Plant Circular RNA Database

Detail information of Zm00001d013030_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d013030_circ_g.1
					
						ID in PlantcircBase
						zma_circ_008349
					
						Alias
						zma_circ_0002068
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 3473274-3475117  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d013030						
					
						Parent gene annotation
						
							Calcium-dependent protein kinase 7
							
						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  
						
							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
						Zm00001d013030_T001:4
Zm00001d013030_T002:6

General Information
CircRNA Name	Zm00001d013030_circ_g.1
ID in PlantcircBase	zma_circ_008349
Alias	zma_circ_0002068
Organism	Zea mays
Position	chr5: 3473274-3475117 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Zm00001d013030
Parent gene annotation	Calcium-dependent protein kinase 7
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	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	Zm00001d013030_T001:4 Zm00001d013030_T002:6

			
						 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  
						
							GGCCAAAATCAATTGCTTTTAGAGGGGAACTGTCCTTGCTTGCATATAAAAAGTTCTCTGGTTT
AAGATCCCGGTGCATGACGCCATGCCTGTGGCACTTcttatctgtgtccacgtcccggatgatg
ccaccgatgatgtcttcatcactgccatccagttcatcagccagtgcctctctaagctcctcga
tctctatg

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CTTATCTGTGTCCACGTCCCGGATGATGCCACCGATGATGTCTTCATCACTGCCATCCAGTTCA
TCAGCCAGTGCCTCTCTAAGCTCCTCGATCTCTATGTACCCACTCTTATTCCGGTCGAAGTATG
CGAAGGCCTTCTGGATGTGTTCGTCGTTGCCTATCTTCCTCACGTGGACAGACACCGTGACGAA
TTCCTCGTAATCTAAGGTCCCGTTTCTGTCGACGTCGGCCTGCAGAGCGTTGGAAGTAGCATTT
AGTTAACGAGTTTGTCTTGTCCAGGATATTTTAGCACTACGTAGTGTAGAGTGTCTTTGCTAAT
AAGGAGTAAGTAACTCACAGCATCCATCAGTATCTGAAGGTCTGAATCATGCATTTGGTTTCCC
AGCTTACGGAGGCCGGCCTTGAATTCCTCGAATGTTAGCTTGCCGTTCTTGTTCACGTCCATCT
TATCGAACATTTGCTTTATGTCAGCTACTTCCTCCGCAGACAGATGCTCAGCAATCACCTGCAG
ATGGCCAAGCATAAAATCAGACCACTTTAACAAGATGATCCCCCATGTACCATTCTTCTTGTAT
TTTACGTGCGCCTTCTATGTCCAGTAAGGAAGGTGGTTATGTCTGCTACCAACATGCAACAAAT
CTTACCCTTAGTGCTTTCTTCTTTAACTTGTTCATCGCAGCAAATTGCTGCAGTCTTGCTCGGA
CAGTATCGCCAAGAGAAACGTCTGGCGTGTTTTTAGAGTCATGTAGCCATGGATGCTCTGCCCA
TTCAACTATCATTGTCAGAAAAGCAATGAAAGAATAATTTCATACATACAATTAGTAAAACCAA
AGTAATTTCGAGCATCGTATTCCAATAAAATACACTATAACAGAATAATACAAGTACAGGACAT
TAACTCTTTTGAATAGCAAATCACACTCGCATAGTCATATAAATCTTCTGTGTTTGTACAACTC
CCAGAATGAGAATTTTAAGGGAAGTCTGGCTCATGTCAGCCAATACGTGATTCTGCCACATCAC
CAATTAAGACCTCAATTTTCCCTAACAAATAACAATCATAGCATCCTTAAACTCATGGTGCGAT
AGGAATATGTGATAGTGAGGCTTACCAAGTACTTGTGCTGCAGTAAACCGTGTCAATGGATTTG
GGTCAAGCATGCGCCTGACAAGATCTTTAGCAGGCTCAGATACTCTGGGCCATGGTTCTCTTTT
GAAATCTACCACAGATCGTATGATTGCCTGCGCTACTCCCTGTTCGGTTTCTGCGTAGCATCAT
GAATATGGGATTACGATGGTGTTCTAACTTACAGTATTAACACGCATGCATTCCAGACCAGAAT
TTGAAAGTTACCTGCCCAAAATGGTGGTACACCACAAAGAAGTATGTAAAGTATCACTCCAGCA
CTCCAGACATCAACTTCAGGGCCATAGTTTCGCTTCAGAACCTCTGGGGCCATGTAGTATGGAC
TGCCTACAATTTCCGTAAATCGCTCACCTAAATGCGAAAGCCAACAACTATTCTGTAAAGATAT
GCATATGTCCAATATACTGCATCAATGAAGTTGGTTCTATTTTGCTGGGAAATGAAGCACACTA
TAATGGGAAACTACATACAGACACTCCTCTTTCTTGTTTTCCATAGGCACAAGTGCACAACAAA
TGCCATGCGTCCAGAAATTAATTGAATTGATTGCTCATTAGTTGTTCGTGAAAACATACCAGGC
CTGAAGAACACAGACAGGCCAAAATCAATTGCTTTTAGAGGGGAACTGTCCTTGCTTGCATATA
AAAAGTTCTCTGGTTTAAGATCCCGGTGCATGACGCCATGCCTGTGGCACTT
						
					

			
		

Sequences
Splice junction sequence	GGCCAAAATCAATTGCTTTTAGAGGGGAACTGTCCTTGCTTGCATATAAAAAGTTCTCTGGTTT AAGATCCCGGTGCATGACGCCATGCCTGTGGCACTTcttatctgtgtccacgtcccggatgatg ccaccgatgatgtcttcatcactgccatccagttcatcagccagtgcctctctaagctcctcga tctctatg
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CTTATCTGTGTCCACGTCCCGGATGATGCCACCGATGATGTCTTCATCACTGCCATCCAGTTCA TCAGCCAGTGCCTCTCTAAGCTCCTCGATCTCTATGTACCCACTCTTATTCCGGTCGAAGTATG CGAAGGCCTTCTGGATGTGTTCGTCGTTGCCTATCTTCCTCACGTGGACAGACACCGTGACGAA TTCCTCGTAATCTAAGGTCCCGTTTCTGTCGACGTCGGCCTGCAGAGCGTTGGAAGTAGCATTT AGTTAACGAGTTTGTCTTGTCCAGGATATTTTAGCACTACGTAGTGTAGAGTGTCTTTGCTAAT AAGGAGTAAGTAACTCACAGCATCCATCAGTATCTGAAGGTCTGAATCATGCATTTGGTTTCCC AGCTTACGGAGGCCGGCCTTGAATTCCTCGAATGTTAGCTTGCCGTTCTTGTTCACGTCCATCT TATCGAACATTTGCTTTATGTCAGCTACTTCCTCCGCAGACAGATGCTCAGCAATCACCTGCAG ATGGCCAAGCATAAAATCAGACCACTTTAACAAGATGATCCCCCATGTACCATTCTTCTTGTAT TTTACGTGCGCCTTCTATGTCCAGTAAGGAAGGTGGTTATGTCTGCTACCAACATGCAACAAAT CTTACCCTTAGTGCTTTCTTCTTTAACTTGTTCATCGCAGCAAATTGCTGCAGTCTTGCTCGGA CAGTATCGCCAAGAGAAACGTCTGGCGTGTTTTTAGAGTCATGTAGCCATGGATGCTCTGCCCA TTCAACTATCATTGTCAGAAAAGCAATGAAAGAATAATTTCATACATACAATTAGTAAAACCAA AGTAATTTCGAGCATCGTATTCCAATAAAATACACTATAACAGAATAATACAAGTACAGGACAT TAACTCTTTTGAATAGCAAATCACACTCGCATAGTCATATAAATCTTCTGTGTTTGTACAACTC CCAGAATGAGAATTTTAAGGGAAGTCTGGCTCATGTCAGCCAATACGTGATTCTGCCACATCAC CAATTAAGACCTCAATTTTCCCTAACAAATAACAATCATAGCATCCTTAAACTCATGGTGCGAT AGGAATATGTGATAGTGAGGCTTACCAAGTACTTGTGCTGCAGTAAACCGTGTCAATGGATTTG GGTCAAGCATGCGCCTGACAAGATCTTTAGCAGGCTCAGATACTCTGGGCCATGGTTCTCTTTT GAAATCTACCACAGATCGTATGATTGCCTGCGCTACTCCCTGTTCGGTTTCTGCGTAGCATCAT GAATATGGGATTACGATGGTGTTCTAACTTACAGTATTAACACGCATGCATTCCAGACCAGAAT TTGAAAGTTACCTGCCCAAAATGGTGGTACACCACAAAGAAGTATGTAAAGTATCACTCCAGCA CTCCAGACATCAACTTCAGGGCCATAGTTTCGCTTCAGAACCTCTGGGGCCATGTAGTATGGAC TGCCTACAATTTCCGTAAATCGCTCACCTAAATGCGAAAGCCAACAACTATTCTGTAAAGATAT GCATATGTCCAATATACTGCATCAATGAAGTTGGTTCTATTTTGCTGGGAAATGAAGCACACTA TAATGGGAAACTACATACAGACACTCCTCTTTCTTGTTTTCCATAGGCACAAGTGCACAACAAA TGCCATGCGTCCAGAAATTAATTGAATTGATTGCTCATTAGTTGTTCGTGAAAACATACCAGGC CTGAAGAACACAGACAGGCCAAAATCAATTGCTTTTAGAGGGGAACTGTCCTTGCTTGCATATA AAAAGTTCTCTGGTTTAAGATCCCGGTGCATGACGCCATGCCTGTGGCACTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.087386054

Conservation Information
Conserved circRNAs	NA
PMCS	0.087386054

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							3475104-3473477(+)
3473740-3473472(+)
3475098-3473276(-)
3473340-3475038(-)
						
					

						Potential amino acid sequence
						
							MPVALLICVHVPDDATDDVFITAIQFISQCLSKLLDLYVPTLIPVEVCEGLLDVFVVAYLPHVD
RHRDEFLVI*(+)
MSATSSADRCSAITCRWPSIKSDHFNKMIPHVPFFLYFTCAFLSAFFFNLFIAANCCSLARTVS
PRETSGVFLESCSHGCSAHSTGLKNTDRPKSIAFRGELSLLAYKKFSGLRSRCMTPCLWHFLSV
STSRMMPPMMSSSLPSSSSASASLSSSISMYPLLFRSKYAKAFWMCSSLPIFLTWTDTVTNSS*
(+)
MHRDLKPENFLYASKDSSPLKAIDFGLSVFFRPVEWAEHPWLHDSKNTPDVSLGDTVRARLQQF
AAMNKLKKKALRKAHVKYKKNGTWGIILLKWSDFMLGHLQVIAEHLSAEEVADIKQMFDKMDVN
KNGKLTFEEFKAGLRKLGNQMHDSDLQILMDAADVDRNGTLDYEEFVTVSVHVRKIGNDEHIQK
AFAYFDRNKSGYIEIEELREALADELDGSDEDIIGGIIRDVDTDKKCHRHGVMHRDLKPENFLY
ASKDSSPLKAIDFGLSVFFRPVEWAEHPWLHDSKNTPDVSLGDTVRARLQQFAAMNKLKKKALR
KAHVKYKKNGTWGIILLKWSDFMLGHLQVIAEHLSAEEVADIKQMFDKMDVNKNGKLTFEEFKA
GLRKLGNQMHDSDLQILMDAADVDRNGTLDYEEFVTVSVHVRKIGNDEHIQKAFAYFDRNKSGY
IEIEELREALADELDGSDEDIIGGIIRDVDTDKKCHRHGVMHRDLKPENFLYASKDSSPLKAID
FGLSVFFRPVEWAEHPWLHDSKNTPDVSLGDTVRARLQQFAAMNKLKKKALRKAHVKYKKNGTW
GIILLKWSDFMLGHLQVIAEHLSAEEVADIKQMFDKMDVNKNGKLTFEEFKAGLRKLGNQMHDS
DLQILMDAADVDRNGTLDYEEFVTVSVHVRKIGNDEHIQKAFAYFDRNKSGYIEIEELREALAD
ELDGSDEDIIGGIIRDVDTDKKCHRHGVMHRDLKPENFLYASKDSSPLKAIDFGLSVFFRPVEW
AEHPWLHDSKNTPDVSLGDTVRARLQQFAAMNKLKKKALRKAHVKYKKNGTWGIILLKWSDFML
GHLQVIAEHLSAEEVADIKQMFDKMDVNKNGKLTFEEFKAGLRKLGNQMHDSDLQILMDAADVD
RNGTLDYEEFVTVSVHVRKIGNDEHIQKAFAYFDRNKSGYIEIEELREALADELDGSDEDIIGG
IIRDVDTDK(-)
MNWMAVMKTSSVASSGTWTQIRSATGMASCTGILNQRTFYMQARTVPL*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	3475104-3473477(+) 3473740-3473472(+) 3475098-3473276(-) 3473340-3475038(-)
Potential amino acid sequence	MPVALLICVHVPDDATDDVFITAIQFISQCLSKLLDLYVPTLIPVEVCEGLLDVFVVAYLPHVD RHRDEFLVI(+) MSATSSADRCSAITCRWPSIKSDHFNKMIPHVPFFLYFTCAFLSAFFFNLFIAANCCSLARTVS PRETSGVFLESCSHGCSAHSTGLKNTDRPKSIAFRGELSLLAYKKFSGLRSRCMTPCLWHFLSV STSRMMPPMMSSSLPSSSSASASLSSSISMYPLLFRSKYAKAFWMCSSLPIFLTWTDTVTNSS (+) MHRDLKPENFLYASKDSSPLKAIDFGLSVFFRPVEWAEHPWLHDSKNTPDVSLGDTVRARLQQF AAMNKLKKKALRKAHVKYKKNGTWGIILLKWSDFMLGHLQVIAEHLSAEEVADIKQMFDKMDVN KNGKLTFEEFKAGLRKLGNQMHDSDLQILMDAADVDRNGTLDYEEFVTVSVHVRKIGNDEHIQK AFAYFDRNKSGYIEIEELREALADELDGSDEDIIGGIIRDVDTDKKCHRHGVMHRDLKPENFLY ASKDSSPLKAIDFGLSVFFRPVEWAEHPWLHDSKNTPDVSLGDTVRARLQQFAAMNKLKKKALR KAHVKYKKNGTWGIILLKWSDFMLGHLQVIAEHLSAEEVADIKQMFDKMDVNKNGKLTFEEFKA GLRKLGNQMHDSDLQILMDAADVDRNGTLDYEEFVTVSVHVRKIGNDEHIQKAFAYFDRNKSGY IEIEELREALADELDGSDEDIIGGIIRDVDTDKKCHRHGVMHRDLKPENFLYASKDSSPLKAID FGLSVFFRPVEWAEHPWLHDSKNTPDVSLGDTVRARLQQFAAMNKLKKKALRKAHVKYKKNGTW GIILLKWSDFMLGHLQVIAEHLSAEEVADIKQMFDKMDVNKNGKLTFEEFKAGLRKLGNQMHDS DLQILMDAADVDRNGTLDYEEFVTVSVHVRKIGNDEHIQKAFAYFDRNKSGYIEIEELREALAD ELDGSDEDIIGGIIRDVDTDKKCHRHGVMHRDLKPENFLYASKDSSPLKAIDFGLSVFFRPVEW AEHPWLHDSKNTPDVSLGDTVRARLQQFAAMNKLKKKALRKAHVKYKKNGTWGIILLKWSDFML GHLQVIAEHLSAEEVADIKQMFDKMDVNKNGKLTFEEFKAGLRKLGNQMHDSDLQILMDAADVD RNGTLDYEEFVTVSVHVRKIGNDEHIQKAFAYFDRNKSGYIEIEELREALADELDGSDEDIIGG IIRDVDTDK(-) MNWMAVMKTSSVASSGTWTQIRSATGMASCTGILNQRTFYMQARTVPL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d013030_circ_g.1

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