Plant Circular RNA Database

Detail information of Zm00001d046579_circ_g.14

			
						 General Information
					
						CircRNA Name
						Zm00001d046579_circ_g.14
					
						ID in PlantcircBase
						zma_circ_009993
					
						Alias
						Zm09circ00050, zma_circ_0002991, ZmciR412
					
						Organism
						
							Zea mays						
					
						Position
						
							chr9: 96793895-96800706  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d046579						
					
						Parent gene annotation
						
							Transcription initiation factor TFIID subunit 1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d046579_circ_g.1 Zm00001d046579_circ_g.2 Zm00001d046579_circ_g.3 Zm00001d046579_circ_g.4 Zm00001d046579_circ_g.5 Zm00001d046579_circ_g.6 Zm00001d046579_circ_g.7 Zm00001d046579_circ_g.8 Zm00001d046579_circ_g.9 Zm00001d046579_circ_g.10 Zm00001d046579_circ_g.11 Zm00001d046579_circ_g.12 Zm00001d046579_circ_g.13 						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm, 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  
						
							GT-AG							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
						Zm00001d046579_T025:6
Zm00001d046579_T001:6
Zm00001d046579_T004:6
Zm00001d046579_T031:6
Zm00001d046579_T023:6
Zm00001d046579_T015:6
Zm00001d046579_T027:6
Zm00001d046579_T008:6
Zm00001d046579_T019:6
Zm00001d046579_T007:6
Zm00001d046579_T011:6
Zm00001d046579_T009:5
Zm00001d046579_T030:6
Zm00001d046579_T005:6
Zm00001d046579_T002:6
Zm00001d046579_T016:6
Zm00001d046579_T003:6
Zm00001d046579_T020:6
Zm00001d046579_T029:6
Zm00001d046579_T018:6
Zm00001d046579_T006:6
Zm00001d046579_T024:6

General Information
CircRNA Name	Zm00001d046579_circ_g.14
ID in PlantcircBase	zma_circ_009993
Alias	Zm09circ00050, zma_circ_0002991, ZmciR412
Organism	Zea mays
Position	chr9: 96793895-96800706 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d046579
Parent gene annotation	Transcription initiation factor TFIID subunit 1
Parent gene strand	+
Alternative splicing	Zm00001d046579_circ_g.1 Zm00001d046579_circ_g.2 Zm00001d046579_circ_g.3 Zm00001d046579_circ_g.4 Zm00001d046579_circ_g.5 Zm00001d046579_circ_g.6 Zm00001d046579_circ_g.7 Zm00001d046579_circ_g.8 Zm00001d046579_circ_g.9 Zm00001d046579_circ_g.10 Zm00001d046579_circ_g.11 Zm00001d046579_circ_g.12 Zm00001d046579_circ_g.13
Support reads	NA
Tissues	leaf, endosperm, 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	GT-AG 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	Zm00001d046579_T025:6 Zm00001d046579_T001:6 Zm00001d046579_T004:6 Zm00001d046579_T031:6 Zm00001d046579_T023:6 Zm00001d046579_T015:6 Zm00001d046579_T027:6 Zm00001d046579_T008:6 Zm00001d046579_T019:6 Zm00001d046579_T007:6 Zm00001d046579_T011:6 Zm00001d046579_T009:5 Zm00001d046579_T030:6 Zm00001d046579_T005:6 Zm00001d046579_T002:6 Zm00001d046579_T016:6 Zm00001d046579_T003:6 Zm00001d046579_T020:6 Zm00001d046579_T029:6 Zm00001d046579_T018:6 Zm00001d046579_T006:6 Zm00001d046579_T024:6

			
						 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  
						
							CAATTCAGTGCTCAAGAAGAAGTCAGCTGCTGCAAAGGGTACCACTGTAACTGGCACTGATGCT
GATCTCCGCAGATTGAGCATGGATGCAGCCCGTGAGaattgaagccttctgagaagatcaaatt
gttctgttctgggaaagagcttcaggatgacatctcgttagcaatgcaaaatgtgcgaccaaac
tccattgt

									
								

					

						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: 1286
Transcript exons: 96793895-96794132,96795073-96795409,96796179-96796385,96
796489-96796581,96797421-96797627,96800503-96800706
AATTGAAGCCTTCTGAGAAGATCAAATTGTTCTGTTCTGGGAAAGAGCTTCAGGATGACATCTC
GTTAGCAATGCAAAATGTGCGACCAAACTCCATTGTGCATGCTGTTCGCACTGAAGTGTACCTA
TGGCCAAAAGCACAGAAATTACCTGGTGAGGACAAGCCTCTACGCCCTCCTGGGGCTTTCAGGA
AAAAAACTGACTTGTCTATCAAGGATGGACATGTTTTTTTAATGGAATATTGTGAAGAGAGACC
TTTGCTTCTCTCGAATGCAGGAATGGGAGCCCGTCTCTGTACATATTACCAGAAAACTACCCCT
ACTGATCAGACAGCTGCATCACTGCGAAACAACAGTGATGGACTGGGCACAGTGCTTGCAATTG
ATCCTGCTGATAAATCCCCTTTTCTAGGAGAGATACATTCTGGGTCCCACCAATCTTGTCTTGA
AACAAACATGTATAGATCACCTGTATTTCCCCATAAGGTTGCACCAACTGATTACTTATTAGTT
CGTTCAGCCAAAGGGGCTCTTTCCCTCCGTCGCATTGACAAGCTATATGTTGTTGGCCAACAAG
AACCTCATATGGAAGTCTTTTCACCAGGGACTAAGAACATGCAAAATTATCTTCTGAACCGAGT
TCTTGCATATGTTTATCGTGAGTTTCGTGCTAGAGAGAGGCCTGATGCTATTCCTCAGATTCGA
GCTGACGAGTTACCCATACAAAGTCCTCTGACAGAAGCCATAGTGAAAAAACGATTGAAGCATT
GTGCAGATTTGAAGAAAGGACCAAAGGGGCATTTTTTCTGGACACAGAGACCTGATTTCCGGGT
TCCATCAGAAGAAGAACTGAGGAGATTATTGACGCCAGAAAGTGTTTGCTGTTATGAAAGTATG
CAAGCTGGTTTGTATCGTCTCAAGCGCTTAGGAATTCTGAAGCTTACTCAGCCTGTTGGATTGG
CTTCTGCCATGAATCAGCTTCCTGATGAGGCTATTGAGCTTGCTGCTGCATCACATATCGAGAG
GGAACTGCAAATCACTAGCTGGAATCTTACAAGTAATTTCGTCGCTTGTACTAATCAGGACAGA
GAAAATATAGAAAGATTAGAAATCACTGGTGTTGGAGATCCATCTGGTCGTGGGTTAGGATTCA
GCTATGTGCGAGTAGCACCAAAAGCACCTGCCTCCAATTCAGTGCTCAAGAAGAAGTCAGCTGC
TGCAAAGGGTACCACTGTAACTGGCACTGATGCTGATCTCCGCAGATTGAGCATGGATGCAGCC
CGTGAG
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	CAATTCAGTGCTCAAGAAGAAGTCAGCTGCTGCAAAGGGTACCACTGTAACTGGCACTGATGCT GATCTCCGCAGATTGAGCATGGATGCAGCCCGTGAGaattgaagccttctgagaagatcaaatt gttctgttctgggaaagagcttcaggatgacatctcgttagcaatgcaaaatgtgcgaccaaac tccattgt
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: 1286 Transcript exons: 96793895-96794132,96795073-96795409,96796179-96796385,96 796489-96796581,96797421-96797627,96800503-96800706 AATTGAAGCCTTCTGAGAAGATCAAATTGTTCTGTTCTGGGAAAGAGCTTCAGGATGACATCTC GTTAGCAATGCAAAATGTGCGACCAAACTCCATTGTGCATGCTGTTCGCACTGAAGTGTACCTA TGGCCAAAAGCACAGAAATTACCTGGTGAGGACAAGCCTCTACGCCCTCCTGGGGCTTTCAGGA AAAAAACTGACTTGTCTATCAAGGATGGACATGTTTTTTTAATGGAATATTGTGAAGAGAGACC TTTGCTTCTCTCGAATGCAGGAATGGGAGCCCGTCTCTGTACATATTACCAGAAAACTACCCCT ACTGATCAGACAGCTGCATCACTGCGAAACAACAGTGATGGACTGGGCACAGTGCTTGCAATTG ATCCTGCTGATAAATCCCCTTTTCTAGGAGAGATACATTCTGGGTCCCACCAATCTTGTCTTGA AACAAACATGTATAGATCACCTGTATTTCCCCATAAGGTTGCACCAACTGATTACTTATTAGTT CGTTCAGCCAAAGGGGCTCTTTCCCTCCGTCGCATTGACAAGCTATATGTTGTTGGCCAACAAG AACCTCATATGGAAGTCTTTTCACCAGGGACTAAGAACATGCAAAATTATCTTCTGAACCGAGT TCTTGCATATGTTTATCGTGAGTTTCGTGCTAGAGAGAGGCCTGATGCTATTCCTCAGATTCGA GCTGACGAGTTACCCATACAAAGTCCTCTGACAGAAGCCATAGTGAAAAAACGATTGAAGCATT GTGCAGATTTGAAGAAAGGACCAAAGGGGCATTTTTTCTGGACACAGAGACCTGATTTCCGGGT TCCATCAGAAGAAGAACTGAGGAGATTATTGACGCCAGAAAGTGTTTGCTGTTATGAAAGTATG CAAGCTGGTTTGTATCGTCTCAAGCGCTTAGGAATTCTGAAGCTTACTCAGCCTGTTGGATTGG CTTCTGCCATGAATCAGCTTCCTGATGAGGCTATTGAGCTTGCTGCTGCATCACATATCGAGAG GGAACTGCAAATCACTAGCTGGAATCTTACAAGTAATTTCGTCGCTTGTACTAATCAGGACAGA GAAAATATAGAAAGATTAGAAATCACTGGTGTTGGAGATCCATCTGGTCGTGGGTTAGGATTCA GCTATGTGCGAGTAGCACCAAAAGCACCTGCCTCCAATTCAGTGCTCAAGAAGAAGTCAGCTGC TGCAAAGGGTACCACTGTAACTGGCACTGATGCTGATCTCCGCAGATTGAGCATGGATGCAGCC CGTGAG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.176958351

Conservation Information
Conserved circRNAs	NA
PMCS	0.176958351

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							96793967-96793897(+)
						
						Potential amino acid sequence
						
							MQNVRPNSIVHAVRTEVYLWPKAQKLPGEDKPLRPPGAFRKKTDLSIKDGHVFLMEYCEERPLL
LSNAGMGARLCTYYQKTTPTDQTAASLRNNSDGLGTVLAIDPADKSPFLGEIHSGSHQSCLETN
MYRSPVFPHKVAPTDYLLVRSAKGALSLRRIDKLYVVGQQEPHMEVFSPGTKNMQNYLLNRVLA
YVYREFRARERPDAIPQIRADELPIQSPLTEAIVKKRLKHCADLKKGPKGHFFWTQRPDFRVPS
EEELRRLLTPESVCCYESMQAGLYRLKRLGILKLTQPVGLASAMNQLPDEAIELAAASHIEREL
QITSWNLTSNFVACTNQDRENIERLEITGVGDPSGRGLGFSYVRVAPKAPASNSVLKKKSAAAK
GTTVTGTDADLRRLSMDAAREN*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	96793967-96793897(+)
Potential amino acid sequence	MQNVRPNSIVHAVRTEVYLWPKAQKLPGEDKPLRPPGAFRKKTDLSIKDGHVFLMEYCEERPLL LSNAGMGARLCTYYQKTTPTDQTAASLRNNSDGLGTVLAIDPADKSPFLGEIHSGSHQSCLETN MYRSPVFPHKVAPTDYLLVRSAKGALSLRRIDKLYVVGQQEPHMEVFSPGTKNMQNYLLNRVLA YVYREFRARERPDAIPQIRADELPIQSPLTEAIVKKRLKHCADLKKGPKGHFFWTQRPDFRVPS EEELRRLLTPESVCCYESMQAGLYRLKRLGILKLTQPVGLASAMNQLPDEAIELAAASHIEREL QITSWNLTSNFVACTNQDRENIERLEITGVGDPSGRGLGFSYVRVAPKAPASNSVLKKKSAAAK GTTVTGTDADLRRLSMDAAREN*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020; Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d046579_circ_g.14

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