Plant Circular RNA Database

Detail information of Zm00001d004702_circ_g.7

			
						 General Information
					
						CircRNA Name
						Zm00001d004702_circ_g.7
					
						ID in PlantcircBase
						zma_circ_007267
					
						Alias
						Zm02circ00078, zma_circ_0000795
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 132221634-132236521  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d004702						
					
						Parent gene annotation
						
							Signal peptide peptidase-like 3
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d004702_circ_g.2 Zm00001d004702_circ_g.3 Zm00001d004702_circ_g.4 Zm00001d004702_circ_g.5 Zm00001d004702_circ_g.6 Zm00001d004702_circ_g.8 Zm00001d004702_circ_g.9 Zm00001d004702_circ_g.10 Zm00001d004702_circ_g.11 Zm00001d004702_circ_g.12 						
					
						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  
						
							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
						Zm00001d004702_T007:9
Zm00001d004702_T003:8
Zm00001d004702_T008:8
Zm00001d004702_T004:8
Zm00001d004702_T002:8
Zm00001d004702_T001:8
Zm00001d004702_T005:9
Zm00001d004702_T006:8

General Information
CircRNA Name	Zm00001d004702_circ_g.7
ID in PlantcircBase	zma_circ_007267
Alias	Zm02circ00078, zma_circ_0000795
Organism	Zea mays
Position	chr2: 132221634-132236521 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d004702
Parent gene annotation	Signal peptide peptidase-like 3
Parent gene strand	-
Alternative splicing	Zm00001d004702_circ_g.2 Zm00001d004702_circ_g.3 Zm00001d004702_circ_g.4 Zm00001d004702_circ_g.5 Zm00001d004702_circ_g.6 Zm00001d004702_circ_g.8 Zm00001d004702_circ_g.9 Zm00001d004702_circ_g.10 Zm00001d004702_circ_g.11 Zm00001d004702_circ_g.12
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	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	Zm00001d004702_T007:9 Zm00001d004702_T003:8 Zm00001d004702_T008:8 Zm00001d004702_T004:8 Zm00001d004702_T002:8 Zm00001d004702_T001:8 Zm00001d004702_T005:9 Zm00001d004702_T006:8

			
						 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  
						
							CAGAGTGAAGCACAGACTATGGTGCCTACAGCCATTATCCATAAGAAGCATGCTGAAAGGTCCA
CAGTTGGTCGATTTGGTGAATATAGCTGCACTTCCAcaactgcatatcccacaattagccagag
aaaatatccactcaagacaccctttctgtttgctctgtcaaatctgttcagcgtaatatcaaag
aaatgtga

						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: 885
Transcript exons: 132221634-132221704,132222151-132222290,132230123-132230
215,132230315-132230368,132233127-132233283,132233370-13
2233404,132233523-132233699,132236364-132236521
CAACTGCATATCCCACAATTAGCCAGAGAAAATATCCACTCAAGACACCCTTTCTGTTTGCTCT
GTCAAATCTATAGCTGAATCCAACAAGCAATCCAGGGAAGATAATGTCACCAAAGCCTATCATA
TCATAACCACCCCATGGATCAAAGAAGCGGGGTATCCTTAGGAGCATAGGAATTGATTCCCCAG
TGTTATCACCACGAGCAACTGCAATCATGACGCTTTCATGGAATATAAGAGGTGAAATGAACAC
CCAAAAGATGTCATACACAAATGCAGCACTAAGAAGTGCCGATGCAACCTTGATATTTGGTAAA
CGTGCCATCTGAAGCACAGTTATCATCAAACAGATACCCAGAACGTCTTGGCCTATCCAAGCAA
ATGAAGCATGGCGATACACAGCCCAGAGAATTGCAAACACCGCACAAAATGGTACAATTCCAAC
AGATAAGATCAAGACCTCCCCCAAAACAGGGAGTTGTACAGTCTTTTGTCCACAGTCCTTAAAA
ATCCTAGCTAGAAGCGTGACCAAGCAAGCATGCATACCCTCAATACCACCAATGCAGAATAGTA
CAATTAGCACCCAAACGAACCAAGATGACATGAAGTAGAACAGGAGGAGGAGGAAAACTGAAGC
TACTATAATAAAAATAAAAGCACCCTTCGCGCTGATCTCGAAGACCTCTTTATCTTCTCTGTAT
TTTGTTCCCGTGTCAGGTCCATCCTTTCTGGTCAGCTGATTATAACGCTCATCAACCTGTTCAC
ATGTAACAAATTCAGTCCAGAGTGAAGCACAGACTATGGTGCCTACAGCCATTATCCATAAGAA
GCATGCTGAAAGGTCCACAGTTGGTCGATTTGGTGAATATAGCTGCACTTCCA
						
						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	CAGAGTGAAGCACAGACTATGGTGCCTACAGCCATTATCCATAAGAAGCATGCTGAAAGGTCCA CAGTTGGTCGATTTGGTGAATATAGCTGCACTTCCAcaactgcatatcccacaattagccagag aaaatatccactcaagacaccctttctgtttgctctgtcaaatctgttcagcgtaatatcaaag aaatgtga
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: 885 Transcript exons: 132221634-132221704,132222151-132222290,132230123-132230 215,132230315-132230368,132233127-132233283,132233370-13 2233404,132233523-132233699,132236364-132236521 CAACTGCATATCCCACAATTAGCCAGAGAAAATATCCACTCAAGACACCCTTTCTGTTTGCTCT GTCAAATCTATAGCTGAATCCAACAAGCAATCCAGGGAAGATAATGTCACCAAAGCCTATCATA TCATAACCACCCCATGGATCAAAGAAGCGGGGTATCCTTAGGAGCATAGGAATTGATTCCCCAG TGTTATCACCACGAGCAACTGCAATCATGACGCTTTCATGGAATATAAGAGGTGAAATGAACAC CCAAAAGATGTCATACACAAATGCAGCACTAAGAAGTGCCGATGCAACCTTGATATTTGGTAAA CGTGCCATCTGAAGCACAGTTATCATCAAACAGATACCCAGAACGTCTTGGCCTATCCAAGCAA ATGAAGCATGGCGATACACAGCCCAGAGAATTGCAAACACCGCACAAAATGGTACAATTCCAAC AGATAAGATCAAGACCTCCCCCAAAACAGGGAGTTGTACAGTCTTTTGTCCACAGTCCTTAAAA ATCCTAGCTAGAAGCGTGACCAAGCAAGCATGCATACCCTCAATACCACCAATGCAGAATAGTA CAATTAGCACCCAAACGAACCAAGATGACATGAAGTAGAACAGGAGGAGGAGGAAAACTGAAGC TACTATAATAAAAATAAAAGCACCCTTCGCGCTGATCTCGAAGACCTCTTTATCTTCTCTGTAT TTTGTTCCCGTGTCAGGTCCATCCTTTCTGGTCAGCTGATTATAACGCTCATCAACCTGTTCAC ATGTAACAAATTCAGTCCAGAGTGAAGCACAGACTATGGTGCCTACAGCCATTATCCATAAGAA GCATGCTGAAAGGTCCACAGTTGGTCGATTTGGTGAATATAGCTGCACTTCCA
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
						0.054770725

Conservation Information
Conserved circRNAs	NA
PMCS	0.054770725

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							132236472-132222157(+)
132236441-132222153(+)
132221644-132236458(-)
132236458-132221636(-)
						
					

						Potential amino acid sequence
						
							MLKGPQLVDLVNIAALPQLHIPQLARENIHSRHPFCLLCQIYS*(+)
MVPTAIIHKKHAERSTVGRFGEYSCTSTTAYPTISQRKYPLKTPFLFALSNL*(+)
MQLWKCSYIHQIDQLWTFQHASYG*(-)
MAVGTIVCASLWTEFVTCEQVDERYNQLTRKDGPDTGTKYREDKEVFEISAKGAFIFIIVASVF
LLLLFYFMSSWFVWVLIVLFCIGGIEGMHACLVTLLARIFKDCGQKTVQLPVLGEVLILSVGIV
PFCAVFAILWAVYRHASFAWIGQDVLGICLMITVLQMARLPNIKVASALLSAAFVYDIFWVFIS
PLIFHESVMIAVARGDNTGESIPMLLRIPRFFDPWGGYDMIGFGDIIFPGLLVGFSYRFDRANR
KGVLSGYFLWLIVGYAVVEVQLYSPNRPTVDLSACFLWIMAVGTIVCASLWTEFVTCEQVDERY
NQLTRKDGPDTGTKYREDKEVFEISAKGAFIFIIVASVFLLLLFYFMSSWFVWVLIVLFCIGGI
EGMHACLVTLLARIFKDCGQKTVQLPVLGEVLILSVGIVPFCAVFAILWAVYRHASFAWIGQDV
LGICLMITVLQMARLPNIKVASALLSAAFVYDIFWVFISPLIFHESVMIAVARGDNTGESIPML
LRIPRFFDPWGGYDMIGFGDIIFPGLLVGFSYRFDRANRKGVLSGYFLWLIVGYAVVEVQLYSP
NRPTVDLSACFLWIMAVGTIVCASLWTEFVTCEQVDERYNQLTRKDGPDTGTKYREDKEVFEIS
AKGAFIFIIVASVFLLLLFYFMSSWFVWVLIVLFCIGGIEGMHACLVTLLARIFKDCGQKTVQL
PVLGEVLILSVGIVPFCAVFAILWAVYRHASFAWIGQDVLGICLMITVLQMARLPNIKVASALL
SAAFVYDIFWVFISPLIFHESVMIAVARGDNTGESIPMLLRIPRFFDPWGGYDMIGFGDIIFPG
LLVGFSYRFDRANRKGVLSGYFLWLIVGYAVVEVQLYSPNRPTVDLSACFLWIMAVGTIVCASL
WTEFVTCEQVDERYNQLTRKDGPDTGTKYREDKEVFEISAKGAFIFIIVASVFLLLLFYFMSSW
FVWVLIVLFCIGGIEGMHACLVTLLARIFKDCGQKTVQLPVLGEVLILSVGIVPFCAVFAILWA
VYRHASFAWIGQDVLGICLMITVLQMARLPNIKVASALLSAAFVYDIFWVFISPLIFHESVMIA
VARGDNTGESIPMLLRIPRFFDPWGGYDMIGFGDIIFPGLLVGFSYRFDRANRKGVLSGYFLWL
IVGYAV(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	132236472-132222157(+) 132236441-132222153(+) 132221644-132236458(-) 132236458-132221636(-)
Potential amino acid sequence	MLKGPQLVDLVNIAALPQLHIPQLARENIHSRHPFCLLCQIYS(+) MVPTAIIHKKHAERSTVGRFGEYSCTSTTAYPTISQRKYPLKTPFLFALSNL(+) MQLWKCSYIHQIDQLWTFQHASYG*(-) MAVGTIVCASLWTEFVTCEQVDERYNQLTRKDGPDTGTKYREDKEVFEISAKGAFIFIIVASVF LLLLFYFMSSWFVWVLIVLFCIGGIEGMHACLVTLLARIFKDCGQKTVQLPVLGEVLILSVGIV PFCAVFAILWAVYRHASFAWIGQDVLGICLMITVLQMARLPNIKVASALLSAAFVYDIFWVFIS PLIFHESVMIAVARGDNTGESIPMLLRIPRFFDPWGGYDMIGFGDIIFPGLLVGFSYRFDRANR KGVLSGYFLWLIVGYAVVEVQLYSPNRPTVDLSACFLWIMAVGTIVCASLWTEFVTCEQVDERY NQLTRKDGPDTGTKYREDKEVFEISAKGAFIFIIVASVFLLLLFYFMSSWFVWVLIVLFCIGGI EGMHACLVTLLARIFKDCGQKTVQLPVLGEVLILSVGIVPFCAVFAILWAVYRHASFAWIGQDV LGICLMITVLQMARLPNIKVASALLSAAFVYDIFWVFISPLIFHESVMIAVARGDNTGESIPML LRIPRFFDPWGGYDMIGFGDIIFPGLLVGFSYRFDRANRKGVLSGYFLWLIVGYAVVEVQLYSP NRPTVDLSACFLWIMAVGTIVCASLWTEFVTCEQVDERYNQLTRKDGPDTGTKYREDKEVFEIS AKGAFIFIIVASVFLLLLFYFMSSWFVWVLIVLFCIGGIEGMHACLVTLLARIFKDCGQKTVQL PVLGEVLILSVGIVPFCAVFAILWAVYRHASFAWIGQDVLGICLMITVLQMARLPNIKVASALL SAAFVYDIFWVFISPLIFHESVMIAVARGDNTGESIPMLLRIPRFFDPWGGYDMIGFGDIIFPG LLVGFSYRFDRANRKGVLSGYFLWLIVGYAVVEVQLYSPNRPTVDLSACFLWIMAVGTIVCASL WTEFVTCEQVDERYNQLTRKDGPDTGTKYREDKEVFEISAKGAFIFIIVASVFLLLLFYFMSSW FVWVLIVLFCIGGIEGMHACLVTLLARIFKDCGQKTVQLPVLGEVLILSVGIVPFCAVFAILWA VYRHASFAWIGQDVLGICLMITVLQMARLPNIKVASALLSAAFVYDIFWVFISPLIFHESVMIA VARGDNTGESIPMLLRIPRFFDPWGGYDMIGFGDIIFPGLLVGFSYRFDRANRKGVLSGYFLWL IVGYAV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Zm00001d004702_circ_g.7

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