Plant Circular RNA Database

Detail information of Zm00001d050112_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d050112_circ_g.2
					
						ID in PlantcircBase
						zma_circ_008039
					
						Alias
						zma_circ_0001806
					
						Organism
						
							Zea mays						
					
						Position
						
							chr4: 66647012-66648048  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d050112						
					
						Parent gene annotation
						
							Putative DUF1296 domain containing family protein  
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, 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
						Zm00001d050112_T008:2
Zm00001d050112_T035:2
Zm00001d050112_T029:2
Zm00001d050112_T022:2
Zm00001d050112_T017:2
Zm00001d050112_T002:2
Zm00001d050112_T021:2
Zm00001d050112_T038:2
Zm00001d050112_T009:2
Zm00001d050112_T031:2
Zm00001d050112_T026:2
Zm00001d050112_T006:2
Zm00001d050112_T019:2
Zm00001d050112_T007:2
Zm00001d050112_T028:2
Zm00001d050112_T004:2
Zm00001d050112_T030:2
Zm00001d050112_T025:2
Zm00001d050112_T032:2
Zm00001d050112_T039:2
Zm00001d050112_T033:2
Zm00001d050112_T003:2
Zm00001d050112_T020:2
Zm00001d050112_T040:2
Zm00001d050112_T027:2
Zm00001d050112_T011:2
Zm00001d050112_T001:2
Zm00001d050112_T037:2
Zm00001d050112_T018:2
Zm00001d050112_T024:2
Zm00001d050112_T010:2
Zm00001d050112_T014:2

General Information
CircRNA Name	Zm00001d050112_circ_g.2
ID in PlantcircBase	zma_circ_008039
Alias	zma_circ_0001806
Organism	Zea mays
Position	chr4: 66647012-66648048 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d050112
Parent gene annotation	Putative DUF1296 domain containing family protein
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	leaf, 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	Zm00001d050112_T008:2 Zm00001d050112_T035:2 Zm00001d050112_T029:2 Zm00001d050112_T022:2 Zm00001d050112_T017:2 Zm00001d050112_T002:2 Zm00001d050112_T021:2 Zm00001d050112_T038:2 Zm00001d050112_T009:2 Zm00001d050112_T031:2 Zm00001d050112_T026:2 Zm00001d050112_T006:2 Zm00001d050112_T019:2 Zm00001d050112_T007:2 Zm00001d050112_T028:2 Zm00001d050112_T004:2 Zm00001d050112_T030:2 Zm00001d050112_T025:2 Zm00001d050112_T032:2 Zm00001d050112_T039:2 Zm00001d050112_T033:2 Zm00001d050112_T003:2 Zm00001d050112_T020:2 Zm00001d050112_T040:2 Zm00001d050112_T027:2 Zm00001d050112_T011:2 Zm00001d050112_T001:2 Zm00001d050112_T037:2 Zm00001d050112_T018:2 Zm00001d050112_T024:2 Zm00001d050112_T010:2 Zm00001d050112_T014:2

			
						 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  
						
							CACTAATAACGCACCCGTGTCATCTGGAAATCTAGCAGAAAATGACAATGTTACTTCATCTCAG
TTCAAGGAAAATAACATCTATTTTGCTGGGCTCCAGtcgtaccatcccacaactgatgctgatg
aacggctgtccccttctcttgctactcaagctgctcacaagtatgggaatatcccagttgttcc
cacacaaa

									
								

					

						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: 621
Transcript exons: 66647012-66647128,66647545-66648048
TCGTACCATCCCACAACTGATGCTGATGAACGGCTGTCCCCTTCTCTTGCTACTCAAGCTGCTC
ACAAGTATGGGAATATCCCAGTTGTTCCCACACAAACTGGCCAGGATCAAGAGGGGAACGACTC
ACCTGTGATTATTTCATCTGTTTCTGCTTCCGTTGCTACCCCTGCTGCTGGAGTTCTGTCGGCT
TCAGTTGCTATCCCTCAACAGTCTGTTCCTGTATTTCGCCAGCCTTTAGGTGTTCATATACCAC
ATCTCCCGATGAATTATGTCCCTTACAATCAGTACATTTCACCATTTTTTATTCCACCCCCTAC
CCTTCACCCTTTTATGGGTAATGCTACATTTTCTCAGCCACCTTCAACAGGGGTCATGTACCCA
ACTCCTGGAACCGCAAGAGTTCTTCCACCTGTCAAATTCCCAGTTCCTTCATTCAAGCCTGGTG
CTAACATTGGGAGCCAGGCATCTATTGGAGTTCCTGGTTGCTATGGAACATATGGTTCTAGTCC
ATCGGTTTACACTAATAACGCACCCGTGTCATCTGGAAATCTAGCAGAAAATGACAATGTTACT
TCATCTCAGTTCAAGGAAAATAACATCTATTTTGCTGGGCTCCAG
						
					

						Genomic sequence
						
							TCGTACCATCCCACAACTGATGCTGATGAACGGCTGTCCCCTTCTCTTGCTACTCAAGCTGCTC
ACAAGTATGGGAATATCCCAGTTGTTCCCACACAAACTGGCCAGGATCAAGAGGTTTGTATCAA
CGCTCTACTTTGCATCAGATCGAAGTTGTCGTTTCATTTATGGCTGGTGTTCTTAGAAACTTGG
CCTATTTGTCAGTAATTTAATACCAGAAGTTTTCAGCATGCCATAGAAGAACAAATTTAGGTGG
CTGCAAGTCAATACAATTGTCGCAAATGCAGATTTTTAGTTCAAAATAATTTTGGGCTAGCTAC
GTGTGTTTGTTTTATAAGAACAGTACAATTACTTGATCTCTCTTCATTCATATATGATGCCATC
ATAGTTCTCTGTTTTTTTTTTGTGTCATTGAGTTATTAGAAAACATCCGGTCTATGCTATTCAT
TGCCACATTGGATAGGTCTAAGCTTATATCATTCGTTATGAAAAATACAATCCACATTTATCTA
TATATCTGTTAATTACTGCAGGGGAACGACTCACCTGTGATTATTTCATCTGTTTCTGCTTCCG
TTGCTACCCCTGCTGCTGGAGTTCTGTCGGCTTCAGTTGCTATCCCTCAACAGTCTGTTCCTGT
ATTTCGCCAGCCTTTAGGTGTTCATATACCACATCTCCCGATGAATTATGTCCCTTACAATCAG
TACATTTCACCATTTTTTATTCCACCCCCTACCCTTCACCCTTTTATGGGTAATGCTACATTTT
CTCAGCCACCTTCAACAGGGGTCATGTACCCAACTCCTGGAACCGCAAGAGTTCTTCCACCTGT
CAAATTCCCAGTTCCTTCATTCAAGCCTGGTGCTAACATTGGGAGCCAGGCATCTATTGGAGTT
CCTGGTTGCTATGGAACATATGGTTCTAGTCCATCGGTTTACACTAATAACGCACCCGTGTCAT
CTGGAAATCTAGCAGAAAATGACAATGTTACTTCATCTCAGTTCAAGGAAAATAACATCTATTT
TGCTGGGCTCCAG
						
					

			
		

Sequences
Splice junction sequence	CACTAATAACGCACCCGTGTCATCTGGAAATCTAGCAGAAAATGACAATGTTACTTCATCTCAG TTCAAGGAAAATAACATCTATTTTGCTGGGCTCCAGtcgtaccatcccacaactgatgctgatg aacggctgtccccttctcttgctactcaagctgctcacaagtatgggaatatcccagttgttcc cacacaaa
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: 621 Transcript exons: 66647012-66647128,66647545-66648048 TCGTACCATCCCACAACTGATGCTGATGAACGGCTGTCCCCTTCTCTTGCTACTCAAGCTGCTC ACAAGTATGGGAATATCCCAGTTGTTCCCACACAAACTGGCCAGGATCAAGAGGGGAACGACTC ACCTGTGATTATTTCATCTGTTTCTGCTTCCGTTGCTACCCCTGCTGCTGGAGTTCTGTCGGCT TCAGTTGCTATCCCTCAACAGTCTGTTCCTGTATTTCGCCAGCCTTTAGGTGTTCATATACCAC ATCTCCCGATGAATTATGTCCCTTACAATCAGTACATTTCACCATTTTTTATTCCACCCCCTAC CCTTCACCCTTTTATGGGTAATGCTACATTTTCTCAGCCACCTTCAACAGGGGTCATGTACCCA ACTCCTGGAACCGCAAGAGTTCTTCCACCTGTCAAATTCCCAGTTCCTTCATTCAAGCCTGGTG CTAACATTGGGAGCCAGGCATCTATTGGAGTTCCTGGTTGCTATGGAACATATGGTTCTAGTCC ATCGGTTTACACTAATAACGCACCCGTGTCATCTGGAAATCTAGCAGAAAATGACAATGTTACT TCATCTCAGTTCAAGGAAAATAACATCTATTTTGCTGGGCTCCAG
Genomic sequence	TCGTACCATCCCACAACTGATGCTGATGAACGGCTGTCCCCTTCTCTTGCTACTCAAGCTGCTC ACAAGTATGGGAATATCCCAGTTGTTCCCACACAAACTGGCCAGGATCAAGAGGTTTGTATCAA CGCTCTACTTTGCATCAGATCGAAGTTGTCGTTTCATTTATGGCTGGTGTTCTTAGAAACTTGG CCTATTTGTCAGTAATTTAATACCAGAAGTTTTCAGCATGCCATAGAAGAACAAATTTAGGTGG CTGCAAGTCAATACAATTGTCGCAAATGCAGATTTTTAGTTCAAAATAATTTTGGGCTAGCTAC GTGTGTTTGTTTTATAAGAACAGTACAATTACTTGATCTCTCTTCATTCATATATGATGCCATC ATAGTTCTCTGTTTTTTTTTTGTGTCATTGAGTTATTAGAAAACATCCGGTCTATGCTATTCAT TGCCACATTGGATAGGTCTAAGCTTATATCATTCGTTATGAAAAATACAATCCACATTTATCTA TATATCTGTTAATTACTGCAGGGGAACGACTCACCTGTGATTATTTCATCTGTTTCTGCTTCCG TTGCTACCCCTGCTGCTGGAGTTCTGTCGGCTTCAGTTGCTATCCCTCAACAGTCTGTTCCTGT ATTTCGCCAGCCTTTAGGTGTTCATATACCACATCTCCCGATGAATTATGTCCCTTACAATCAG TACATTTCACCATTTTTTATTCCACCCCCTACCCTTCACCCTTTTATGGGTAATGCTACATTTT CTCAGCCACCTTCAACAGGGGTCATGTACCCAACTCCTGGAACCGCAAGAGTTCTTCCACCTGT CAAATTCCCAGTTCCTTCATTCAAGCCTGGTGCTAACATTGGGAGCCAGGCATCTATTGGAGTT CCTGGTTGCTATGGAACATATGGTTCTAGTCCATCGGTTTACACTAATAACGCACCCGTGTCAT CTGGAAATCTAGCAGAAAATGACAATGTTACTTCATCTCAGTTCAAGGAAAATAACATCTATTT TGCTGGGCTCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.063757715

Conservation Information
Conserved circRNAs	NA
PMCS	0.063757715

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							66647693-66648045(+)
66647991-66647560(+)
						
						Potential amino acid sequence
						
							MNYVPYNQYISPFFIPPPTLHPFMGNATFSQPPSTGVMYPTPGTARVLPPVKFPVPSFKPGANI
GSQASIGVPGCYGTYGSSPSVYTNNAPVSSGNLAENDNVTSSQFKENNIYFAGLQSYHPTTDAD
ERLSPSLATQAAHKYGNIPVVPTQTGQDQEGNDSPVIISSVSASVATPAAGVLSASVAIPQQSV
PVFRQPLGVHIPHLPMNYVPYNQYISPFFIPPPTLHPFMGNATFSQPPSTGVMYPTPGTARVLP
PVKFPVPSFKPGANIGSQASIGVPGCYGTYGSSPSVYTNNAPVSSGNLAENDNVTSSQFKENNI
YFAGLQSYHPTTDADERLSPSLATQAAHKYGNIPVVPTQTGQDQEGNDSPVIISSVSASVATPA
AGVLSASVAIPQQSVPVFRQPLGVHIPHLPMNYVPYNQYISPFFIPPPTLHPFMGNATFSQPPS
TGVMYPTPGTARVLPPVKFPVPSFKPGANIGSQASIGVPGCYGTYGSSPSVYTNNAPVSSGNLA
ENDNVTSSQFKENNIYFAGLQSYHPTTDADERLSPSLATQAAHKYGNIPVVPTQTGQDQEGNDS
PVIISSVSASVATPAAGVLSASVAIPQQSVPVFRQPLGVHIPHLPMNYVPYNQYISPFFIPPPT
LHPFMGNATFSQPPSTGVMYPTPGTARVLPPVKFPVPSFKPGANIGSQASIGVPGCYGTYGSSP
SVYTNNAPVSSGNLAENDNVTSSQFKENNIYFAGLQ(+)
MTMLLHLSSRKITSILLGSSRTIPQLMLMNGCPLLLLLKLLTSMGISQLFPHKLARIKRGTTHL
*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	66647693-66648045(+) 66647991-66647560(+)
Potential amino acid sequence	MNYVPYNQYISPFFIPPPTLHPFMGNATFSQPPSTGVMYPTPGTARVLPPVKFPVPSFKPGANI GSQASIGVPGCYGTYGSSPSVYTNNAPVSSGNLAENDNVTSSQFKENNIYFAGLQSYHPTTDAD ERLSPSLATQAAHKYGNIPVVPTQTGQDQEGNDSPVIISSVSASVATPAAGVLSASVAIPQQSV PVFRQPLGVHIPHLPMNYVPYNQYISPFFIPPPTLHPFMGNATFSQPPSTGVMYPTPGTARVLP PVKFPVPSFKPGANIGSQASIGVPGCYGTYGSSPSVYTNNAPVSSGNLAENDNVTSSQFKENNI YFAGLQSYHPTTDADERLSPSLATQAAHKYGNIPVVPTQTGQDQEGNDSPVIISSVSASVATPA AGVLSASVAIPQQSVPVFRQPLGVHIPHLPMNYVPYNQYISPFFIPPPTLHPFMGNATFSQPPS TGVMYPTPGTARVLPPVKFPVPSFKPGANIGSQASIGVPGCYGTYGSSPSVYTNNAPVSSGNLA ENDNVTSSQFKENNIYFAGLQSYHPTTDADERLSPSLATQAAHKYGNIPVVPTQTGQDQEGNDS PVIISSVSASVATPAAGVLSASVAIPQQSVPVFRQPLGVHIPHLPMNYVPYNQYISPFFIPPPT LHPFMGNATFSQPPSTGVMYPTPGTARVLPPVKFPVPSFKPGANIGSQASIGVPGCYGTYGSSP SVYTNNAPVSSGNLAENDNVTSSQFKENNIYFAGLQ(+) MTMLLHLSSRKITSILLGSSRTIPQLMLMNGCPLLLLLKLLTSMGISQLFPHKLARIKRGTTHL *(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d050112_circ_g.2

Address

Any questions?

Supported by