Plant Circular RNA Database

Detail information of Zm00001d014294_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d014294_circ_g.5
					
						ID in PlantcircBase
						zma_circ_008452
					
						Alias
						Zm05circ00033
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 39812642-39813403  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d014294						
					
						Parent gene annotation
						
							Acetyl-CoA carboxylase 1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d014294_circ_g.4 Zm00001d014294_circ_g.6 						
					
						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-GC							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
						Zm00001d014294_T001:4
Zm00001d014294_T008:4
Zm00001d014294_T018:4
Zm00001d014294_T031:1
Zm00001d014294_T007:4
Zm00001d014294_T004:3
Zm00001d014294_T009:4
Zm00001d014294_T015:3
Zm00001d014294_T017:4
Zm00001d014294_T033:4
Zm00001d014294_T011:4
Zm00001d014294_T020:4
Zm00001d014294_T003:3
Zm00001d014294_T002:4
Zm00001d014294_T005:4
Zm00001d014294_T028:4

General Information
CircRNA Name	Zm00001d014294_circ_g.5
ID in PlantcircBase	zma_circ_008452
Alias	Zm05circ00033
Organism	Zea mays
Position	chr5: 39812642-39813403 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2
Parent gene	Zm00001d014294
Parent gene annotation	Acetyl-CoA carboxylase 1
Parent gene strand	-
Alternative splicing	Zm00001d014294_circ_g.4 Zm00001d014294_circ_g.6
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-GC 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	Zm00001d014294_T001:4 Zm00001d014294_T008:4 Zm00001d014294_T018:4 Zm00001d014294_T031:1 Zm00001d014294_T007:4 Zm00001d014294_T004:3 Zm00001d014294_T009:4 Zm00001d014294_T015:3 Zm00001d014294_T017:4 Zm00001d014294_T033:4 Zm00001d014294_T011:4 Zm00001d014294_T020:4 Zm00001d014294_T003:3 Zm00001d014294_T002:4 Zm00001d014294_T005:4 Zm00001d014294_T028:4

			
						 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  
						
							CACCAACGTATTGAACACACTTAGCAAGCTGCCTTGCTGCCTGCTCAAGCTCTTTAACAGTGTC
TGGAGCAGCAATTGTGATTGGCCCCTCTTCAATAATcttaacagagaaataggcccaaacattt
ggtttgcttttaaagtttaactcctgatggaaaaatacaagagaatataagttaacatatgggt
aagcacaa

						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: 507
Transcript exons: 39812642-39812692,39812786-39812973,39813048-39813141,39
813230-39813403
CTTAACAGAGAAATAGGCCCAAACATTTGGTTTGCTTTTAAAGTTTAACTCCTCCACTCTTCCA
CTTGTAGGCTTAAACCCATCATCAGGATCCTCACTTGTAACTCTAACTGCAACACAATGGCCCT
TTGGCCTCACTGACTGTGCTTTATCCAAATCAAACTTAGTTGCAACAGCAGATATTGTCCTCCA
ATTATGGTAGCCGCCCCCATGATCCATTCCATAAAAGCGTCTAATCTCTGGAATGTTATAAAGG
GGTATGCCCATTCCGACTGCAACTTGGGCTGCTGGCAAGTTTATTTCAGCTATCCATTCAGTCA
CAGGATGTTCTACCTGCAACCGTGGATTAAGCTCCAGAAAATAGTACTCGCCCGTTTCCATGCT
GTACAGATATTCTACAGTAGCAGCACCAACGTATTGAACACACTTAGCAAGCTGCCTTGCTGCC
TGCTCAAGCTCTTTAACAGTGTCTGGAGCAGCAATTGTGATTGGCCCCTCTTCAATAAT
						
						Genomic sequence
						
							CTTAACAGAGAAATAGGCCCAAACATTTGGTTTGCTTTTAAAGTTTAACTCCTGATGGAAAAAT
ACAAGAGAATATAAGTTAACATATGGGTAAGCACAACTAGTGGATTACCAAAAGGGTATTAGAT
AGTCAAGTAAACCAACCTCCACTCTTCCACTTGTAGGCTTAAACCCATCATCAGGATCCTCACT
TGTAACTCTAACTGCAACACAATGGCCCTTTGGCCTCACTGACTGTGCTTTATCCAAATCAAAC
TTAGTTGCAACAGCAGATATTGTCCTCCAATTATGGTAGCCGCCCCCATGATCCATTCCATAAA
AGCGTCTAATCTCTGCAACAATATATTCATTCGTTAGAACAAGGGAACAAAATATCATCAATCA
TGGAGATGAGAAATTGAAATACCTGGAATGTTATAAAGGGGTATGCCCATTCCGACTGCAACTT
GGGCTGCTGGCAAGTTTATTTCAGCTATCCATTCAGTCACAGGATGTTCTACCTGAAAGGAAGC
CAGTCAAAAACTCAAAATGCAAGAACCATAGAAGAATGTCTCTGCAAAATCCCTGCATTGGAAG
TTTAGAACAGACCTGCAACCGTGGATTAAGCTCCAGAAAATAGTACTCGCCCGTTTCCATGCTG
TACAGATATTCTACAGTAGCAGCACCAACGTATTGAACACACTTAGCAAGCTGCCTTGCTGCCT
GCTCAAGCTCTTTAACAGTGTCTGGAGCAGCAATTGTGATTGGCCCCTCTTCAATAAT

Sequences
Splice junction sequence	CACCAACGTATTGAACACACTTAGCAAGCTGCCTTGCTGCCTGCTCAAGCTCTTTAACAGTGTC TGGAGCAGCAATTGTGATTGGCCCCTCTTCAATAATcttaacagagaaataggcccaaacattt ggtttgcttttaaagtttaactcctgatggaaaaatacaagagaatataagttaacatatgggt aagcacaa
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: 507 Transcript exons: 39812642-39812692,39812786-39812973,39813048-39813141,39 813230-39813403 CTTAACAGAGAAATAGGCCCAAACATTTGGTTTGCTTTTAAAGTTTAACTCCTCCACTCTTCCA CTTGTAGGCTTAAACCCATCATCAGGATCCTCACTTGTAACTCTAACTGCAACACAATGGCCCT TTGGCCTCACTGACTGTGCTTTATCCAAATCAAACTTAGTTGCAACAGCAGATATTGTCCTCCA ATTATGGTAGCCGCCCCCATGATCCATTCCATAAAAGCGTCTAATCTCTGGAATGTTATAAAGG GGTATGCCCATTCCGACTGCAACTTGGGCTGCTGGCAAGTTTATTTCAGCTATCCATTCAGTCA CAGGATGTTCTACCTGCAACCGTGGATTAAGCTCCAGAAAATAGTACTCGCCCGTTTCCATGCT GTACAGATATTCTACAGTAGCAGCACCAACGTATTGAACACACTTAGCAAGCTGCCTTGCTGCC TGCTCAAGCTCTTTAACAGTGTCTGGAGCAGCAATTGTGATTGGCCCCTCTTCAATAAT
Genomic sequence	CTTAACAGAGAAATAGGCCCAAACATTTGGTTTGCTTTTAAAGTTTAACTCCTGATGGAAAAAT ACAAGAGAATATAAGTTAACATATGGGTAAGCACAACTAGTGGATTACCAAAAGGGTATTAGAT AGTCAAGTAAACCAACCTCCACTCTTCCACTTGTAGGCTTAAACCCATCATCAGGATCCTCACT TGTAACTCTAACTGCAACACAATGGCCCTTTGGCCTCACTGACTGTGCTTTATCCAAATCAAAC TTAGTTGCAACAGCAGATATTGTCCTCCAATTATGGTAGCCGCCCCCATGATCCATTCCATAAA AGCGTCTAATCTCTGCAACAATATATTCATTCGTTAGAACAAGGGAACAAAATATCATCAATCA TGGAGATGAGAAATTGAAATACCTGGAATGTTATAAAGGGGTATGCCCATTCCGACTGCAACTT GGGCTGCTGGCAAGTTTATTTCAGCTATCCATTCAGTCACAGGATGTTCTACCTGAAAGGAAGC CAGTCAAAAACTCAAAATGCAAGAACCATAGAAGAATGTCTCTGCAAAATCCCTGCATTGGAAG TTTAGAACAGACCTGCAACCGTGGATTAAGCTCCAGAAAATAGTACTCGCCCGTTTCCATGCTG TACAGATATTCTACAGTAGCAGCACCAACGTATTGAACACACTTAGCAAGCTGCCTTGCTGCCT GCTCAAGCTCTTTAACAGTGTCTGGAGCAGCAATTGTGATTGGCCCCTCTTCAATAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.165558893

Conservation Information
Conserved circRNAs	NA
PMCS	0.165558893

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							39812931-39812686(+)
39813279-39812644(-)
39812669-39813294(-)
						
						Potential amino acid sequence
						
							MVAAPMIHSIKASNLWNVIKGYAHSDCNLGCWQVYFSYPFSHRMFYLQPWIKLQKIVLARFHAV
QIFYSSSTNVLNTLSKLPCCLLKLFNSVWSSNCDWPLFNNLNREIGPNIWFAFKV*(+)
METGEYYFLELNPRLQVEHPVTEWIAEINLPAAQVAVGMGIPLYNIPEIRRFYGMDHGGGYHNW
RTISAVATKFDLDKAQSVRPKGHCVAVRVTSEDPDDGFKPTSGRVEELNFKSKPNVWAYFSVKI
IEEGPITIAAPDTVKELEQAARQLAKCVQYVGAATVEYLYSMETGEYYFLELNPRLQVEHPVTE
WIAEINLPAAQVAVGMGIPLYNIPEIRRFYGMDHGGGYHNWRTISAVATKFDLDKAQSVRPKGH
CVAVRVTSEDPDDGFKPTSGRVEELNFKSKPNVWAYFSVKIIEEGPITIAAPDTVKELEQAARQ
LAKCVQYVGAATVEYLYSMETGEYYFLELNPRLQVEHPVTEWIAEINLPAAQVAVGMGIPLYNI
PEIRRFYGMDHGGGYHNWRTISAVATKFDLDKAQSVRPKGHCVAVRVTSEDPDDGFKPTSGRVE
ELNFKSKPNVWAYFSVKIIEEGPITIAAPDTVKELEQAARQLAKCVQYVGAATVEYLYSMETGE
YYFLELNPRLQVEHPVTEWIAEINLPAAQVAVGMGIPLYNIPEIRRFYGMDHGGGYHNWRTISA
VATKFDLDKAQSVRPKGHCVAVRVTSEDPDDGFKPTSGRVEELNFKSKPNVWAYFSVK(-)
MFGPISLLRLLKRGQSQLLLQTLLKSLSRQQGSLLSVFNTLVLLL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	39812931-39812686(+) 39813279-39812644(-) 39812669-39813294(-)
Potential amino acid sequence	MVAAPMIHSIKASNLWNVIKGYAHSDCNLGCWQVYFSYPFSHRMFYLQPWIKLQKIVLARFHAV QIFYSSSTNVLNTLSKLPCCLLKLFNSVWSSNCDWPLFNNLNREIGPNIWFAFKV(+) METGEYYFLELNPRLQVEHPVTEWIAEINLPAAQVAVGMGIPLYNIPEIRRFYGMDHGGGYHNW RTISAVATKFDLDKAQSVRPKGHCVAVRVTSEDPDDGFKPTSGRVEELNFKSKPNVWAYFSVKI IEEGPITIAAPDTVKELEQAARQLAKCVQYVGAATVEYLYSMETGEYYFLELNPRLQVEHPVTE WIAEINLPAAQVAVGMGIPLYNIPEIRRFYGMDHGGGYHNWRTISAVATKFDLDKAQSVRPKGH CVAVRVTSEDPDDGFKPTSGRVEELNFKSKPNVWAYFSVKIIEEGPITIAAPDTVKELEQAARQ LAKCVQYVGAATVEYLYSMETGEYYFLELNPRLQVEHPVTEWIAEINLPAAQVAVGMGIPLYNI PEIRRFYGMDHGGGYHNWRTISAVATKFDLDKAQSVRPKGHCVAVRVTSEDPDDGFKPTSGRVE ELNFKSKPNVWAYFSVKIIEEGPITIAAPDTVKELEQAARQLAKCVQYVGAATVEYLYSMETGE YYFLELNPRLQVEHPVTEWIAEINLPAAQVAVGMGIPLYNIPEIRRFYGMDHGGGYHNWRTISA VATKFDLDKAQSVRPKGHCVAVRVTSEDPDDGFKPTSGRVEELNFKSKPNVWAYFSVK(-) MFGPISLLRLLKRGQSQLLLQTLLKSLSRQQGSLLSVFNTLVLLL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d014294_circ_g.5

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