Plant Circular RNA Database

Detail information of Zm00001d032875_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d032875_circ_g.1
					
						ID in PlantcircBase
						zma_circ_006831
					
						Alias
						zma_circ_0000450
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 241215543-241218281  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d032875						
					
						Parent gene annotation
						
							Splicing factor CC1-like
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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
						Zm00001d032875_T016:6
Zm00001d032875_T010:6
Zm00001d032875_T001:6
Zm00001d032875_T017:4
Zm00001d032875_T006:6
Zm00001d032875_T003:6
Zm00001d032875_T007:6
Zm00001d032875_T018:6
Zm00001d032875_T009:6
Zm00001d032875_T002:6
Zm00001d032875_T015:6
Zm00001d032875_T011:6
Zm00001d032875_T014:6
Zm00001d032875_T012:6
Zm00001d032875_T008:6
Zm00001d032875_T004:6
Zm00001d032875_T013:6

General Information
CircRNA Name	Zm00001d032875_circ_g.1
ID in PlantcircBase	zma_circ_006831
Alias	zma_circ_0000450
Organism	Zea mays
Position	chr1: 241215543-241218281 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d032875
Parent gene annotation	Splicing factor CC1-like
Parent gene strand	-
Alternative splicing	NA
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	Zm00001d032875_T016:6 Zm00001d032875_T010:6 Zm00001d032875_T001:6 Zm00001d032875_T017:4 Zm00001d032875_T006:6 Zm00001d032875_T003:6 Zm00001d032875_T007:6 Zm00001d032875_T018:6 Zm00001d032875_T009:6 Zm00001d032875_T002:6 Zm00001d032875_T015:6 Zm00001d032875_T011:6 Zm00001d032875_T014:6 Zm00001d032875_T012:6 Zm00001d032875_T008:6 Zm00001d032875_T004:6 Zm00001d032875_T013:6

			
						 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  
						
							AGCCTCAGATGGTTTAACCATCACTGCTTGTCCAAGCAGCGGTTGACCAGACAGAGCAATTGCC
ATTGGAACAGACATAACGTCGTAAAACTCAATGTACctccaatgctgggtcaaacatgttttta
agcaacaagaattctgtaggtgtagacatggtcacattctgagtggtaacaggaagcacaggtg
ccccagga

									
								

					

						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: 736
Transcript exons: 241215543-241215753,241216281-241216345,241217111-241217
194,241217289-241217363,241217434-241217520,241218068-24
1218281
CTCCAATGCTGGGTCAAACATGTTTTTAAGCAACAAGAATTCTGTAGGTGTAGACATGGTCACA
TTCTGAGTGGTAACAGGAAGCACAGGTGCCCCAGGAACTGATCCAACAGCAGCAACTGTTGGTG
GTAGAAGAGAAGCAGCTCCTGGAGCCCCAATAACAGAAGTAGCTGGTACAGCCACACCAGCAGC
ACCAATACCACGAGTTAAGCTGGTCGCAGTACCACTCCTGTCCAATTTGAGCATTAGAGCAGCT
CTGGAACTTGCATTTAGTGCCAAGCCTCCACCTTCATCGTCATCTAAATCTCCAGTAGTTGCTC
CACTAGCTTGCATTCCCACATGATCGGTAACAGCTGAAACCTTAATAACTCTGCCAGCGATATC
AAGCTGCCCATTCAAGCTCTGTGCAGCTTTTGCATCTTCAAGCCGTGCAAACTGAATAAAACCA
TAACCTTTGCACAATCCAGTCATTGGATCTACAGGAAGCTGTACAAGCTCTACTTGCCCAAATG
GTTCAAATACCTGTCTCAATTGGTCTTCAGTAATATTTGAGTGAAGATTGCCAACATACAACTT
TCTTGCTCCACCTGAAGCCGCACCACCTGATGTCGCATTTGACTGAACTAAGTTCTTTTCAGCC
TCAGATGGTTTAACCATCACTGCTTGTCCAAGCAGCGGTTGACCAGACAGAGCAATTGCCATTG
GAACAGACATAACGTCGTAAAACTCAATGTAC
						
					

						Genomic sequence
						
							CTCCAATGCTGGGTCAAACATGTTTTTAAGCAACAAGAATTCTGTAGGTGTAGACATGGTCACA
TTCTGAGTGGTAACAGGAAGCACAGGTGCCCCAGGAACTGATCCAACAGCAGCAACTGTTGGTG
GTAGAAGAGAAGCAGCTCCTGGAGCCCCAATAACAGAAGTAGCTGGTACAGCCACACCAGCAGC
ACCAATACCACGAGTTAAGCTGTAGATAATAACCAAGAGAAGTCAACAAAACAAAAACAGCAAA
TTATTTAGTATAACTATATCTGAGGCAACCACAACTCTGTCGATAATAAAATAAGCTCCATAAG
GGATGAACTTCACAATCAACATCCAGGAAAAATAAATCCTGATGCTAATATGTATCAGTCAAAT
AGGCTTCGGTACAAAACAATGATCCCAATATGCTTTAATTAGCAAATTCATAAAGGACTTTCAC
TCTATTTATCTAATTCTTCAAAGCATTGAAACCCCATCTCCAATGGTATGTTGGAGGTGACAGC
AATCTGTGGACGATCACTGAATAACACCATAGGACATAAGCTAGAGGTGTGCAGTGCAACCTTG
TTAACCTGGTTTTAGTATAGCTTCACAAATTGACAAAAGATTTTAATATACTATTGAAAATTAA
CCCTAGTTAAAGAAGCTAACAGCCGAAGGAAATCAGGAATGAAGGCAAATTGATTGAGTCATGC
GATGTGCACTCTGTTAGGAAAGACTAACAAATACCTGGTCGCAGTACCACTCCTGTCCAATTTG
AGCATTAGAGCAGCTCTGGAACTTGCATTTAGTGCCTGCACATGTTTAACAAATGCATCAAATA
GAGCAAAATCTTCCAGCAAGAAGCATTGATGTATGTAGGATGACTGGTAGGGCATCCCATTCCC
CAGTTTTCACCTATAGCATAATGCATTAATGCCAAACTACCAAGTGAAGTGGTAACATTAAAAC
AGTTTAGATGCTATAAAGGTCTGAATGACGAAAAAAATCAAGGTGAATGTAAGTATTCATACGT
TTAGCCCCATACATTCATTTCCAGAACATTGCCAATTATTCAAGATACGGCAGAATACAAACAG
CACAATTTATATGAATCCAGCTATGATATGCAACCAGGCCCAGCTGTTCTCCTTTTCTGACATG
TAGCTTGCAAATTATAGTAATATAGAAGATAAAATAATATGAAATTCTTATGAGTAGAAGTAGT
CACAAACATGATTCCACTATGTACATTCTAGCTTTCCTATCCTATCATATACAACTCGGCAAGT
CCTTTCAATGTGAAACCCTTCTATCCAAAGGGCTAAGAACATTACATATCTTGATAGTTGCATA
ATGCTTCAGAAAAAATAAATCATATCAACATATTTTTTGTAAGATTATTGTATGTGTAACGGAA
CCTCCGAAAATTGTGAAGGTTCTGTTTGTAATATATGTGCAAGGTTAAATCCTCTGTTTTGCCA
GTTTGCCCAAAAATCGAAGTACAAAAACTTAGAAAAGGCATAGAAATCCCAGTTTATAAGGTTA
TCCAACATGTTGAACCAAATAAGTTGACCCACCAAGCCTCCACCTTCATCGTCATCTAAATCTC
CAGTAGTTGCTCCACTAGCTTGCATTCCCACATGATCGGTAACAGCTGAAACCTGGTTATGGGG
AAAAACAATGATCTTAATTGGATGGACTATTGTCAACCATGTATATCTGTTCCATAAACCACAT
GACTGCTAGAAATGCTACCTTAATAACTCTGCCAGCGATATCAAGCTGCCCATTCAAGCTCTGT
GCAGCTTTTGCATCTTCAAGCCGTGCAAACTGCATGGCACAACATAGTAAGAATAAACACAGAC
ATGGTCAGTGGTGGAGCTTCAGGGAAAAAACTTACCTGAATAAAACCATAACCTTTGCACAATC
CAGTCATTGGATCTACAGGAAGCTGTACAAGCTCTACTTGCCCAAATGGTTCAAATACCTGGAG
ACAGAAATTTATCATCACACACAATGGATAGTGAGGAACTAAATACAAGTAGCAGTCATTCAGT
CATTCCTATTCGGACATAATAAAAGGCATCCTTAACTAGAACATGATTATAAAATATTGACTTC
GAGAACTGAGTCTCCACAAAACAAAATGCACAAACAAACAAAACTATTTTGTTACTTGTTTTGG
TCACATAAAATTTTAGGCACCACAAGTAAAAACCCTGTAACTCACGTGACCAACTGAAGCCCAA
CAGGTACTCCCTCCGTTTCTTTTTATTTGTCGCTGGATAGTGCAAAATTACACTATTCAGCGAC
AAATAAAAAGAAACGGAGGGAGTATTTAGTATGCCTTATTAAAATGAAGTACCAATGTATCCCA
ATACATAAGCAAATTAAGTAACTGACAAAACATACTAAAAACTTCTGCTATAACCTCGATGGGT
TTTTTCCCATCAATAAAATCATATAGTGAAAAAAGGAAAGATAAATGAATAACTTATAAGCTGG
GTAAGAATACTAGATCATATCTAATATACCTGTCTCAATTGGTCTTCAGTAATATTTGAGTGAA
GATTGCCAACATACAACTTTCTTGCTCCACCTGAAGCCGCACCACCTGATGTCGCATTTGACTG
AACTAAGTTCTTTTCAGCCTCAGATGGTTTAACCATCACTGCTTGTCCAAGCAGCGGTTGACCA
GACAGAGCAATTGCCATTGGAACAGACATAACGTCGTAAAACTCAATGTAC
						
					

			
		

Sequences
Splice junction sequence	AGCCTCAGATGGTTTAACCATCACTGCTTGTCCAAGCAGCGGTTGACCAGACAGAGCAATTGCC ATTGGAACAGACATAACGTCGTAAAACTCAATGTACctccaatgctgggtcaaacatgttttta agcaacaagaattctgtaggtgtagacatggtcacattctgagtggtaacaggaagcacaggtg ccccagga
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: 736 Transcript exons: 241215543-241215753,241216281-241216345,241217111-241217 194,241217289-241217363,241217434-241217520,241218068-24 1218281 CTCCAATGCTGGGTCAAACATGTTTTTAAGCAACAAGAATTCTGTAGGTGTAGACATGGTCACA TTCTGAGTGGTAACAGGAAGCACAGGTGCCCCAGGAACTGATCCAACAGCAGCAACTGTTGGTG GTAGAAGAGAAGCAGCTCCTGGAGCCCCAATAACAGAAGTAGCTGGTACAGCCACACCAGCAGC ACCAATACCACGAGTTAAGCTGGTCGCAGTACCACTCCTGTCCAATTTGAGCATTAGAGCAGCT CTGGAACTTGCATTTAGTGCCAAGCCTCCACCTTCATCGTCATCTAAATCTCCAGTAGTTGCTC CACTAGCTTGCATTCCCACATGATCGGTAACAGCTGAAACCTTAATAACTCTGCCAGCGATATC AAGCTGCCCATTCAAGCTCTGTGCAGCTTTTGCATCTTCAAGCCGTGCAAACTGAATAAAACCA TAACCTTTGCACAATCCAGTCATTGGATCTACAGGAAGCTGTACAAGCTCTACTTGCCCAAATG GTTCAAATACCTGTCTCAATTGGTCTTCAGTAATATTTGAGTGAAGATTGCCAACATACAACTT TCTTGCTCCACCTGAAGCCGCACCACCTGATGTCGCATTTGACTGAACTAAGTTCTTTTCAGCC TCAGATGGTTTAACCATCACTGCTTGTCCAAGCAGCGGTTGACCAGACAGAGCAATTGCCATTG GAACAGACATAACGTCGTAAAACTCAATGTAC
Genomic sequence	CTCCAATGCTGGGTCAAACATGTTTTTAAGCAACAAGAATTCTGTAGGTGTAGACATGGTCACA TTCTGAGTGGTAACAGGAAGCACAGGTGCCCCAGGAACTGATCCAACAGCAGCAACTGTTGGTG GTAGAAGAGAAGCAGCTCCTGGAGCCCCAATAACAGAAGTAGCTGGTACAGCCACACCAGCAGC ACCAATACCACGAGTTAAGCTGTAGATAATAACCAAGAGAAGTCAACAAAACAAAAACAGCAAA TTATTTAGTATAACTATATCTGAGGCAACCACAACTCTGTCGATAATAAAATAAGCTCCATAAG GGATGAACTTCACAATCAACATCCAGGAAAAATAAATCCTGATGCTAATATGTATCAGTCAAAT AGGCTTCGGTACAAAACAATGATCCCAATATGCTTTAATTAGCAAATTCATAAAGGACTTTCAC TCTATTTATCTAATTCTTCAAAGCATTGAAACCCCATCTCCAATGGTATGTTGGAGGTGACAGC AATCTGTGGACGATCACTGAATAACACCATAGGACATAAGCTAGAGGTGTGCAGTGCAACCTTG TTAACCTGGTTTTAGTATAGCTTCACAAATTGACAAAAGATTTTAATATACTATTGAAAATTAA CCCTAGTTAAAGAAGCTAACAGCCGAAGGAAATCAGGAATGAAGGCAAATTGATTGAGTCATGC GATGTGCACTCTGTTAGGAAAGACTAACAAATACCTGGTCGCAGTACCACTCCTGTCCAATTTG AGCATTAGAGCAGCTCTGGAACTTGCATTTAGTGCCTGCACATGTTTAACAAATGCATCAAATA GAGCAAAATCTTCCAGCAAGAAGCATTGATGTATGTAGGATGACTGGTAGGGCATCCCATTCCC CAGTTTTCACCTATAGCATAATGCATTAATGCCAAACTACCAAGTGAAGTGGTAACATTAAAAC AGTTTAGATGCTATAAAGGTCTGAATGACGAAAAAAATCAAGGTGAATGTAAGTATTCATACGT TTAGCCCCATACATTCATTTCCAGAACATTGCCAATTATTCAAGATACGGCAGAATACAAACAG CACAATTTATATGAATCCAGCTATGATATGCAACCAGGCCCAGCTGTTCTCCTTTTCTGACATG TAGCTTGCAAATTATAGTAATATAGAAGATAAAATAATATGAAATTCTTATGAGTAGAAGTAGT CACAAACATGATTCCACTATGTACATTCTAGCTTTCCTATCCTATCATATACAACTCGGCAAGT CCTTTCAATGTGAAACCCTTCTATCCAAAGGGCTAAGAACATTACATATCTTGATAGTTGCATA ATGCTTCAGAAAAAATAAATCATATCAACATATTTTTTGTAAGATTATTGTATGTGTAACGGAA CCTCCGAAAATTGTGAAGGTTCTGTTTGTAATATATGTGCAAGGTTAAATCCTCTGTTTTGCCA GTTTGCCCAAAAATCGAAGTACAAAAACTTAGAAAAGGCATAGAAATCCCAGTTTATAAGGTTA TCCAACATGTTGAACCAAATAAGTTGACCCACCAAGCCTCCACCTTCATCGTCATCTAAATCTC CAGTAGTTGCTCCACTAGCTTGCATTCCCACATGATCGGTAACAGCTGAAACCTGGTTATGGGG AAAAACAATGATCTTAATTGGATGGACTATTGTCAACCATGTATATCTGTTCCATAAACCACAT GACTGCTAGAAATGCTACCTTAATAACTCTGCCAGCGATATCAAGCTGCCCATTCAAGCTCTGT GCAGCTTTTGCATCTTCAAGCCGTGCAAACTGCATGGCACAACATAGTAAGAATAAACACAGAC ATGGTCAGTGGTGGAGCTTCAGGGAAAAAACTTACCTGAATAAAACCATAACCTTTGCACAATC CAGTCATTGGATCTACAGGAAGCTGTACAAGCTCTACTTGCCCAAATGGTTCAAATACCTGGAG ACAGAAATTTATCATCACACACAATGGATAGTGAGGAACTAAATACAAGTAGCAGTCATTCAGT CATTCCTATTCGGACATAATAAAAGGCATCCTTAACTAGAACATGATTATAAAATATTGACTTC GAGAACTGAGTCTCCACAAAACAAAATGCACAAACAAACAAAACTATTTTGTTACTTGTTTTGG TCACATAAAATTTTAGGCACCACAAGTAAAAACCCTGTAACTCACGTGACCAACTGAAGCCCAA CAGGTACTCCCTCCGTTTCTTTTTATTTGTCGCTGGATAGTGCAAAATTACACTATTCAGCGAC AAATAAAAAGAAACGGAGGGAGTATTTAGTATGCCTTATTAAAATGAAGTACCAATGTATCCCA ATACATAAGCAAATTAAGTAACTGACAAAACATACTAAAAACTTCTGCTATAACCTCGATGGGT TTTTTCCCATCAATAAAATCATATAGTGAAAAAAGGAAAGATAAATGAATAACTTATAAGCTGG GTAAGAATACTAGATCATATCTAATATACCTGTCTCAATTGGTCTTCAGTAATATTTGAGTGAA GATTGCCAACATACAACTTTCTTGCTCCACCTGAAGCCGCACCACCTGATGTCGCATTTGACTG AACTAAGTTCTTTTCAGCCTCAGATGGTTTAACCATCACTGCTTGTCCAAGCAGCGGTTGACCA GACAGAGCAATTGCCATTGGAACAGACATAACGTCGTAAAACTCAATGTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.095989263

Conservation Information
Conserved circRNAs	NA
PMCS	0.095989263

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							241218277-241215644(+)
241218261-241218275(-)
						
						Potential amino acid sequence
						
							MYLQCWVKHVFKQQEFCRCRHGHILSGNRKHRCPRN*(+)
MSVPMAIALSGQPLLGQAVMVKPSEAEKNLVQSNATSGGAASGGARKLYVGNLHSNITEDQLRQ
VFEPFGQVELVQLPVDPMTGLCKGYGFIQFARLEDAKAAQSLNGQLDIAGRVIKVSAVTDHVGM
QASGATTGDLDDDEGGGLALNASSRAALMLKLDRSGTATSLTRGIGAAGVAVPATSVIGAPGAA
SLLPPTVAAVGSVPGAPVLPVTTQNVTMSTPTEFLLLKNMFDPALEVH*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	241218277-241215644(+) 241218261-241218275(-)
Potential amino acid sequence	MYLQCWVKHVFKQQEFCRCRHGHILSGNRKHRCPRN(+) MSVPMAIALSGQPLLGQAVMVKPSEAEKNLVQSNATSGGAASGGARKLYVGNLHSNITEDQLRQ VFEPFGQVELVQLPVDPMTGLCKGYGFIQFARLEDAKAAQSLNGQLDIAGRVIKVSAVTDHVGM QASGATTGDLDDDEGGGLALNASSRAALMLKLDRSGTATSLTRGIGAAGVAVPATSVIGAPGAA SLLPPTVAAVGSVPGAPVLPVTTQNVTMSTPTEFLLLKNMFDPALEVH(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d032875_circ_g.1

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