Plant Circular RNA Database

Detail information of Zm00001d037982_circ_g.9

			
						 General Information
					
						CircRNA Name
						Zm00001d037982_circ_g.9
					
						ID in PlantcircBase
						zma_circ_009094
					
						Alias
						zma_circ_0002362, GRMZM2G416667_C3
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 144246659-144252174  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d037982						
					
						Parent gene annotation
						
							AMP deaminase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d037982_circ_g.6 Zm00001d037982_circ_g.7 Zm00001d037982_circ_g.8 Zm00001d037982_circ_g.10 						
					
						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
						Zm00001d037982_T006:8
Zm00001d037982_T008:5
Zm00001d037982_T005:7
Zm00001d037982_T004:5
Zm00001d037982_T002:7
Zm00001d037982_T003:7
Zm00001d037982_T001:7
Zm00001d037982_T007:7

General Information
CircRNA Name	Zm00001d037982_circ_g.9
ID in PlantcircBase	zma_circ_009094
Alias	zma_circ_0002362, GRMZM2G416667_C3
Organism	Zea mays
Position	chr6: 144246659-144252174 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d037982
Parent gene annotation	AMP deaminase
Parent gene strand	-
Alternative splicing	Zm00001d037982_circ_g.6 Zm00001d037982_circ_g.7 Zm00001d037982_circ_g.8 Zm00001d037982_circ_g.10
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	Zm00001d037982_T006:8 Zm00001d037982_T008:5 Zm00001d037982_T005:7 Zm00001d037982_T004:5 Zm00001d037982_T002:7 Zm00001d037982_T003:7 Zm00001d037982_T001:7 Zm00001d037982_T007:7

			
						 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  
						
							GATCCATCTTCACTTGCACTGGCAGCAGGAGACTTGGGTGACTTAGGTCTAATTATTTCAACCC
GTCTATTTGAACCTGACCGGGCAAGTTGTTTACTGCccagttaagtccaagctctcaaaaacct
cttttaaagtcatataagtaccatctctgaaaatgaccacctacaaagacattatgcatagtaa
tttgtaag

						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: 967
Transcript exons: 144246659-144246726,144246825-144247004,144247107-144247
234,144247319-144247370,144247450-144247628,144248303-14
4248492,144252005-144252174
CCAGTTAAGTCCAAGCTCTCAAAAACCTCTTTTAAAGTCATATAAGTACCATCTCTGAAAATGA
CCACCTCATCAGGTTCTTTTCTTAGTTTGGATTTTATGAACCTCAACAGATGTTTTTGATTCAT
GCATGCTGAATGATGAACATGAGTGTCAACCTTCCTGACATTGTAAAAATCACGATGTGGGGCA
GTCTTCTGGGCAAGAAATTCCCTATCCGCATTTAACATCAGATGGAATTTAAACTTATGCTCAA
GAAGATTTAACCGATTATGGCAGACAGTTCTTGTGTTCCCTGCAGCCGTTACTCGGAGAATATA
ATGCAAGTCAGTGAAGAAGGTTGTAGCATCAGCCACAGGATAAATGCTCTCCGTACAATCTTTA
TCCGCATAAACATGGATAACGCCATCAACAGTTTGGAAAACATGCTCTGACTTTGGTTCAGGCA
CATAAGTGAACGGGTTGGGGTTAGGTTTTGGAGTACAGGGGTCATTTATGACCTCCTTCTCCCA
TGGAGCAACCTCCTCTCTAAAGAGATAAGAGTCTCTTAACTCGAGGCACTTCTGAAGGATTTTG
AACACCTCAATTTCATCAGCAGTCGGAATCTCCTTTGGAGTAGTTAGCAGCTTGACAAATGATT
CTTGCTGAGGTTCTTTTCGTAGAATATCTGCAGCAACTGGGTCAGGTTGAACTGCATGAAGATT
ATTGGATTTACTGCGTGACCGTATCAAGTTTGCTGCAGCTAATGGCTTGGCAGCCCCATTTTCC
ACAATTGCATTTCCTTTGTGTTCTCCTTCCAGGTTTCCACTTGTGTCCATGTAGCCATTGTCAA
GTTTACCACTACTTTGTATAGAATCATCCTCATCTGATCCATCTTCACTTGCACTGGCAGCAGG
AGACTTGGGTGACTTAGGTCTAATTATTTCAACCCGTCTATTTGAACCTGACCGGGCAAGTTGT
TTACTGC
						
						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	GATCCATCTTCACTTGCACTGGCAGCAGGAGACTTGGGTGACTTAGGTCTAATTATTTCAACCC GTCTATTTGAACCTGACCGGGCAAGTTGTTTACTGCccagttaagtccaagctctcaaaaacct cttttaaagtcatataagtaccatctctgaaaatgaccacctacaaagacattatgcatagtaa tttgtaag
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: 967 Transcript exons: 144246659-144246726,144246825-144247004,144247107-144247 234,144247319-144247370,144247450-144247628,144248303-14 4248492,144252005-144252174 CCAGTTAAGTCCAAGCTCTCAAAAACCTCTTTTAAAGTCATATAAGTACCATCTCTGAAAATGA CCACCTCATCAGGTTCTTTTCTTAGTTTGGATTTTATGAACCTCAACAGATGTTTTTGATTCAT GCATGCTGAATGATGAACATGAGTGTCAACCTTCCTGACATTGTAAAAATCACGATGTGGGGCA GTCTTCTGGGCAAGAAATTCCCTATCCGCATTTAACATCAGATGGAATTTAAACTTATGCTCAA GAAGATTTAACCGATTATGGCAGACAGTTCTTGTGTTCCCTGCAGCCGTTACTCGGAGAATATA ATGCAAGTCAGTGAAGAAGGTTGTAGCATCAGCCACAGGATAAATGCTCTCCGTACAATCTTTA TCCGCATAAACATGGATAACGCCATCAACAGTTTGGAAAACATGCTCTGACTTTGGTTCAGGCA CATAAGTGAACGGGTTGGGGTTAGGTTTTGGAGTACAGGGGTCATTTATGACCTCCTTCTCCCA TGGAGCAACCTCCTCTCTAAAGAGATAAGAGTCTCTTAACTCGAGGCACTTCTGAAGGATTTTG AACACCTCAATTTCATCAGCAGTCGGAATCTCCTTTGGAGTAGTTAGCAGCTTGACAAATGATT CTTGCTGAGGTTCTTTTCGTAGAATATCTGCAGCAACTGGGTCAGGTTGAACTGCATGAAGATT ATTGGATTTACTGCGTGACCGTATCAAGTTTGCTGCAGCTAATGGCTTGGCAGCCCCATTTTCC ACAATTGCATTTCCTTTGTGTTCTCCTTCCAGGTTTCCACTTGTGTCCATGTAGCCATTGTCAA GTTTACCACTACTTTGTATAGAATCATCCTCATCTGATCCATCTTCACTTGCACTGGCAGCAGG AGACTTGGGTGACTTAGGTCTAATTATTTCAACCCGTCTATTTGAACCTGACCGGGCAAGTTGT TTACTGC
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
						0.152514347

Conservation Information
Conserved circRNAs	NA
PMCS	0.152514347

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							144252027-144252170(-)
						
						Potential amino acid sequence
						
							MDTSGNLEGEHKGNAIVENGAAKPLAAANLIRSRSKSNNLHAVQPDPVAADILRKEPQQESFVK
LLTTPKEIPTADEIEVFKILQKCLELRDSYLFREEVAPWEKEVINDPCTPKPNPNPFTYVPEPK
SEHVFQTVDGVIHVYADKDCTESIYPVADATTFFTDLHYILRVTAAGNTRTVCHNRLNLLEHKF
KFHLMLNADREFLAQKTAPHRDFYNVRKVDTHVHHSACMNQKHLLRFIKSKLRKEPDEVVIFRD
GTYMTLKEVFESLDLTGQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	144252027-144252170(-)
Potential amino acid sequence	MDTSGNLEGEHKGNAIVENGAAKPLAAANLIRSRSKSNNLHAVQPDPVAADILRKEPQQESFVK LLTTPKEIPTADEIEVFKILQKCLELRDSYLFREEVAPWEKEVINDPCTPKPNPNPFTYVPEPK SEHVFQTVDGVIHVYADKDCTESIYPVADATTFFTDLHYILRVTAAGNTRTVCHNRLNLLEHKF KFHLMLNADREFLAQKTAPHRDFYNVRKVDTHVHHSACMNQKHLLRFIKSKLRKEPDEVVIFRD GTYMTLKEVFESLDLTGQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

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

circRNA

Detail information of Zm00001d037982_circ_g.9

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