Plant Circular RNA Database

Detail information of Zm00001d014232_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d014232_circ_g.2
					
						ID in PlantcircBase
						zma_circ_008446
					
						Alias
						zma_circ_0002072, GRMZM2G040182_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 37309799-37311307  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d014232						
					
						Parent gene annotation
						
							F-box/LRR-repeat protein 15
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d014232_circ_g.1 						
					
						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
						Zm00001d014232_T015:3
Zm00001d014232_T026:3
Zm00001d014232_T005:3
Zm00001d014232_T011:3
Zm00001d014232_T017:3
Zm00001d014232_T031:3
Zm00001d014232_T024:3
Zm00001d014232_T002:3
Zm00001d014232_T008:3
Zm00001d014232_T014:3
Zm00001d014232_T001:3
Zm00001d014232_T036:3
Zm00001d014232_T022:3
Zm00001d014232_T003:3
Zm00001d014232_T019:3
Zm00001d014232_T006:3
Zm00001d014232_T013:3
Zm00001d014232_T029:3
Zm00001d014232_T027:3
Zm00001d014232_T010:3
Zm00001d014232_T028:3
Zm00001d014232_T007:3
Zm00001d014232_T025:3
Zm00001d014232_T023:3
Zm00001d014232_T035:3
Zm00001d014232_T018:3
Zm00001d014232_T004:3
Zm00001d014232_T020:3
Zm00001d014232_T016:3
Zm00001d014232_T021:3
Zm00001d014232_T012:3
Zm00001d014232_T009:3
Zm00001d014232_T030:3

General Information
CircRNA Name	Zm00001d014232_circ_g.2
ID in PlantcircBase	zma_circ_008446
Alias	zma_circ_0002072, GRMZM2G040182_C1
Organism	Zea mays
Position	chr5: 37309799-37311307 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d014232
Parent gene annotation	F-box/LRR-repeat protein 15
Parent gene strand	-
Alternative splicing	Zm00001d014232_circ_g.1
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	Zm00001d014232_T015:3 Zm00001d014232_T026:3 Zm00001d014232_T005:3 Zm00001d014232_T011:3 Zm00001d014232_T017:3 Zm00001d014232_T031:3 Zm00001d014232_T024:3 Zm00001d014232_T002:3 Zm00001d014232_T008:3 Zm00001d014232_T014:3 Zm00001d014232_T001:3 Zm00001d014232_T036:3 Zm00001d014232_T022:3 Zm00001d014232_T003:3 Zm00001d014232_T019:3 Zm00001d014232_T006:3 Zm00001d014232_T013:3 Zm00001d014232_T029:3 Zm00001d014232_T027:3 Zm00001d014232_T010:3 Zm00001d014232_T028:3 Zm00001d014232_T007:3 Zm00001d014232_T025:3 Zm00001d014232_T023:3 Zm00001d014232_T035:3 Zm00001d014232_T018:3 Zm00001d014232_T004:3 Zm00001d014232_T020:3 Zm00001d014232_T016:3 Zm00001d014232_T021:3 Zm00001d014232_T012:3 Zm00001d014232_T009:3 Zm00001d014232_T030:3

			
						 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  
						
							CACCACAACCCTTCAGCTCCATTATAGACATATTTGGGGCCTCAATGCACAGAATACTTAATTT
TGGACAAATTCCCAGATTTAGGGATTCAAGGCCCACctcaagtttaacgttaaaagattggagc
atgtcaaatccacttccttcaagttggttgaaagattaagattaattttggacaaatgtgaaaa
gtttgcta

									
								

					

						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: 821
Transcript exons: 37309799-37310259,37310862-37311060,37311147-37311307
CTCAAGTTTAACGTTAAAAGATTGGAGCATGTCAAATCCACTTCCTTCAAGTTGGTTGAAAGAT
TAAGATTAATTTTGGACAAATGTGAAAAGTTTGCTATCAAAGGAATAACAACTTTCTTAATATT
AGGGCACCCAGTACAATTGAGAACTTCAAGCAGACGGCCAGGTTGCTCACTGATCTCTTCATTC
TTGATTGGTGAACTAGGTGGACAAGAGTCAACTGGCATATCCACAGAACCGCTATCCCCAGATT
CGCACACCAATTCTTGAAAATTTGTACATCCGTTGAAGTTCACATTAACCAAATTACTACAACA
AGCAAGAAGACCTTCTATTGCATTCTGTTCGATGGGTGAGTAGGACAGATCTAGCTCAACAAGC
AATGGAAGAGCACCCTCTCTGTAAAGGGCATCCAATGATGAGTCACTGAGGTACTTGCAAGCTG
AAAGTTTTAACACCTTCAACTGTGGACAACTGTCAAAAATAGGCTTCAAGTTGATCAAAAATGT
ATAAGACAGGTCAAGCAAGGTCAACTTATGAAGGCAATGCAATGAAGACAATCCATCGATGCCA
ATGGATAGGCATGATGACAGGATAAGATGTTCAATCAGAGGACATGCCCCGGTCATACAAGTCA
GTGAATCATCCACAAGCTGCCTGCAGAAAGAGGCATCTAAAGATGTCAAGCGAGGGCAATTGAT
GGAAGCCTCGGAAAGCACACCACAACCCTTCAGCTCCATTATAGACATATTTGGGGCCTCAATG
CACAGAATACTTAATTTTGGACAAATTCCCAGATTTAGGGATTCAAGGCCCAC
						
					

						Genomic sequence
						
							CTCAAGTTTAACGTTAAAAGATTGGAGCATGTCAAATCCACTTCCTTCAAGTTGGTTGAAAGAT
TAAGATTAATTTTGGACAAATGTGAAAAGTTTGCTATCAAAGGAATAACAACTTTCTTAATATT
AGGGCACCCAGTACAATTGAGAACTTCAAGCAGACGGCCAGGTTGCTCACTGATCTCTTCATTC
TTGATTGGTGAACTAGGTGGACAAGAGTCAACTGGCATATCCACAGAACCGCTATCCCCAGATT
CGCACACCAATTCTTGAAAATTTGTACATCCGTTGAAGTTCACATTAACCAAATTACTACAACA
AGCAAGAAGACCTTCTATTGCATTCTGTTCGATGGGTGAGTAGGACAGATCTAGCTCAACAAGC
AATGGAAGAGCACCCTCTCTGTAAAGGGCATCCAATGATGAGTCACTGAGGTACTTGCAAGCTG
AAAGTTTTAACACCTGCCAAAGGAAAACCAGATACCATTACAACAGAATACATCAATAAACTCC
ATTTTGTATGAACAAATCCATTATTATCTTAACATTCAAATTCCAAAATTGTTCCTTTTCAATT
AATCACATGTGATAAAAAAACATCATATAAAAAACAAATGCTAATAAAGTGAACTCCAAAAGGT
AATTCAATGATCTTATACTCATTTTCTGTTTTTCCAGATCATACTACGTAAAATGGAAAACTAT
ACCAAAACTTTAGGTGCCGTTTGGTTCACGAAATGTAACGTAAATGGTATCGATAATGATTCAC
ATTCGAGTACCAGCGGTAATAAGTTTGAATAGGCCGGTATCAATTTCTAGTGTGGTATCTGATT
ACGGTTGGAGTTAAACAAACATGATTTAACGTTATCAGTTACCCATTTCGTTACAAATATGTGA
ACCAACGGCACCTTAATAGCATTGCATACATCTACACATGAATAAACATTAGGCTGCATTATAT
ATTTGCATAGAATAACAACTATTAAAATAAGGTTCCATCTTAATGTACCATACTCCAAAATTTG
CAACATAAGTGTTCCAAACACGAACACAGTCAAGCTTACCTTCAACTGTGGACAACTGTCAAAA
ATAGGCTTCAAGTTGATCAAAAATGTATAAGACAGGTCAAGCAAGGTCAACTTATGAAGGCAAT
GCAATGAAGACAATCCATCGATGCCAATGGATAGGCATGATGACAGGATAAGATGTTCAATCAG
AGGACATGCCCCGGTCATACAAGTCAGTGAATCATCCACAAGCTGCCTGAACATGCAAAAACAA
AATGAACACAGCAATAGTAGGTAGCAATTGATGAAATAAAGCAAAAAATACTGAAAGTGTGGCA
CAACCTGCAGAAAGAGGCATCTAAAGATGTCAAGCGAGGGCAATTGATGGAAGCCTCGGAAAGC
ACACCACAACCCTTCAGCTCCATTATAGACATATTTGGGGCCTCAATGCACAGAATACTTAATT
TTGGACAAATTCCCAGATTTAGGGATTCAAGGCCCAC
						
					

			
		

Sequences
Splice junction sequence	CACCACAACCCTTCAGCTCCATTATAGACATATTTGGGGCCTCAATGCACAGAATACTTAATTT TGGACAAATTCCCAGATTTAGGGATTCAAGGCCCACctcaagtttaacgttaaaagattggagc atgtcaaatccacttccttcaagttggttgaaagattaagattaattttggacaaatgtgaaaa gtttgcta
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: 821 Transcript exons: 37309799-37310259,37310862-37311060,37311147-37311307 CTCAAGTTTAACGTTAAAAGATTGGAGCATGTCAAATCCACTTCCTTCAAGTTGGTTGAAAGAT TAAGATTAATTTTGGACAAATGTGAAAAGTTTGCTATCAAAGGAATAACAACTTTCTTAATATT AGGGCACCCAGTACAATTGAGAACTTCAAGCAGACGGCCAGGTTGCTCACTGATCTCTTCATTC TTGATTGGTGAACTAGGTGGACAAGAGTCAACTGGCATATCCACAGAACCGCTATCCCCAGATT CGCACACCAATTCTTGAAAATTTGTACATCCGTTGAAGTTCACATTAACCAAATTACTACAACA AGCAAGAAGACCTTCTATTGCATTCTGTTCGATGGGTGAGTAGGACAGATCTAGCTCAACAAGC AATGGAAGAGCACCCTCTCTGTAAAGGGCATCCAATGATGAGTCACTGAGGTACTTGCAAGCTG AAAGTTTTAACACCTTCAACTGTGGACAACTGTCAAAAATAGGCTTCAAGTTGATCAAAAATGT ATAAGACAGGTCAAGCAAGGTCAACTTATGAAGGCAATGCAATGAAGACAATCCATCGATGCCA ATGGATAGGCATGATGACAGGATAAGATGTTCAATCAGAGGACATGCCCCGGTCATACAAGTCA GTGAATCATCCACAAGCTGCCTGCAGAAAGAGGCATCTAAAGATGTCAAGCGAGGGCAATTGAT GGAAGCCTCGGAAAGCACACCACAACCCTTCAGCTCCATTATAGACATATTTGGGGCCTCAATG CACAGAATACTTAATTTTGGACAAATTCCCAGATTTAGGGATTCAAGGCCCAC
Genomic sequence	CTCAAGTTTAACGTTAAAAGATTGGAGCATGTCAAATCCACTTCCTTCAAGTTGGTTGAAAGAT TAAGATTAATTTTGGACAAATGTGAAAAGTTTGCTATCAAAGGAATAACAACTTTCTTAATATT AGGGCACCCAGTACAATTGAGAACTTCAAGCAGACGGCCAGGTTGCTCACTGATCTCTTCATTC TTGATTGGTGAACTAGGTGGACAAGAGTCAACTGGCATATCCACAGAACCGCTATCCCCAGATT CGCACACCAATTCTTGAAAATTTGTACATCCGTTGAAGTTCACATTAACCAAATTACTACAACA AGCAAGAAGACCTTCTATTGCATTCTGTTCGATGGGTGAGTAGGACAGATCTAGCTCAACAAGC AATGGAAGAGCACCCTCTCTGTAAAGGGCATCCAATGATGAGTCACTGAGGTACTTGCAAGCTG AAAGTTTTAACACCTGCCAAAGGAAAACCAGATACCATTACAACAGAATACATCAATAAACTCC ATTTTGTATGAACAAATCCATTATTATCTTAACATTCAAATTCCAAAATTGTTCCTTTTCAATT AATCACATGTGATAAAAAAACATCATATAAAAAACAAATGCTAATAAAGTGAACTCCAAAAGGT AATTCAATGATCTTATACTCATTTTCTGTTTTTCCAGATCATACTACGTAAAATGGAAAACTAT ACCAAAACTTTAGGTGCCGTTTGGTTCACGAAATGTAACGTAAATGGTATCGATAATGATTCAC ATTCGAGTACCAGCGGTAATAAGTTTGAATAGGCCGGTATCAATTTCTAGTGTGGTATCTGATT ACGGTTGGAGTTAAACAAACATGATTTAACGTTATCAGTTACCCATTTCGTTACAAATATGTGA ACCAACGGCACCTTAATAGCATTGCATACATCTACACATGAATAAACATTAGGCTGCATTATAT ATTTGCATAGAATAACAACTATTAAAATAAGGTTCCATCTTAATGTACCATACTCCAAAATTTG CAACATAAGTGTTCCAAACACGAACACAGTCAAGCTTACCTTCAACTGTGGACAACTGTCAAAA ATAGGCTTCAAGTTGATCAAAAATGTATAAGACAGGTCAAGCAAGGTCAACTTATGAAGGCAAT GCAATGAAGACAATCCATCGATGCCAATGGATAGGCATGATGACAGGATAAGATGTTCAATCAG AGGACATGCCCCGGTCATACAAGTCAGTGAATCATCCACAAGCTGCCTGAACATGCAAAAACAA AATGAACACAGCAATAGTAGGTAGCAATTGATGAAATAAAGCAAAAAATACTGAAAGTGTGGCA CAACCTGCAGAAAGAGGCATCTAAAGATGTCAAGCGAGGGCAATTGATGGAAGCCTCGGAAAGC ACACCACAACCCTTCAGCTCCATTATAGACATATTTGGGGCCTCAATGCACAGAATACTTAATT TTGGACAAATTCCCAGATTTAGGGATTCAAGGCCCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.097340097

Conservation Information
Conserved circRNAs	NA
PMCS	0.097340097

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							37310972-37309862(+)
37311240-37311291(-)
37309830-37311291(-)
						
						Potential amino acid sequence
						
							MPMDRHDDRIRCSIRGHAPVIQVSESSTSCLQKEASKDVKRGQLMEASESTPQPFSSIIDIFGA
SMHRILNFGQIPRFRDSRPTSSLTLKDWSMSNPLPSSWLKD*(+)
MSIMELKGCGVLSEASINCPRLTSLDASFCRQLVDDSLTCMTGACPLIEHLILSSCLSIGIDGL
SSLHCLHKLTLLDLSYTFLINLKPIFDSCPQLKVLKLSACKYLSDSSLDALYREGALPLLVELD
LSYSPIEQNAIEGLLACCSNLVNVNFNGCTNFQELVCESGDSGSVDMPVDSCPPSSPIKNEEIS
EQPGRLLEVLNCTGCPNIKKVVIPLIANFSHLSKINLNLSTNLKEVDLTCSNLLTLNLRWALNP
*(-)
MLQSFNVKLEVGLESLNLGICPKLSILCIEAPNMSIMELKGCGVLSEASINCPRLTSLDASFCR
QLVDDSLTCMTGACPLIEHLILSSCLSIGIDGLSSLHCLHKLTLLDLSYTFLINLKPIFDSCPQ
LKVLKLSACKYLSDSSLDALYREGALPLLVELDLSYSPIEQNAIEGLLACCSNLVNVNFNGCTN
FQELVCESGDSGSVDMPVDSCPPSSPIKNEEISEQPGRLLEVLNCTGCPNIKKVVIPLIANFSH
LSKINLNLSTNLKEVDLTCSNLLTLNLRWALNP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	37310972-37309862(+) 37311240-37311291(-) 37309830-37311291(-)
Potential amino acid sequence	MPMDRHDDRIRCSIRGHAPVIQVSESSTSCLQKEASKDVKRGQLMEASESTPQPFSSIIDIFGA SMHRILNFGQIPRFRDSRPTSSLTLKDWSMSNPLPSSWLKD(+) MSIMELKGCGVLSEASINCPRLTSLDASFCRQLVDDSLTCMTGACPLIEHLILSSCLSIGIDGL SSLHCLHKLTLLDLSYTFLINLKPIFDSCPQLKVLKLSACKYLSDSSLDALYREGALPLLVELD LSYSPIEQNAIEGLLACCSNLVNVNFNGCTNFQELVCESGDSGSVDMPVDSCPPSSPIKNEEIS EQPGRLLEVLNCTGCPNIKKVVIPLIANFSHLSKINLNLSTNLKEVDLTCSNLLTLNLRWALNP (-) MLQSFNVKLEVGLESLNLGICPKLSILCIEAPNMSIMELKGCGVLSEASINCPRLTSLDASFCR QLVDDSLTCMTGACPLIEHLILSSCLSIGIDGLSSLHCLHKLTLLDLSYTFLINLKPIFDSCPQ LKVLKLSACKYLSDSSLDALYREGALPLLVELDLSYSPIEQNAIEGLLACCSNLVNVNFNGCTN FQELVCESGDSGSVDMPVDSCPPSSPIKNEEISEQPGRLLEVLNCTGCPNIKKVVIPLIANFSH LSKINLNLSTNLKEVDLTCSNLLTLNLRWALNP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Zm00001d014232_circ_g.2

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