Plant Circular RNA Database

Detail information of Zm00001d012751_circ_g.1

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d012751_circ_g.1
					

						ID in PlantcircBase
						zma_circ_005788
					

						Alias
						embryosac_test_circ_001093
					

						Organism
						
							Zea mays						
					

						Position
						
							chr8: 179758796-179761450  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						find_circ
					

						Parent gene
						
							Zm00001d012751						
					

						Parent gene annotation
						
							Putative homeodomain-like transcription factor superfamily prote
in  
							
					

						Parent gene strand
						+
					

						Alternative splicing
						
							Zm00001d012751_circ_g.2 						
					

						Support reads
						NA
					

						Tissues
						embryo sac
					

						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-TA							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
						Zm00001d012751_T041:3
Zm00001d012751_T074:6
Zm00001d012751_T085:6
Zm00001d012751_T073:5
Zm00001d012751_T048:6
Zm00001d012751_T052:6
Zm00001d012751_T091:2
Zm00001d012751_T047:7
Zm00001d012751_T076:6
Zm00001d012751_T051:5
Zm00001d012751_T080:6
Zm00001d012751_T015:5
Zm00001d012751_T077:6
Zm00001d012751_T042:6
Zm00001d012751_T018:5
Zm00001d012751_T011:4
Zm00001d012751_T049:6
Zm00001d012751_T022:6
Zm00001d012751_T025:3
Zm00001d012751_T054:6
Zm00001d012751_T007:5
Zm00001d012751_T010:5
Zm00001d012751_T008:5
Zm00001d012751_T055:6
Zm00001d012751_T028:5
Zm00001d012751_T059:6
Zm00001d012751_T058:7
Zm00001d012751_T083:7
Zm00001d012751_T013:5
Zm00001d012751_T023:5
Zm00001d012751_T021:5
Zm00001d012751_T035:6
Zm00001d012751_T009:4
Zm00001d012751_T079:6
Zm00001d012751_T017:5
Zm00001d012751_T082:6
Zm00001d012751_T071:4
Zm00001d012751_T003:5
Zm00001d012751_T057:7
Zm00001d012751_T019:5
Zm00001d012751_T084:7
Zm00001d012751_T034:6
Zm00001d012751_T039:7
Zm00001d012751_T020:5
Zm00001d012751_T089:5
Zm00001d012751_T036:5
Zm00001d012751_T044:5
Zm00001d012751_T046:7
Zm00001d012751_T050:7
Zm00001d012751_T006:5
Zm00001d012751_T086:6
Zm00001d012751_T033:2
Zm00001d012751_T016:5
Zm00001d012751_T038:6
Zm00001d012751_T081:6
Zm00001d012751_T088:6
Zm00001d012751_T078:6
Zm00001d012751_T040:2
Zm00001d012751_T045:7
Zm00001d012751_T087:6
Zm00001d012751_T063:5
Zm00001d012751_T002:4
Zm00001d012751_T053:6
Zm00001d012751_T056:7
Zm00001d012751_T075:6

					

			
		

General Information
CircRNA Name	Zm00001d012751_circ_g.1
ID in PlantcircBase	zma_circ_005788
Alias	embryosac_test_circ_001093
Organism	Zea mays
Position	chr8: 179758796-179761450 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d012751
Parent gene annotation	Putative homeodomain-like transcription factor superfamily prote in
Parent gene strand	+
Alternative splicing	Zm00001d012751_circ_g.2
Support reads	NA
Tissues	embryo sac
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-TA 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	Zm00001d012751_T041:3 Zm00001d012751_T074:6 Zm00001d012751_T085:6 Zm00001d012751_T073:5 Zm00001d012751_T048:6 Zm00001d012751_T052:6 Zm00001d012751_T091:2 Zm00001d012751_T047:7 Zm00001d012751_T076:6 Zm00001d012751_T051:5 Zm00001d012751_T080:6 Zm00001d012751_T015:5 Zm00001d012751_T077:6 Zm00001d012751_T042:6 Zm00001d012751_T018:5 Zm00001d012751_T011:4 Zm00001d012751_T049:6 Zm00001d012751_T022:6 Zm00001d012751_T025:3 Zm00001d012751_T054:6 Zm00001d012751_T007:5 Zm00001d012751_T010:5 Zm00001d012751_T008:5 Zm00001d012751_T055:6 Zm00001d012751_T028:5 Zm00001d012751_T059:6 Zm00001d012751_T058:7 Zm00001d012751_T083:7 Zm00001d012751_T013:5 Zm00001d012751_T023:5 Zm00001d012751_T021:5 Zm00001d012751_T035:6 Zm00001d012751_T009:4 Zm00001d012751_T079:6 Zm00001d012751_T017:5 Zm00001d012751_T082:6 Zm00001d012751_T071:4 Zm00001d012751_T003:5 Zm00001d012751_T057:7 Zm00001d012751_T019:5 Zm00001d012751_T084:7 Zm00001d012751_T034:6 Zm00001d012751_T039:7 Zm00001d012751_T020:5 Zm00001d012751_T089:5 Zm00001d012751_T036:5 Zm00001d012751_T044:5 Zm00001d012751_T046:7 Zm00001d012751_T050:7 Zm00001d012751_T006:5 Zm00001d012751_T086:6 Zm00001d012751_T033:2 Zm00001d012751_T016:5 Zm00001d012751_T038:6 Zm00001d012751_T081:6 Zm00001d012751_T088:6 Zm00001d012751_T078:6 Zm00001d012751_T040:2 Zm00001d012751_T045:7 Zm00001d012751_T087:6 Zm00001d012751_T063:5 Zm00001d012751_T002:4 Zm00001d012751_T053:6 Zm00001d012751_T056:7 Zm00001d012751_T075:6

			
						 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  
						
							GATCTGCTGCCAGATCATATAAAGCACAGTGACAACCCTGCATTGGTTGAAGGGCTGATGGTGA
ATGAAGTCAGGCTTTCTGCAGAGGATGACAGCAAAGggtcctgacacatctattttgactggat
aacaacgaaggtttctctgatattctgatgttgtagcagttactgtggacgatgttcgtttgtg
tttatcat

									
								

					

						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
						
							GGTCCTGACACATCTATTTTGACTGGATAACAACGAAGGTTTCTCTGATATTCTGATGTTGTAG
CAGTTACTGTGGACGATGTTCGTTTGTGTTTATCATTTTCTTGGTCTTGTTCGGGGCAACAACG
ACATTGGGAATAAGTGTACGGCAGACAAACAGTAACATGGGAAGGAAAGGCTCAGAAATGTCAC
CAAGTAAAAGGTATCCCTTGAGGTCTCCACATAGTAGTGGTAGAGTTCTTCGCTCTGCCTTAGC
CAATGATAATAAGGACAGTGAGCCTCTGAATGCTGCTGCTGCTACCCAAGCCGCTGTGAAAAAA
AGAAGTGGCAGTCAGTTGGATAGTCCTAATAGCAGTGTCAGGTTGTTTCACTCTACATCAAAAA
ATAAGAACGAGGCATGTAGCGGGCCTCTAAATGACAGGATCCCTGATAAGCCAGCTGCAAATAA
AAGAAAACGTGCCAGTCCTTCACAGGTGGGAAGTTCCAGCAACAGTGTCAGGGTGCTTCGCTCT
GCAATAAAAAATAAAGATGAGGCATGCAGTAAATCTCTAAGTGACAGGACCGCTGGTGAGCCAG
CTGCAAATAAAAGAAAAAACGTCAATCGCTCAAAGACGGGGAGTCTGAGCTGTGGTGTCAGGGT
GCTTCTATCTGCTTCAAAAGCTAAGGATGAGACATCTACCAAGCCTTTAAATGATAGTGCTGCT
GTTGAACCAGCTTCAGGTAAAAGGAAAGGCACCAGTCCGTCAAAGGTGGGAAGTGCCAGCAATA
GTGTCAGGGTGCTTCGATCTACTTCAAAATATAAGAATGAGACATGTACTGAGCCTTTAAATGA
TAGTGGTGCTGTTGAACCAGCTGCAAATAAAAGGAAAGGTGTCAGTCGTTCAAAGAAGAGAAGT
CTCAATAGCAGTGTCAGGGTGCTTCGCTCTGCCTCAAATAATAAGATTGAGGTATCTATTAAGC
CTCTAGGTAATAGTACTGCTGGCCAACCAGCTGCGAAAAGAAGAAAAAGCGGCAGTTCCTTCGA
GGCAGGAAGCCCTGTGAGCAGTGCCAGGGTGCTTCGCTCTACCTCAGAAAGGAAGAATGAGGCA
TCTAAGCCTTTAAATGAAAGTACTGCTGCTCAACCAGCTGCGAGGAAAAAAAAAGCTGGGGTAA
TTTCAAAGACCGACAATCCAAAGATTGGTCTCAGGGTTCTTCGCTCTGCCTCAGGAAAGAAGAA
TGAAGCATGTATTGGGCATGTAAATGATAGTACTTCTGCTGAACCAACTGTGACAAAAAGAAAC
CGCAAGCCTTCAATGGATCGCAGTCCCAAGAAGGACTACTTAAAAATTTGTCAAAGAGTTAGAT
ATATTTTGAATCGAATGAACTATCAACAAACCTTTATTCAAGCTTATGCAAGTGAAGGTTGGAA
AGGCCAAAGGTTTGTCATCCAAACATGTTTCATATTGCTGTTCAATGCCATTTTGTGCATTTTC
CCATTTTCTTGAATTAGGGTTTGATTTGGAGCATTTATTAGTTCATTTCATTCCAAAAAGGATA
TAATTAGTTGGTACTAGGTAGGATACAATCTGTACAATATCCTCATATACTAAGTGTCTAACTT
GGTTTTCTTTTTTATGTGTAACTGCTATTCCATATTTACTGTTTTTTATTAGGGTGGTATGACA
AATAGAACAGATGTTGGTTCTCGGGTACATATCGGCTGCATTCAATGTTCCACTGCCTATAATA
TTTCGGGATGTCTTGCAATTCACATTCAACTATGCATTTCTGTAATTCTATTAATAGACTTCAA
GTGTGTCCTCTTGTCATGTACTGTTTTGATGGTATAAATGTGCAGTTTGGAAAAAATAAGACCT
GAAAAGGAGCTTGAACGAGCCAAGGCAGAAATCCTCCAATGCAAGTTAAGAATCCGTGAAGCTT
TTCGAAATATGGACTCTCTTTTATCCAAGGGGAAGCTTGAAGAATCTTTGTTTGATTCCGCAGG
AGAAATTTCAAGCGAAGATGTAGGGGGTCTCATTTTATTCTTGATAATCTCACATTCTTATTTG
AGCCTGGTTGTCAACTTAGTTCAGACATAATTTGTCTCATCTTTCAGATATTTTGTGCTGTATG
TGGCTCAAAGGATGTTACTTTACAAAATGACATCATTCTTTGTGATGGAGCCTGTGACAGAGGA
TTCCACCAGAACTGTTTGAACCCTCCTTTGCTAACTGAAGATAGTAATATCCACTACATCTTTT
GGTTTCCCTATGTTCTCAAATCATCATTGCATCCGTTGCTCATTTTTTTTTTATTTCTAGTACC
TCCGGGGGATCAAAGATGGCTTTGCCCTGCATGTGTCTGCAAAGCAGACTCTATAGATGCACTA
AATGAACTTCAAGGAAGCAAGCTCTCCATTCATGACTCATGGGAGGTAAAAACCCCACAAAGTA
CCAGTAGAACTAAGATAAATGAGGCGAAATTATATTCTAACATGACGGTGCTTTTAATCTCTGC
AGAAAGTTTTCCCTGAGGCAGCTTCAATTGCCAACGGTTCTAAACAAGTTGATACTTCTGATCT
GCTGCCAGATCATATAAAGCACAGTGACAACCCTGCATTGGTTGAAGGGCTGATGGTGAATGAA
GTCAGGCTTTCTGCAGAGGATGACAGCAAAG
						
					

			
		

Sequences
Splice junction sequence	GATCTGCTGCCAGATCATATAAAGCACAGTGACAACCCTGCATTGGTTGAAGGGCTGATGGTGA ATGAAGTCAGGCTTTCTGCAGAGGATGACAGCAAAGggtcctgacacatctattttgactggat aacaacgaaggtttctctgatattctgatgttgtagcagttactgtggacgatgttcgtttgtg tttatcat
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	GGTCCTGACACATCTATTTTGACTGGATAACAACGAAGGTTTCTCTGATATTCTGATGTTGTAG CAGTTACTGTGGACGATGTTCGTTTGTGTTTATCATTTTCTTGGTCTTGTTCGGGGCAACAACG ACATTGGGAATAAGTGTACGGCAGACAAACAGTAACATGGGAAGGAAAGGCTCAGAAATGTCAC CAAGTAAAAGGTATCCCTTGAGGTCTCCACATAGTAGTGGTAGAGTTCTTCGCTCTGCCTTAGC CAATGATAATAAGGACAGTGAGCCTCTGAATGCTGCTGCTGCTACCCAAGCCGCTGTGAAAAAA AGAAGTGGCAGTCAGTTGGATAGTCCTAATAGCAGTGTCAGGTTGTTTCACTCTACATCAAAAA ATAAGAACGAGGCATGTAGCGGGCCTCTAAATGACAGGATCCCTGATAAGCCAGCTGCAAATAA AAGAAAACGTGCCAGTCCTTCACAGGTGGGAAGTTCCAGCAACAGTGTCAGGGTGCTTCGCTCT GCAATAAAAAATAAAGATGAGGCATGCAGTAAATCTCTAAGTGACAGGACCGCTGGTGAGCCAG CTGCAAATAAAAGAAAAAACGTCAATCGCTCAAAGACGGGGAGTCTGAGCTGTGGTGTCAGGGT GCTTCTATCTGCTTCAAAAGCTAAGGATGAGACATCTACCAAGCCTTTAAATGATAGTGCTGCT GTTGAACCAGCTTCAGGTAAAAGGAAAGGCACCAGTCCGTCAAAGGTGGGAAGTGCCAGCAATA GTGTCAGGGTGCTTCGATCTACTTCAAAATATAAGAATGAGACATGTACTGAGCCTTTAAATGA TAGTGGTGCTGTTGAACCAGCTGCAAATAAAAGGAAAGGTGTCAGTCGTTCAAAGAAGAGAAGT CTCAATAGCAGTGTCAGGGTGCTTCGCTCTGCCTCAAATAATAAGATTGAGGTATCTATTAAGC CTCTAGGTAATAGTACTGCTGGCCAACCAGCTGCGAAAAGAAGAAAAAGCGGCAGTTCCTTCGA GGCAGGAAGCCCTGTGAGCAGTGCCAGGGTGCTTCGCTCTACCTCAGAAAGGAAGAATGAGGCA TCTAAGCCTTTAAATGAAAGTACTGCTGCTCAACCAGCTGCGAGGAAAAAAAAAGCTGGGGTAA TTTCAAAGACCGACAATCCAAAGATTGGTCTCAGGGTTCTTCGCTCTGCCTCAGGAAAGAAGAA TGAAGCATGTATTGGGCATGTAAATGATAGTACTTCTGCTGAACCAACTGTGACAAAAAGAAAC CGCAAGCCTTCAATGGATCGCAGTCCCAAGAAGGACTACTTAAAAATTTGTCAAAGAGTTAGAT ATATTTTGAATCGAATGAACTATCAACAAACCTTTATTCAAGCTTATGCAAGTGAAGGTTGGAA AGGCCAAAGGTTTGTCATCCAAACATGTTTCATATTGCTGTTCAATGCCATTTTGTGCATTTTC CCATTTTCTTGAATTAGGGTTTGATTTGGAGCATTTATTAGTTCATTTCATTCCAAAAAGGATA TAATTAGTTGGTACTAGGTAGGATACAATCTGTACAATATCCTCATATACTAAGTGTCTAACTT GGTTTTCTTTTTTATGTGTAACTGCTATTCCATATTTACTGTTTTTTATTAGGGTGGTATGACA AATAGAACAGATGTTGGTTCTCGGGTACATATCGGCTGCATTCAATGTTCCACTGCCTATAATA TTTCGGGATGTCTTGCAATTCACATTCAACTATGCATTTCTGTAATTCTATTAATAGACTTCAA GTGTGTCCTCTTGTCATGTACTGTTTTGATGGTATAAATGTGCAGTTTGGAAAAAATAAGACCT GAAAAGGAGCTTGAACGAGCCAAGGCAGAAATCCTCCAATGCAAGTTAAGAATCCGTGAAGCTT TTCGAAATATGGACTCTCTTTTATCCAAGGGGAAGCTTGAAGAATCTTTGTTTGATTCCGCAGG AGAAATTTCAAGCGAAGATGTAGGGGGTCTCATTTTATTCTTGATAATCTCACATTCTTATTTG AGCCTGGTTGTCAACTTAGTTCAGACATAATTTGTCTCATCTTTCAGATATTTTGTGCTGTATG TGGCTCAAAGGATGTTACTTTACAAAATGACATCATTCTTTGTGATGGAGCCTGTGACAGAGGA TTCCACCAGAACTGTTTGAACCCTCCTTTGCTAACTGAAGATAGTAATATCCACTACATCTTTT GGTTTCCCTATGTTCTCAAATCATCATTGCATCCGTTGCTCATTTTTTTTTTATTTCTAGTACC TCCGGGGGATCAAAGATGGCTTTGCCCTGCATGTGTCTGCAAAGCAGACTCTATAGATGCACTA AATGAACTTCAAGGAAGCAAGCTCTCCATTCATGACTCATGGGAGGTAAAAACCCCACAAAGTA CCAGTAGAACTAAGATAAATGAGGCGAAATTATATTCTAACATGACGGTGCTTTTAATCTCTGC AGAAAGTTTTCCCTGAGGCAGCTTCAATTGCCAACGGTTCTAAACAAGTTGATACTTCTGATCT GCTGCCAGATCATATAAAGCACAGTGACAACCCTGCATTGGTTGAAGGGCTGATGGTGAATGAA GTCAGGCTTTCTGCAGAGGATGACAGCAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.018989614

Conservation Information
Conserved circRNAs	NA
PMCS	0.018989614

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							179760089-179758800(+)
179761416-179758822(+)
179758810-179761367(-)
						
						Potential amino acid sequence
						
							MDRSPKKDYLKICQRVRYILNRMNYQQTFIQAYASEGWKGQSLEKIRPEKELERAKAEILQCKL
RIREAFRNMDSLLSKGKLEESLFDSAGEISSEDIFCAVCGSKDVTLQNDIILCDGACDRGFHQN
CLNPPLLTEDIPPGDQRWLCPACVCKADSIDALNELQGSKLSIHDSWEKVFPEAASIANGSKQV
DTSDLLPDHIKHSDNPALVEGLMVNEVRLSAEDDSKGS*(+)
MKSGFLQRMTAKGPDTSILTG*(+)
MCQDPLLSSSAESLTSFTISPSTNAGLSLCFI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	179760089-179758800(+) 179761416-179758822(+) 179758810-179761367(-)
Potential amino acid sequence	MDRSPKKDYLKICQRVRYILNRMNYQQTFIQAYASEGWKGQSLEKIRPEKELERAKAEILQCKL RIREAFRNMDSLLSKGKLEESLFDSAGEISSEDIFCAVCGSKDVTLQNDIILCDGACDRGFHQN CLNPPLLTEDIPPGDQRWLCPACVCKADSIDALNELQGSKLSIHDSWEKVFPEAASIANGSKQV DTSDLLPDHIKHSDNPALVEGLMVNEVRLSAEDDSKGS(+) MKSGFLQRMTAKGPDTSILTG(+) MCQDPLLSSSAESLTSFTISPSTNAGLSLCFI*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Tang et al., 2018

circRNA

Detail information of Zm00001d012751_circ_g.1

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