Plant Circular RNA Database

Detail information of Zm00001d021846_circ_g.3

			
						 General Information
					
						CircRNA Name
						Zm00001d021846_circ_g.3
					
						ID in PlantcircBase
						zma_circ_009443
					
						Alias
						zma_circ_0002625, GRMZM2G081155_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr7: 164393581-164394950  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d021846						
					
						Parent gene annotation
						
							Insulin-degrading enzyme-like 1 peroxisomal
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d021846_circ_g.1 Zm00001d021846_circ_g.2 Zm00001d021846_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
						Zm00001d021846_T005:1
Zm00001d021846_T012:5
Zm00001d021846_T023:2
Zm00001d021846_T016:5
Zm00001d021846_T001:4
Zm00001d021846_T018:5
Zm00001d021846_T008:5
Zm00001d021846_T020:5
Zm00001d021846_T004:4
Zm00001d021846_T006:5
Zm00001d021846_T021:5
Zm00001d021846_T010:5
Zm00001d021846_T013:5
Zm00001d021846_T007:5
Zm00001d021846_T002:5
Zm00001d021846_T015:5

General Information
CircRNA Name	Zm00001d021846_circ_g.3
ID in PlantcircBase	zma_circ_009443
Alias	zma_circ_0002625, GRMZM2G081155_C1
Organism	Zea mays
Position	chr7: 164393581-164394950 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d021846
Parent gene annotation	Insulin-degrading enzyme-like 1 peroxisomal
Parent gene strand	-
Alternative splicing	Zm00001d021846_circ_g.1 Zm00001d021846_circ_g.2 Zm00001d021846_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	Zm00001d021846_T005:1 Zm00001d021846_T012:5 Zm00001d021846_T023:2 Zm00001d021846_T016:5 Zm00001d021846_T001:4 Zm00001d021846_T018:5 Zm00001d021846_T008:5 Zm00001d021846_T020:5 Zm00001d021846_T004:4 Zm00001d021846_T006:5 Zm00001d021846_T021:5 Zm00001d021846_T010:5 Zm00001d021846_T013:5 Zm00001d021846_T007:5 Zm00001d021846_T002:5 Zm00001d021846_T015:5

			
						 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  
						
							ATGGCCATGTTTGGTCCTCCAGTATTAGCGAACAATAATATAGGACTTGTTGGTATGGCTGCCG
AAACTTGAAATTCTCATACTCCTTTGTCATAGCTTCcttgaactctgcatcagacatattgtag
acattgctttcaaacatgttgagaaaattttcaactctggcatccagattagcaggatcctatt
gaaattgt

									
								

					

						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: 675
Transcript exons: 164393581-164393667,164393800-164393851,164393949-164394
073,164394404-164394612,164394749-164394950
CTTGAACTCTGCATCAGACATATTGTAGACATTGCTTTCAAACATGTTGAGAAAATTTTCAACT
CTGGCATCCAGATTAGCAGGATCCTTCACCGTTGACTGGATTATAAATTGCAACCCACGGACAC
CTGAATCATTTCTTTGCCTAAGAAGCGCTATGTAGCCAAGTTGCTCAACTGATCGCAATTGATG
AAAAGCTGGCTGCTTGCCAACAAGAGCAAGTAGTTGAAGTAGAACATTTTGCTTAACATTATCC
TGATGAGTCTGAATATAGTGCAGAAGAGCAGAATTTTCATCTTGGTGATTTGAGCACATTGCTG
GATAATAGTATCTCAAACCCTTCTCAAGCTTTACAATCCTCTTGGCAAGATGCTGCGATGGGGA
TAGTGGCTTGCAAGCACTAATTGGTGCATTGAATAAGACATCTTCAACATGTTGAACGATATTG
TTTGCTTCATTGGGTTCAATATTACCTGCAAAATAACACTCGATGAAGGTTTTTGATAGCAAAT
GGGGCAAAAAAATTCCCAGATCACTAGCTTCAAGGTGAGAAAGTGCAGAAAATTCCTCATCCCA
TGGCCATGTTTGGTCCTCCAGTATTAGCGAACAATAATATAGGACTTGTTGGTATGGCTGCCGA
AACTTGAAATTCTCATACTCCTTTGTCATAGCTTC
						
					

						Genomic sequence
						
							CTTGAACTCTGCATCAGACATATTGTAGACATTGCTTTCAAACATGTTGAGAAAATTTTCAACT
CTGGCATCCAGATTAGCAGGATCCTATTGAAATTGTACTGAATTTATTAGAGCCGAAGAGTAAT
TACACGTTCAAAAGAAGCACTAGAACTGTGAAGAGGATATTTTAAAAATAAATAACAGAAATGG
ATAAACTTTGTAATTAAGTATATTTACCTTCACCGTTGACTGGATTATAAATTGCAACCCACGG
ACACCTGAATCATTTCTGGGCGAAACACAGGTACACATTTTATTGCCAAATACATTACACAAAA
ATAAAAGATTCTCATGTAACCATAAAAATAAGAAAGGGTTCCTTGTACCTTTGCCTAAGAAGCG
CTATGTAGCCAAGTTGCTCAACTGATCGCAATTGATGAAAAGCTGGCTGCTTGCCAACAAGAGC
AAGTAGTTGAAGTAGAACATTTTGCTTAACATTATCCTGATGAGTCTGCAAATATGATTCTTAT
AGCGTTATGTTGTGTAGCAGGTAACAAATCCAGAGTCCTGGCACAATGTAATTGATCCAGGCAT
GGTACAATGGAATTGATACGAGCATGCATAAAATTACAGAACAGGACTACGTGAGCGTCAACTA
TGTCGCACAGTTAACATGGTGTAGCACTATGATATCCATTAGGTTAATCACCTAAATTTACTAC
TATATGCAGATTAAACATATGAATCTTTCAATAGCACATTTTTAGAATCAATTGGTATTACTTA
AGAGGTACTTCTCACTGAAAACAATCATTCAAGAAGAAAAGTATAGAAAGCATGCCTGAATATA
GTGCAGAAGAGCAGAATTTTCATCTTGGTGATTTGAGCACATTGCTGGATAATAGTATCTCAAA
CCCTTCTCAAGCTTTACAATCCTCTTGGCAAGATGCTGCGATGGGGATAGTGGCTTGCAAGCAC
TAATTGGTGCATTGAATAAGACATCTTCAACATGTTGAACGATATTGTTTGCTTCATTGGGTTC
AATATTACCTGAAAATGATATATGCAGTTAAGAAGGGTAAGAATGAAGAGTATCGTCAGTCAAG
ACAGAAAATATGAAACAAGGGTATTAAATCAAATTCTTTTGAGGATGTATCAAATATTCCAGTC
AACTAAATAGATAAACCTGCAAAATAACACTCGATGAAGGTTTTTGATAGCAAATGGGGCAAAA
AAATTCCCAGATCACTAGCTTCAAGGTGAGAAAGTGCAGAAAATTCCTCATCCCATGGCCATGT
TTGGTCCTCCAGTATTAGCGAACAATAATATAGGACTTGTTGGTATGGCTGCCGAAACTTGAAA
TTCTCATACTCCTTTGTCATAGCTTC
						
					

			
		

Sequences
Splice junction sequence	ATGGCCATGTTTGGTCCTCCAGTATTAGCGAACAATAATATAGGACTTGTTGGTATGGCTGCCG AAACTTGAAATTCTCATACTCCTTTGTCATAGCTTCcttgaactctgcatcagacatattgtag acattgctttcaaacatgttgagaaaattttcaactctggcatccagattagcaggatcctatt gaaattgt
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: 675 Transcript exons: 164393581-164393667,164393800-164393851,164393949-164394 073,164394404-164394612,164394749-164394950 CTTGAACTCTGCATCAGACATATTGTAGACATTGCTTTCAAACATGTTGAGAAAATTTTCAACT CTGGCATCCAGATTAGCAGGATCCTTCACCGTTGACTGGATTATAAATTGCAACCCACGGACAC CTGAATCATTTCTTTGCCTAAGAAGCGCTATGTAGCCAAGTTGCTCAACTGATCGCAATTGATG AAAAGCTGGCTGCTTGCCAACAAGAGCAAGTAGTTGAAGTAGAACATTTTGCTTAACATTATCC TGATGAGTCTGAATATAGTGCAGAAGAGCAGAATTTTCATCTTGGTGATTTGAGCACATTGCTG GATAATAGTATCTCAAACCCTTCTCAAGCTTTACAATCCTCTTGGCAAGATGCTGCGATGGGGA TAGTGGCTTGCAAGCACTAATTGGTGCATTGAATAAGACATCTTCAACATGTTGAACGATATTG TTTGCTTCATTGGGTTCAATATTACCTGCAAAATAACACTCGATGAAGGTTTTTGATAGCAAAT GGGGCAAAAAAATTCCCAGATCACTAGCTTCAAGGTGAGAAAGTGCAGAAAATTCCTCATCCCA TGGCCATGTTTGGTCCTCCAGTATTAGCGAACAATAATATAGGACTTGTTGGTATGGCTGCCGA AACTTGAAATTCTCATACTCCTTTGTCATAGCTTC
Genomic sequence	CTTGAACTCTGCATCAGACATATTGTAGACATTGCTTTCAAACATGTTGAGAAAATTTTCAACT CTGGCATCCAGATTAGCAGGATCCTATTGAAATTGTACTGAATTTATTAGAGCCGAAGAGTAAT TACACGTTCAAAAGAAGCACTAGAACTGTGAAGAGGATATTTTAAAAATAAATAACAGAAATGG ATAAACTTTGTAATTAAGTATATTTACCTTCACCGTTGACTGGATTATAAATTGCAACCCACGG ACACCTGAATCATTTCTGGGCGAAACACAGGTACACATTTTATTGCCAAATACATTACACAAAA ATAAAAGATTCTCATGTAACCATAAAAATAAGAAAGGGTTCCTTGTACCTTTGCCTAAGAAGCG CTATGTAGCCAAGTTGCTCAACTGATCGCAATTGATGAAAAGCTGGCTGCTTGCCAACAAGAGC AAGTAGTTGAAGTAGAACATTTTGCTTAACATTATCCTGATGAGTCTGCAAATATGATTCTTAT AGCGTTATGTTGTGTAGCAGGTAACAAATCCAGAGTCCTGGCACAATGTAATTGATCCAGGCAT GGTACAATGGAATTGATACGAGCATGCATAAAATTACAGAACAGGACTACGTGAGCGTCAACTA TGTCGCACAGTTAACATGGTGTAGCACTATGATATCCATTAGGTTAATCACCTAAATTTACTAC TATATGCAGATTAAACATATGAATCTTTCAATAGCACATTTTTAGAATCAATTGGTATTACTTA AGAGGTACTTCTCACTGAAAACAATCATTCAAGAAGAAAAGTATAGAAAGCATGCCTGAATATA GTGCAGAAGAGCAGAATTTTCATCTTGGTGATTTGAGCACATTGCTGGATAATAGTATCTCAAA CCCTTCTCAAGCTTTACAATCCTCTTGGCAAGATGCTGCGATGGGGATAGTGGCTTGCAAGCAC TAATTGGTGCATTGAATAAGACATCTTCAACATGTTGAACGATATTGTTTGCTTCATTGGGTTC AATATTACCTGAAAATGATATATGCAGTTAAGAAGGGTAAGAATGAAGAGTATCGTCAGTCAAG ACAGAAAATATGAAACAAGGGTATTAAATCAAATTCTTTTGAGGATGTATCAAATATTCCAGTC AACTAAATAGATAAACCTGCAAAATAACACTCGATGAAGGTTTTTGATAGCAAATGGGGCAAAA AAATTCCCAGATCACTAGCTTCAAGGTGAGAAAGTGCAGAAAATTCCTCATCCCATGGCCATGT TTGGTCCTCCAGTATTAGCGAACAATAATATAGGACTTGTTGGTATGGCTGCCGAAACTTGAAA TTCTCATACTCCTTTGTCATAGCTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.153602692

Conservation Information
Conserved circRNAs	NA
PMCS	0.153602692

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							164394946-164393583(-)
164393653-164394943(-)
						
						Potential amino acid sequence
						
							MTKEYENFKFRQPYQQVLYYCSLILEDQTWPWDEEFSALSHLEASDLGIFLPHLLSKTFIECYF
AGNIEPNEANNIVQHVEDVLFNAPISACKPLSPSQHLAKRIVKLEKGLRYYYPAMCSNHQDENS
ALLHYIQTHQDNVKQNVLLQLLALVGKQPAFHQLRSVEQLGYIALLRQRNDSGVRGLQFIIQST
VKDPANLDARVENFLNMFESNVYNMSDAEFKEAMTKEYENFKFRQPYQQVLYYCSLILEDQTWP
WDEEFSALSHLEASDLGIFLPHLLSKTFIECYFAGNIEPNEANNIVQHVEDVLFNAPISACKPL
SPSQHLAKRIVKLEKGLRYYYPAMCSNHQDENSALLHYIQTHQDNVKQNVLLQLLALVGKQPAF
HQLRSVEQLGYIALLRQRNDSGVRGLQFIIQSTVKDPANLDARVENFLNMFESNVYNMSDAEFK
EAMTKEYENFKFRQPYQQVLYYCSLILEDQTWPWDEEFSALSHLEASDLGIFLPHLLSKTFIEC
YFAGNIEPNEANNIVQHVEDVLFNAPISACKPLSPSQHLAKRIVKLEKGLRYYYPAMCSNHQDE
NSALLHYIQTHQDNVKQNVLLQLLALVGKQPAFHQLRSVEQLGYIALLRQRNDSGVRGLQFIIQ
STVKDPANLDARVENFLNMFESNVYNMSDAEFKEAMTKEYENFKFRQPYQQVLYYCSLILEDQT
WPWDEEFSALSHLEASDLGIFLPHLLSKTFIECYFAGNIEPNEANNIVQHVEDVLFNAPISACK
PLSPSQHLAKRIVKLEKGLRYYYPAMCSNHQDENSALLHYIQTHQDNVKQNVLLQLLALVGKQP
AFHQLRSVEQLGYIALLRQRNDSGVRGLQFIIQSTVKDPANLDARVENFLNMFESNVYNMSDAE
FK(-)
MPELKIFSTCLKAMSTICLMQSSRKL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	164394946-164393583(-) 164393653-164394943(-)
Potential amino acid sequence	MTKEYENFKFRQPYQQVLYYCSLILEDQTWPWDEEFSALSHLEASDLGIFLPHLLSKTFIECYF AGNIEPNEANNIVQHVEDVLFNAPISACKPLSPSQHLAKRIVKLEKGLRYYYPAMCSNHQDENS ALLHYIQTHQDNVKQNVLLQLLALVGKQPAFHQLRSVEQLGYIALLRQRNDSGVRGLQFIIQST VKDPANLDARVENFLNMFESNVYNMSDAEFKEAMTKEYENFKFRQPYQQVLYYCSLILEDQTWP WDEEFSALSHLEASDLGIFLPHLLSKTFIECYFAGNIEPNEANNIVQHVEDVLFNAPISACKPL SPSQHLAKRIVKLEKGLRYYYPAMCSNHQDENSALLHYIQTHQDNVKQNVLLQLLALVGKQPAF HQLRSVEQLGYIALLRQRNDSGVRGLQFIIQSTVKDPANLDARVENFLNMFESNVYNMSDAEFK EAMTKEYENFKFRQPYQQVLYYCSLILEDQTWPWDEEFSALSHLEASDLGIFLPHLLSKTFIEC YFAGNIEPNEANNIVQHVEDVLFNAPISACKPLSPSQHLAKRIVKLEKGLRYYYPAMCSNHQDE NSALLHYIQTHQDNVKQNVLLQLLALVGKQPAFHQLRSVEQLGYIALLRQRNDSGVRGLQFIIQ STVKDPANLDARVENFLNMFESNVYNMSDAEFKEAMTKEYENFKFRQPYQQVLYYCSLILEDQT WPWDEEFSALSHLEASDLGIFLPHLLSKTFIECYFAGNIEPNEANNIVQHVEDVLFNAPISACK PLSPSQHLAKRIVKLEKGLRYYYPAMCSNHQDENSALLHYIQTHQDNVKQNVLLQLLALVGKQP AFHQLRSVEQLGYIALLRQRNDSGVRGLQFIIQSTVKDPANLDARVENFLNMFESNVYNMSDAE FK(-) MPELKIFSTCLKAMSTICLMQSSRKL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

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

circRNA

Detail information of Zm00001d021846_circ_g.3

Address

Any questions?

Supported by