Plant Circular RNA Database

Detail information of Zm00001d052416_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d052416_circ_g.1
					
						ID in PlantcircBase
						zma_circ_008188
					
						Alias
						Zm04circ00082
					
						Organism
						
							Zea mays						
					
						Position
						
							chr4: 189490383-189492521  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d052416						
					
						Parent gene annotation
						
							Putative CBL-interacting protein kinase family protein isoform 1
; Putative CBL-interacting protein kinase family protein isoform
 2; Putative CBL-interacting protein kinase family protein isofo
rm 3; Putative CBL-interacting protein kinase family protein iso
form 4  
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d052416_circ_g.2 						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm
					
						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
						Zm00001d052416_T005:9
Zm00001d052416_T001:8
Zm00001d052416_T003:9
Zm00001d052416_T002:9

General Information
CircRNA Name	Zm00001d052416_circ_g.1
ID in PlantcircBase	zma_circ_008188
Alias	Zm04circ00082
Organism	Zea mays
Position	chr4: 189490383-189492521 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2
Parent gene	Zm00001d052416
Parent gene annotation	Putative CBL-interacting protein kinase family protein isoform 1 ; Putative CBL-interacting protein kinase family protein isoform 2; Putative CBL-interacting protein kinase family protein isofo rm 3; Putative CBL-interacting protein kinase family protein iso form 4
Parent gene strand	-
Alternative splicing	Zm00001d052416_circ_g.2
Support reads	NA
Tissues	leaf, endosperm
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	Zm00001d052416_T005:9 Zm00001d052416_T001:8 Zm00001d052416_T003:9 Zm00001d052416_T002:9

			
						 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  
						
							AACTCTGTAAGATCAACAAGAAGACCAAAAAAGGTACCTCGTATATGCGGACGACGTTAGGGTG
CTTGATCAGCTTCATCGTCGAGATCTCCCGCTTGATctgctctgagtcaaataagtttccaagg
tttaggcccgctgacatcgaaatcagttcgaatgcgttcagagctactggttcttcttctttct
tttctgtc

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CTGCTCTGAGTCAAATAAGTTTCCAAGGTTTAGGCCCGCTGACATCGAAATCAGTTCGAATGCG
TTCAGAGCTACTGGTTCTTCTTCTTTCTTTTCTGTCACATGGTGCTCCTGAATGATGGCAAATA
ACAATTGTAAAACTAGTTGGTGAGTAAAACCTGTGACGTTATGCATGAGAAGGAAAATAAAAAT
GCACCATTAACTCACTTCTGAATCATTGAAGACGGCATCCACATCATCCAATGTGGTGTCATAT
TGTTCATCAAATTCTGGGCGCTTGTAGCCCTTTTTGAACCACTCATCCTCTAATATTTCTGGGA
TTGTTATTCTCTGCCATGATTTACCAAAATGTAAGTCTAATCCAATGGAGTAAGATAAAAGTAT
GGAGGCTCATTCATTTTGAAACCAGACTCAGGCTCAGCACATTCTGAACCATCCTCCACTGGAA
GTTACAAATTTTGCATTTTTTTACTGACACAATGGGTTTCATTTTGAGATATGTGCATTGCCAA
ATTGCCTATACCTCTTCTCTAATAGAAAGCTGATGTTTTTTCCTCAACTGCATCTAACAGTGGC
TGCATAATCGTAAGTAAATTAGGAACTTCTAAAATTTGTGTTAATTTGAGTTACATGACAAGTG
CTGGATCGATGGGAATACCAATTAATTAATGGATATTGGCAGCATCAGGTGATCTATGAGCCTA
CTGTAGGATACATTATATGGCGAATGCAGATCTATTCTATCCCATTATCTTAGGATTGCTTGAC
TAGTATTTTTATTTTCATGTAGCTTTTGTGCTCTGGCATACCGTCATTGGATTTGGATCAAGGA
TTCTTGTTAACAACCTCTTGGCAGGAAAAGATGTCCATGGTGGAAATGTAAATTCTGCATTTGA
TATCTGTCAGGAAAAGAAGGGTAAAGTCAGATAAGCATGAATAAGCAAGACTGCAGCAGTGATC
TAAAAGCCATGAATTTCTCACTTTCTTATACAAAGTCATGAGATTAGAATCCTCAAACGGCAAA
TACCCTGCTAGCAGAACAAACAGGATAACTCCACATGACCACAGATCAGCCATTGCTCCATCGT
AGCCTTGATCTTCAAGGACCTATAACAAAGTTGATATAAATATTTAAATGATTGCATTCCTAAC
GAACAGTAATTATAATATGCATTATCGGTTCATTTTATGTACTCTTCTAGCATTACCTCTGGTG
CAACATAGTTTGGAGTCCCACAAGTTGTGTGCAGCAGTCCATCATCCTGAACAGGATAAAGGAG
ACAAGAAACATGCTTAAAAATAACGGTCTGAAGATTTTCCATCTTGAAGGGCTATGGTTATTTT
TGTGGAGCAAAATGTGCTGATTTTTACCCTGTAATTACCCCAGTACTCATTGTTAACTTGTAGA
CATACAAGCAAGAAGCCATTACCTTGATTTGCTGAGATAGCGCGCTGAGCCCAAAGTCAGAGAC
CTTCAGGTTACCATATGAATCAAGCAGCAAATTTTCAGGCTGCAAGCATCACAGTTTAGATTCT
GAAAATAGAGTCCTTGATTGAAGAAAAAAGCACACAGAGAAAACAAGCTTACTTTTAAATCCCG
GTGGTACACACCCCTGCTATGACAATAATCAACTGCATTGATTAACTGTTGGAAGTACCTCCTT
GCCTCGTCTTCCCTCATTCGACCATGGTTAACCTTTGCAGTGAGTAATACAGTTAATCAATGAA
AATCTGTCGGTGATACATCGAAAAACTTTGAGGGCACTGAAACAGTAAGGCTGTGGTGGGTATA
GCAGAAACTGCATAAACTGGAACGGGCAATGTGCATATCACTTACAATTGTATCAAAGAGCTCG
CCACCGGTAGCGAATTCTAACACAATGTAGATCTTTGTTTTACTTCCCATCACCTAGAAATTAT
CGAAAACATCGATTTGTCAGAAAAGATCAGCGTGGGCGCCTGCTCCTCAGTGAAAAGAAACTGT
GCATGCTAAACGATTAGTCTAGGAATTATTCTGGTTTGGTCCTTTCCTGATAAACAACTCTGTA
AGATCAACAAGAAGACCAAAAAAGGTACCTCGTATATGCGGACGACGTTAGGGTGCTTGATCAG
CTTCATCGTCGAGATCTCCCGCTTGAT
						
					

			
		

Sequences
Splice junction sequence	AACTCTGTAAGATCAACAAGAAGACCAAAAAAGGTACCTCGTATATGCGGACGACGTTAGGGTG CTTGATCAGCTTCATCGTCGAGATCTCCCGCTTGATctgctctgagtcaaataagtttccaagg tttaggcccgctgacatcgaaatcagttcgaatgcgttcagagctactggttcttcttctttct tttctgtc
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CTGCTCTGAGTCAAATAAGTTTCCAAGGTTTAGGCCCGCTGACATCGAAATCAGTTCGAATGCG TTCAGAGCTACTGGTTCTTCTTCTTTCTTTTCTGTCACATGGTGCTCCTGAATGATGGCAAATA ACAATTGTAAAACTAGTTGGTGAGTAAAACCTGTGACGTTATGCATGAGAAGGAAAATAAAAAT GCACCATTAACTCACTTCTGAATCATTGAAGACGGCATCCACATCATCCAATGTGGTGTCATAT TGTTCATCAAATTCTGGGCGCTTGTAGCCCTTTTTGAACCACTCATCCTCTAATATTTCTGGGA TTGTTATTCTCTGCCATGATTTACCAAAATGTAAGTCTAATCCAATGGAGTAAGATAAAAGTAT GGAGGCTCATTCATTTTGAAACCAGACTCAGGCTCAGCACATTCTGAACCATCCTCCACTGGAA GTTACAAATTTTGCATTTTTTTACTGACACAATGGGTTTCATTTTGAGATATGTGCATTGCCAA ATTGCCTATACCTCTTCTCTAATAGAAAGCTGATGTTTTTTCCTCAACTGCATCTAACAGTGGC TGCATAATCGTAAGTAAATTAGGAACTTCTAAAATTTGTGTTAATTTGAGTTACATGACAAGTG CTGGATCGATGGGAATACCAATTAATTAATGGATATTGGCAGCATCAGGTGATCTATGAGCCTA CTGTAGGATACATTATATGGCGAATGCAGATCTATTCTATCCCATTATCTTAGGATTGCTTGAC TAGTATTTTTATTTTCATGTAGCTTTTGTGCTCTGGCATACCGTCATTGGATTTGGATCAAGGA TTCTTGTTAACAACCTCTTGGCAGGAAAAGATGTCCATGGTGGAAATGTAAATTCTGCATTTGA TATCTGTCAGGAAAAGAAGGGTAAAGTCAGATAAGCATGAATAAGCAAGACTGCAGCAGTGATC TAAAAGCCATGAATTTCTCACTTTCTTATACAAAGTCATGAGATTAGAATCCTCAAACGGCAAA TACCCTGCTAGCAGAACAAACAGGATAACTCCACATGACCACAGATCAGCCATTGCTCCATCGT AGCCTTGATCTTCAAGGACCTATAACAAAGTTGATATAAATATTTAAATGATTGCATTCCTAAC GAACAGTAATTATAATATGCATTATCGGTTCATTTTATGTACTCTTCTAGCATTACCTCTGGTG CAACATAGTTTGGAGTCCCACAAGTTGTGTGCAGCAGTCCATCATCCTGAACAGGATAAAGGAG ACAAGAAACATGCTTAAAAATAACGGTCTGAAGATTTTCCATCTTGAAGGGCTATGGTTATTTT TGTGGAGCAAAATGTGCTGATTTTTACCCTGTAATTACCCCAGTACTCATTGTTAACTTGTAGA CATACAAGCAAGAAGCCATTACCTTGATTTGCTGAGATAGCGCGCTGAGCCCAAAGTCAGAGAC CTTCAGGTTACCATATGAATCAAGCAGCAAATTTTCAGGCTGCAAGCATCACAGTTTAGATTCT GAAAATAGAGTCCTTGATTGAAGAAAAAAGCACACAGAGAAAACAAGCTTACTTTTAAATCCCG GTGGTACACACCCCTGCTATGACAATAATCAACTGCATTGATTAACTGTTGGAAGTACCTCCTT GCCTCGTCTTCCCTCATTCGACCATGGTTAACCTTTGCAGTGAGTAATACAGTTAATCAATGAA AATCTGTCGGTGATACATCGAAAAACTTTGAGGGCACTGAAACAGTAAGGCTGTGGTGGGTATA GCAGAAACTGCATAAACTGGAACGGGCAATGTGCATATCACTTACAATTGTATCAAAGAGCTCG CCACCGGTAGCGAATTCTAACACAATGTAGATCTTTGTTTTACTTCCCATCACCTAGAAATTAT CGAAAACATCGATTTGTCAGAAAAGATCAGCGTGGGCGCCTGCTCCTCAGTGAAAAGAAACTGT GCATGCTAAACGATTAGTCTAGGAATTATTCTGGTTTGGTCCTTTCCTGATAAACAACTCTGTA AGATCAACAAGAAGACCAAAAAAGGTACCTCGTATATGCGGACGACGTTAGGGTGCTTGATCAG CTTCATCGTCGAGATCTCCCGCTTGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.069008918

Conservation Information
Conserved circRNAs	NA
PMCS	0.069008918

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							189492467-189490662(+)
189492502-189490385(-)
						
						Potential amino acid sequence
						
							MRTTLGCLISFIVEISRLICSESNKFPRFRPADIEISSNAFRATGSSSFFSVTWCSSESLKTAS
TSSNVVSYCSSNSGRL*(+)
MKLIKHPNVVRIYEVMGSKTKIYIVLEFATGGELFDTIVNHGRMREDEARRYFQQLINAVDYCH
SRGVYHRDLKPENLLLDSYGNLKVSDFGLSALSQQIKDDGLLHTTCGTPNYVAPEVLEDQGYDG
AMADLWSCGVILFVLLAGYLPFEDSNLMTLYKKISNAEFTFPPWTSFPAKRLLTRILDPNPMTR
ITIPEILEDEWFKKGYKRPEFDEQYDTTLDDVDAVFNDSEEHHVTEKKEEEPVALNAFELISMS
AGLNLGNLFDSEQIKREISTMKLIKHPNVVRIYEVMGSKTKIYIVLEFATGGELFDTIVNHGRM
REDEARRYFQQLINAVDYCHSRGVYHRDLKPENLLLDSYGNLKVSDFGLSALSQQIKDDGLLHT
TCGTPNYVAPEVLEDQGYDGAMADLWSCGVILFVLLAGYLPFEDSNLMTLYKKISNAEFTFPPW
TSFPAKRLLTRILDPNPMTRITIPEILEDEWFKKGYKRPEFDEQYDTTLDDVDAVFNDSEEHHV
TEKKEEEPVALNAFELISMSAGLNLGNLFDSEQIKREISTMKLIKHPNVVRIYEVMGSKTKIYI
VLEFATGGELFDTIVNHGRMREDEARRYFQQLINAVDYCHSRGVYHRDLKPENLLLDSYGNLKV
SDFGLSALSQQIKDDGLLHTTCGTPNYVAPEVLEDQGYDGAMADLWSCGVILFVLLAGYLPFED
SNLMTLYKKISNAEFTFPPWTSFPAKRLLTRILDPNPMTRITIPEILEDEWFKKGYKRPEFDEQ
YDTTLDDVDAVFNDSEEHHVTEKKEEEPVALNAFELISMSAGLNLGNLFDSEQIKREISTMKLI
KHPNVVRIYEVMGSKTKIYIVLEFATGGELFDTIVNHGRMREDEARRYFQQLINAVDYCHSRGV
YHRDLKPENLLLDSYGNLKVSDFGLSALSQQIKDDGLLHTTCGTPNYVAPEVLEDQGYDGAMAD
LWSCGVILFVLLAGYLPFEDSNLMTLYKKISNAEFTFPPWTSFPAKRLLTRILDPNPMTRITIP
EILEDEWFKKGYKRPEFDEQYDTTLDDVDAVFNDSEEHHVTEKKEEEPVALNAFELISMSAGLN
LGNLFDSEQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	189492467-189490662(+) 189492502-189490385(-)
Potential amino acid sequence	MRTTLGCLISFIVEISRLICSESNKFPRFRPADIEISSNAFRATGSSSFFSVTWCSSESLKTAS TSSNVVSYCSSNSGRL*(+) MKLIKHPNVVRIYEVMGSKTKIYIVLEFATGGELFDTIVNHGRMREDEARRYFQQLINAVDYCH SRGVYHRDLKPENLLLDSYGNLKVSDFGLSALSQQIKDDGLLHTTCGTPNYVAPEVLEDQGYDG AMADLWSCGVILFVLLAGYLPFEDSNLMTLYKKISNAEFTFPPWTSFPAKRLLTRILDPNPMTR ITIPEILEDEWFKKGYKRPEFDEQYDTTLDDVDAVFNDSEEHHVTEKKEEEPVALNAFELISMS AGLNLGNLFDSEQIKREISTMKLIKHPNVVRIYEVMGSKTKIYIVLEFATGGELFDTIVNHGRM REDEARRYFQQLINAVDYCHSRGVYHRDLKPENLLLDSYGNLKVSDFGLSALSQQIKDDGLLHT TCGTPNYVAPEVLEDQGYDGAMADLWSCGVILFVLLAGYLPFEDSNLMTLYKKISNAEFTFPPW TSFPAKRLLTRILDPNPMTRITIPEILEDEWFKKGYKRPEFDEQYDTTLDDVDAVFNDSEEHHV TEKKEEEPVALNAFELISMSAGLNLGNLFDSEQIKREISTMKLIKHPNVVRIYEVMGSKTKIYI VLEFATGGELFDTIVNHGRMREDEARRYFQQLINAVDYCHSRGVYHRDLKPENLLLDSYGNLKV SDFGLSALSQQIKDDGLLHTTCGTPNYVAPEVLEDQGYDGAMADLWSCGVILFVLLAGYLPFED SNLMTLYKKISNAEFTFPPWTSFPAKRLLTRILDPNPMTRITIPEILEDEWFKKGYKRPEFDEQ YDTTLDDVDAVFNDSEEHHVTEKKEEEPVALNAFELISMSAGLNLGNLFDSEQIKREISTMKLI KHPNVVRIYEVMGSKTKIYIVLEFATGGELFDTIVNHGRMREDEARRYFQQLINAVDYCHSRGV YHRDLKPENLLLDSYGNLKVSDFGLSALSQQIKDDGLLHTTCGTPNYVAPEVLEDQGYDGAMAD LWSCGVILFVLLAGYLPFEDSNLMTLYKKISNAEFTFPPWTSFPAKRLLTRILDPNPMTRITIP EILEDEWFKKGYKRPEFDEQYDTTLDDVDAVFNDSEEHHVTEKKEEEPVALNAFELISMSAGLN LGNLFDSEQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d052416_circ_g.1

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