Plant Circular RNA Database

Detail information of Zm00001d008654_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d008654_circ_g.2
					
						ID in PlantcircBase
						zma_circ_009555
					
						Alias
						Zm08circ00008, zma_circ_0002647, ZmciR331
					
						Organism
						
							Zea mays						
					
						Position
						
							chr8: 16013128-16020035  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d008654						
					
						Parent gene annotation
						
							WD40/YVTN repeat-like-containing domain;Bromodomain
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d008654_circ_g.1 Zm00001d008654_circ_g.3 Zm00001d008654_circ_g.4 						
					
						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
						Zm00001d008654_T034:9
Zm00001d008654_T007:9
Zm00001d008654_T006:9
Zm00001d008654_T024:9
Zm00001d008654_T032:9
Zm00001d008654_T041:9
Zm00001d008654_T059:6
Zm00001d008654_T013:9
Zm00001d008654_T002:8
Zm00001d008654_T021:8
Zm00001d008654_T017:9
Zm00001d008654_T015:8
Zm00001d008654_T008:9
Zm00001d008654_T020:8
Zm00001d008654_T009:9
Zm00001d008654_T051:9
Zm00001d008654_T022:9
Zm00001d008654_T004:9
Zm00001d008654_T055:10
Zm00001d008654_T038:9
Zm00001d008654_T018:8
Zm00001d008654_T023:9
Zm00001d008654_T043:9
Zm00001d008654_T005:9
Zm00001d008654_T011:9
Zm00001d008654_T003:9
Zm00001d008654_T047:9
Zm00001d008654_T014:8
Zm00001d008654_T025:9
Zm00001d008654_T056:9
Zm00001d008654_T016:9
Zm00001d008654_T001:9
Zm00001d008654_T010:9
Zm00001d008654_T019:8
Zm00001d008654_T012:9

General Information
CircRNA Name	Zm00001d008654_circ_g.2
ID in PlantcircBase	zma_circ_009555
Alias	Zm08circ00008, zma_circ_0002647, ZmciR331
Organism	Zea mays
Position	chr8: 16013128-16020035 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d008654
Parent gene annotation	WD40/YVTN repeat-like-containing domain;Bromodomain
Parent gene strand	+
Alternative splicing	Zm00001d008654_circ_g.1 Zm00001d008654_circ_g.3 Zm00001d008654_circ_g.4
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	Zm00001d008654_T034:9 Zm00001d008654_T007:9 Zm00001d008654_T006:9 Zm00001d008654_T024:9 Zm00001d008654_T032:9 Zm00001d008654_T041:9 Zm00001d008654_T059:6 Zm00001d008654_T013:9 Zm00001d008654_T002:8 Zm00001d008654_T021:8 Zm00001d008654_T017:9 Zm00001d008654_T015:8 Zm00001d008654_T008:9 Zm00001d008654_T020:8 Zm00001d008654_T009:9 Zm00001d008654_T051:9 Zm00001d008654_T022:9 Zm00001d008654_T004:9 Zm00001d008654_T055:10 Zm00001d008654_T038:9 Zm00001d008654_T018:8 Zm00001d008654_T023:9 Zm00001d008654_T043:9 Zm00001d008654_T005:9 Zm00001d008654_T011:9 Zm00001d008654_T003:9 Zm00001d008654_T047:9 Zm00001d008654_T014:8 Zm00001d008654_T025:9 Zm00001d008654_T056:9 Zm00001d008654_T016:9 Zm00001d008654_T001:9 Zm00001d008654_T010:9 Zm00001d008654_T019:8 Zm00001d008654_T012:9

			
						 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  
						
							TCATCTTCCTTATTTCTTATATTCTGCAGATTGCAGAATTTGCGTATGGAATGCTTCTGATGGG
AGCTTGGTGCATTCACTGATTGGCCATAAGGAATCActacctttgatcgcacagggcgttatgt
tattactggttctgatgaccgccttgttaaaatatgggcgatggaaacagcgttctgcctggct
agctgccg

						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: 1022
Transcript exons: 16013128-16013237,16013325-16013402,16013500-16013606,16
014497-16014591,16014670-16014794,16014881-16015071,1601
5385-16015460,16015832-16016000,16019965-16020035
CTACCTTTGATCGCACAGGGCGTTATGTTATTACTGGTTCTGATGACCGCCTTGTTAAAATATG
GGCGATGGAAACAGCGTTCTGCCTGGCTAGCTGCCGGGGCCATGAAGGTGATATTACCGATCTT
GCAGTGAGTTCCAATAATTCTGTGGTAGCATCTTCATCTAATGATTTCATTATTAGAGTGTGGC
GTATGCCTGATGGAATGCCAGTCTCAGTGCTCAAGGGGCATACAGGGGCAGTTACTGCTATTGC
ATTTAGTCCAAGGCCAGGTGCTGCTTTCCAGCTGTTGTCGTCATCAGATGATGGGACATGCAGG
ATTTGGGATGCCAGATACTCTCAACAACCTCCAAGACTGTATACACCAAAGCCCCCAGATGTTG
CCCCTGGTAAGAGTGGTGATGCATCTTCCAGCGCCGCTCAAGTTCAGCCAACAAATCACCAGAT
CTTATGTTGTGCATTTAATGCTAATGGAACCGTGTTTGTCACTGGCAGCTCGGACACTTATGCA
AGGGTCTGGAATGCTTGCAAGAGTTCTTCTGATGAACATGAGCAACCGATTCATGAGATGGATC
TATTATGTGGGCATGAAAATGATGTAAACTATGTGCAGTTTAGTGGATGTGCAGTTGCATCAAG
ATCTTTTTCATCTGATTCCAGTCATACCTCTAAGGAAGAAAATAGCCTGAAGTTAAGAAATTCT
TGGTTCACGCATAATATTGTTACCTGCTCCCGTGATGGCAGTGCAATTATATGGGTTCCACGAT
CTCGGAGGTCACATGGAAAGATTGGACGTTGGACGCGTGCTTACCATCTTAAAGTTCCCCCACC
TCCAATGGCTCCTCAACCACCTCGAGGTGGTCCTCGTCAAAGATACCAGCCAACTCCTCGTGGT
GTCAATATGATAGTTTGGAGTCTGGACAACCGCTTTGTGCTTGCTGCTATCATGGATTGCAGAA
TTTGCGTATGGAATGCTTCTGATGGGAGCTTGGTGCATTCACTGATTGGCCATAAGGAATCA
						
						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	TCATCTTCCTTATTTCTTATATTCTGCAGATTGCAGAATTTGCGTATGGAATGCTTCTGATGGG AGCTTGGTGCATTCACTGATTGGCCATAAGGAATCActacctttgatcgcacagggcgttatgt tattactggttctgatgaccgccttgttaaaatatgggcgatggaaacagcgttctgcctggct agctgccg
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: 1022 Transcript exons: 16013128-16013237,16013325-16013402,16013500-16013606,16 014497-16014591,16014670-16014794,16014881-16015071,1601 5385-16015460,16015832-16016000,16019965-16020035 CTACCTTTGATCGCACAGGGCGTTATGTTATTACTGGTTCTGATGACCGCCTTGTTAAAATATG GGCGATGGAAACAGCGTTCTGCCTGGCTAGCTGCCGGGGCCATGAAGGTGATATTACCGATCTT GCAGTGAGTTCCAATAATTCTGTGGTAGCATCTTCATCTAATGATTTCATTATTAGAGTGTGGC GTATGCCTGATGGAATGCCAGTCTCAGTGCTCAAGGGGCATACAGGGGCAGTTACTGCTATTGC ATTTAGTCCAAGGCCAGGTGCTGCTTTCCAGCTGTTGTCGTCATCAGATGATGGGACATGCAGG ATTTGGGATGCCAGATACTCTCAACAACCTCCAAGACTGTATACACCAAAGCCCCCAGATGTTG CCCCTGGTAAGAGTGGTGATGCATCTTCCAGCGCCGCTCAAGTTCAGCCAACAAATCACCAGAT CTTATGTTGTGCATTTAATGCTAATGGAACCGTGTTTGTCACTGGCAGCTCGGACACTTATGCA AGGGTCTGGAATGCTTGCAAGAGTTCTTCTGATGAACATGAGCAACCGATTCATGAGATGGATC TATTATGTGGGCATGAAAATGATGTAAACTATGTGCAGTTTAGTGGATGTGCAGTTGCATCAAG ATCTTTTTCATCTGATTCCAGTCATACCTCTAAGGAAGAAAATAGCCTGAAGTTAAGAAATTCT TGGTTCACGCATAATATTGTTACCTGCTCCCGTGATGGCAGTGCAATTATATGGGTTCCACGAT CTCGGAGGTCACATGGAAAGATTGGACGTTGGACGCGTGCTTACCATCTTAAAGTTCCCCCACC TCCAATGGCTCCTCAACCACCTCGAGGTGGTCCTCGTCAAAGATACCAGCCAACTCCTCGTGGT GTCAATATGATAGTTTGGAGTCTGGACAACCGCTTTGTGCTTGCTGCTATCATGGATTGCAGAA TTTGCGTATGGAATGCTTCTGATGGGAGCTTGGTGCATTCACTGATTGGCCATAAGGAATCA
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
						0.14214289

Conservation Information
Conserved circRNAs	NA
PMCS	0.14214289

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16013197-16013346(+)
16013236-16015920(-)
						
						Potential amino acid sequence
						
							METAFCLASCRGHEGDITDLAVSSNNSVVASSSNDFIIRVWRMPDGMPVSVLKGHTGAVTAIAF
SPRPGAAFQLLSSSDDGTCRIWDARYSQQPPRLYTPKPPDVAPGKSGDASSSAAQVQPTNHQIL
CCAFNANGTVFVTGSSDTYARVWNACKSSSDEHEQPIHEMDLLCGHENDRQMVSFFVSTILHQL
SWSLFFFARFTHNIVTCSRDGSAIIWVPRSRRSHGKIGRWTRAYHLKVPPPPMAPQPPRGGPRQ
RYQPTPRGVNMIVWSLDNRFVLAAIMDCRICVWNASDGSLVHSLIGHKESLPLIAQGVMLLLVL
MTALLKYGRWKQRSAWLAAGAMKVILPILQ*(+)
MAPAASQAERCFHRPYFNKAVIRTSNNITPCAIKGSDSLWPISECTKLPSEAFHTQILQSMIAA
STKRLSRLQTIILTPRGVGWYL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	16013197-16013346(+) 16013236-16015920(-)
Potential amino acid sequence	METAFCLASCRGHEGDITDLAVSSNNSVVASSSNDFIIRVWRMPDGMPVSVLKGHTGAVTAIAF SPRPGAAFQLLSSSDDGTCRIWDARYSQQPPRLYTPKPPDVAPGKSGDASSSAAQVQPTNHQIL CCAFNANGTVFVTGSSDTYARVWNACKSSSDEHEQPIHEMDLLCGHENDRQMVSFFVSTILHQL SWSLFFFARFTHNIVTCSRDGSAIIWVPRSRRSHGKIGRWTRAYHLKVPPPPMAPQPPRGGPRQ RYQPTPRGVNMIVWSLDNRFVLAAIMDCRICVWNASDGSLVHSLIGHKESLPLIAQGVMLLLVL MTALLKYGRWKQRSAWLAAGAMKVILPILQ(+) MAPAASQAERCFHRPYFNKAVIRTSNNITPCAIKGSDSLWPISECTKLPSEAFHTQILQSMIAA STKRLSRLQTIILTPRGVGWYL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

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

circRNA

Detail information of Zm00001d008654_circ_g.2

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