGAGTATGTACGCACATTTTTAGAACGTGCTCATGAGAGATGTCGTGCATCATATATGG
AG
						
					

						Genomic sequence
						
							GAGTGATGGCTTATTGGCTTTTGTGAATAACTTTCTGAAGGAGCACTTCTTGCCAGCAATATTT
GTAGATTACCGAAAATGCGTTCAGCAGGCCATATCTAGTAAGTCATCACGGGAACTTTGTGTCT
GTGCACAGGACTTCAATTTGTTGGGTTCCTAGGACGCATACAGTCCTAATACTGTGAAACTGAT
TCAAGAAGTTGAAAGTTGATTTCCACCCCCGACCCCTATAGTTAGATGTCAATAGTTGTATTGT
GAAATCTTTTTTCTCCAAGCGCATATGCCTGTGGTATGGGTGATTGATCAAGATGGCTAGGGTT
CATGGACTGGGGTAACTGTTAACCAACAAATTCAATCCAAGCACTAATACCACATTGATTTTGG
CCCAGACTCATGTTTTCTCATCCATCCTATATAGTGCCCTTGGCATCTATTAACTGTCTCTAAT
GTTCCAAATTATAAGGCCTTCCAACTTTATTGAGATGCTTTGATTCTTCAATAAAGTTGGAAGG
CCTTATAATTTGGAACGGAGGCAGTAGTTCTGAGACCAATACAATGCTGAGCTTGTAGTCATAA
TAACCTGGTACCTTAACTAATATGTACCCATTTTTAAGAAGTCCAAAAGCAATTTGTTGCCCAC
AGATACATTCATGGAATTTTTGCCATCCATAATACTCAATGTGTTAGTCAATTTATTTTAGTAA
ACCTACTGATGCATGTAATTATATGAATTCGTAAGAGAGTGTTTGTGTGAGTGTGATTTGTTTG
GTTTCTCCTACATATTCTACAAAAAAAATAGTGTTAAGGAAAGTGATACATAATCTATACTTCT
ATACTTATATAATCTATTAAGAACCTAATGTGGGCACCTGGTGCCACCACGGCTAAACCCTTCG
CGATGACACTTTGGACTCGCCCCACGCGGCCCGTCTTGAGGGCCGTGCCCTGTGCCCACACAAC
GCTCTCTCAGCTACTGCCCTGTGGACCCCAGCGCCCACGCAGCTAGCTACTGCGCCTGCCCAGC
ACCCGACCCCTCCCACGCAGCTAACACCAGACCACACGTACCTTAATGTTTAGAAATAAACAAT
AATTATATAAAAAAAAATAGTGTAGTGCGAGCACTCGAACGCACACCCCATGCTCCAGATATTT
GGGGCTAACCACCAGACCACACACTTTAGTCTTTAGAAAAAACAATAATTATATTTTAATAAAT
ATCTCAATACCTATTTATATGATATATAAAAACCGTAGCAAAGCACGGGCAACTGGCTAGTTAA
AAAAAGAGAGCAAACTACCAGGATTGGAAGAGAGACCGAGAGGGATCAAGAATCCAAAATCTTT
TCAAATTGGTGTGCCATTTATTTGATATTTCAGCTGGCCCACTTACAAAGTTAGTCTGGCTCTG
CCATTGAACTTATCTGTCCTTACATGTGTTTTTTAATGTACACATGTTTCTTAAAACTACATGA
ACAACGTGACTTCTTTTCCTATCGTTTTTGGAGCCCTTGAGGGAAATTGCTTAGTCTTCCAAAT
TATAAGATTGTGGTCTTTTGTACTATGGTCTATTTTGGACCCTCTTTTCCTTCTACTTAATATA
ATGATGCGCAGCTCTCCTGCGCTTTCGAGAAGAAAAAAAAAGACGGTGGGAAATAGCTGGAGCC
AAAGGTCTCTCCTATCTAGCCGCCCCTTTATCTGAGACTTAAGGGCTGGTATCTTGGTGTGTGG
TTGTGTTGGTTTGCTAGATGGATTCTTTTATGTATGCTTGTTTCTGGACCCCGTAAGGGGAGCT
TTGTATCGGGCCTTCTTTAGACCCTTACAATTCTTAATATATAATAATGAGGCGCAGTTCTCCT
GCGTATTTCGAGAAAAAAACTGTGCATACAATTGTTGTTTGATCATTAAACAGTGAATGGTATG
TTGCTGTATTGTTCTGACCCTATCCATCTGTGAAGAAATGGACATTGAGTTCAAAGACTTCAAT
AACATTTAGTAATGGCTGCAAAAAATTATTACATGCTTTCTCATATTTGAATAAGTTTATTACC
ATGCATCTTTTGATAGGTCCAGCAGCATTTAGACCACGTGTACATGCAACATCAGCATATAGTT
CATCGGTGGAACTTGGACGCCCTGTGCTTCAAGGGCTTCTCGCCATTGATATAATAGCCAAAGA
GGTAGTTTCCCCGCCCACCCGCCCAAAAAATCTTGTCTATTCCTTCTAATTTTGATTTTATTTA
TCTGTTGAAATTTCTTCCTTCTTCCTAGGTTCTTGGATGGGTTCAATTGATGCCAAACTATGCG
ACTGAGCTTGTGGAGTATGTACGCACATTTTTAGAACGTGCTCATGAGAGATGTCGTGCATCAT
ATATGGAG
						
					

			
		

Sequences
Splice junction sequence	ATGGGTTCAATTGATGCCAAACTATGCGACTGAGCTTGTGGAGTATGTACGCACATTTTTAGAA CGTGCTCATGAGAGATGTCGTGCATCATATATGGAGgagtgatggcttattggcttttgtgaat aactttctgaaggagcacttcttgccagcaatatttgtagattaccgaaaatgcgttcagcagg ccatatct
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: 322 Transcript exons: 179025330-179025430,179027394-179027506,179027598-179027 705 GAGTGATGGCTTATTGGCTTTTGTGAATAACTTTCTGAAGGAGCACTTCTTGCCAGCAATATTT GTAGATTACCGAAAATGCGTTCAGCAGGCCATATCTAGTCCAGCAGCATTTAGACCACGTGTAC ATGCAACATCAGCATATAGTTCATCGGTGGAACTTGGACGCCCTGTGCTTCAAGGGCTTCTCGC CATTGATATAATAGCCAAAGAGGTTCTTGGATGGGTTCAATTGATGCCAAACTATGCGACTGAG CTTGTGGAGTATGTACGCACATTTTTAGAACGTGCTCATGAGAGATGTCGTGCATCATATATGG AG
Genomic sequence	GAGTGATGGCTTATTGGCTTTTGTGAATAACTTTCTGAAGGAGCACTTCTTGCCAGCAATATTT GTAGATTACCGAAAATGCGTTCAGCAGGCCATATCTAGTAAGTCATCACGGGAACTTTGTGTCT GTGCACAGGACTTCAATTTGTTGGGTTCCTAGGACGCATACAGTCCTAATACTGTGAAACTGAT TCAAGAAGTTGAAAGTTGATTTCCACCCCCGACCCCTATAGTTAGATGTCAATAGTTGTATTGT GAAATCTTTTTTCTCCAAGCGCATATGCCTGTGGTATGGGTGATTGATCAAGATGGCTAGGGTT CATGGACTGGGGTAACTGTTAACCAACAAATTCAATCCAAGCACTAATACCACATTGATTTTGG CCCAGACTCATGTTTTCTCATCCATCCTATATAGTGCCCTTGGCATCTATTAACTGTCTCTAAT GTTCCAAATTATAAGGCCTTCCAACTTTATTGAGATGCTTTGATTCTTCAATAAAGTTGGAAGG CCTTATAATTTGGAACGGAGGCAGTAGTTCTGAGACCAATACAATGCTGAGCTTGTAGTCATAA TAACCTGGTACCTTAACTAATATGTACCCATTTTTAAGAAGTCCAAAAGCAATTTGTTGCCCAC AGATACATTCATGGAATTTTTGCCATCCATAATACTCAATGTGTTAGTCAATTTATTTTAGTAA ACCTACTGATGCATGTAATTATATGAATTCGTAAGAGAGTGTTTGTGTGAGTGTGATTTGTTTG GTTTCTCCTACATATTCTACAAAAAAAATAGTGTTAAGGAAAGTGATACATAATCTATACTTCT ATACTTATATAATCTATTAAGAACCTAATGTGGGCACCTGGTGCCACCACGGCTAAACCCTTCG CGATGACACTTTGGACTCGCCCCACGCGGCCCGTCTTGAGGGCCGTGCCCTGTGCCCACACAAC GCTCTCTCAGCTACTGCCCTGTGGACCCCAGCGCCCACGCAGCTAGCTACTGCGCCTGCCCAGC ACCCGACCCCTCCCACGCAGCTAACACCAGACCACACGTACCTTAATGTTTAGAAATAAACAAT AATTATATAAAAAAAAATAGTGTAGTGCGAGCACTCGAACGCACACCCCATGCTCCAGATATTT GGGGCTAACCACCAGACCACACACTTTAGTCTTTAGAAAAAACAATAATTATATTTTAATAAAT ATCTCAATACCTATTTATATGATATATAAAAACCGTAGCAAAGCACGGGCAACTGGCTAGTTAA AAAAAGAGAGCAAACTACCAGGATTGGAAGAGAGACCGAGAGGGATCAAGAATCCAAAATCTTT TCAAATTGGTGTGCCATTTATTTGATATTTCAGCTGGCCCACTTACAAAGTTAGTCTGGCTCTG CCATTGAACTTATCTGTCCTTACATGTGTTTTTTAATGTACACATGTTTCTTAAAACTACATGA ACAACGTGACTTCTTTTCCTATCGTTTTTGGAGCCCTTGAGGGAAATTGCTTAGTCTTCCAAAT TATAAGATTGTGGTCTTTTGTACTATGGTCTATTTTGGACCCTCTTTTCCTTCTACTTAATATA ATGATGCGCAGCTCTCCTGCGCTTTCGAGAAGAAAAAAAAAGACGGTGGGAAATAGCTGGAGCC AAAGGTCTCTCCTATCTAGCCGCCCCTTTATCTGAGACTTAAGGGCTGGTATCTTGGTGTGTGG TTGTGTTGGTTTGCTAGATGGATTCTTTTATGTATGCTTGTTTCTGGACCCCGTAAGGGGAGCT TTGTATCGGGCCTTCTTTAGACCCTTACAATTCTTAATATATAATAATGAGGCGCAGTTCTCCT GCGTATTTCGAGAAAAAAACTGTGCATACAATTGTTGTTTGATCATTAAACAGTGAATGGTATG TTGCTGTATTGTTCTGACCCTATCCATCTGTGAAGAAATGGACATTGAGTTCAAAGACTTCAAT AACATTTAGTAATGGCTGCAAAAAATTATTACATGCTTTCTCATATTTGAATAAGTTTATTACC ATGCATCTTTTGATAGGTCCAGCAGCATTTAGACCACGTGTACATGCAACATCAGCATATAGTT CATCGGTGGAACTTGGACGCCCTGTGCTTCAAGGGCTTCTCGCCATTGATATAATAGCCAAAGA GGTAGTTTCCCCGCCCACCCGCCCAAAAAATCTTGTCTATTCCTTCTAATTTTGATTTTATTTA TCTGTTGAAATTTCTTCCTTCTTCCTAGGTTCTTGGATGGGTTCAATTGATGCCAAACTATGCG ACTGAGCTTGTGGAGTATGTACGCACATTTTTAGAACGTGCTCATGAGAGATGTCGTGCATCAT ATATGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_036683 osa_circ_036681 osi_circ_017765 						
					
						PMCS
						0.142802391

Conservation Information
Conserved circRNAs	osa_circ_036683 osa_circ_036681 osi_circ_017765
PMCS	0.142802391

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							179027620-179025332(+)
179027678-179025332(+)
						
						Potential amino acid sequence
						
							MPNYATELVEYVRTFLERAHERCRASYMEE*(+)
MRDVVHHIWRSDGLLAFVNNFLKEHFLPAIFVDYRKCVQQAISSPAAFRPRVHATSAYSSSVEL
GRPVLQGLLAIDIIAKEVLGWVQLMPNYATELVEYVRTFLERAHERCRASYMEE*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	179027620-179025332(+) 179027678-179025332(+)
Potential amino acid sequence	MPNYATELVEYVRTFLERAHERCRASYMEE(+) MRDVVHHIWRSDGLLAFVNNFLKEHFLPAIFVDYRKCVQQAISSPAAFRPRVHATSAYSSSVEL GRPVLQGLLAIDIIAKEVLGWVQLMPNYATELVEYVRTFLERAHERCRASYMEE(+)
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 Zm00001d022502_circ_g.9

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