Plant Circular RNA Database

Detail information of Zm00001d009562_circ_g.1

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d009562_circ_g.1
					

						ID in PlantcircBase
						zma_circ_009625
					

						Alias
						zma_circ_0002994
					

						Organism
						
							Zea mays						
					

						Position
						
							chr8: 70202776-70203589  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						find_circ
					

						Parent gene
						
							Zm00001d009562						
					

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

						Parent gene strand
						+
					

						Alternative splicing
						
							Zm00001d009562_circ_g.2 						
					

						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
						Zm00001d009562_T079:2
Zm00001d009562_T037:2
Zm00001d009562_T064:2
Zm00001d009562_T051:2
Zm00001d009562_T087:2
Zm00001d009562_T028:2
Zm00001d009562_T018:2
Zm00001d009562_T012:2
Zm00001d009562_T003:2
Zm00001d009562_T033:2
Zm00001d009562_T010:2
Zm00001d009562_T013:2
Zm00001d009562_T060:2
Zm00001d009562_T008:2
Zm00001d009562_T021:2
Zm00001d009562_T057:2
Zm00001d009562_T007:2
Zm00001d009562_T034:2
Zm00001d009562_T006:2
Zm00001d009562_T045:2
Zm00001d009562_T016:2
Zm00001d009562_T027:2
Zm00001d009562_T036:2
Zm00001d009562_T005:2
Zm00001d009562_T067:2
Zm00001d009562_T049:2
Zm00001d009562_T025:2
Zm00001d009562_T066:2
Zm00001d009562_T039:2
Zm00001d009562_T024:2
Zm00001d009562_T082:2
Zm00001d009562_T019:2
Zm00001d009562_T023:2
Zm00001d009562_T063:2
Zm00001d009562_T014:2
Zm00001d009562_T038:2
Zm00001d009562_T020:2
Zm00001d009562_T040:2
Zm00001d009562_T017:3
Zm00001d009562_T029:3
Zm00001d009562_T046:2
Zm00001d009562_T035:2
Zm00001d009562_T001:2
Zm00001d009562_T050:2
Zm00001d009562_T041:2
Zm00001d009562_T069:2
Zm00001d009562_T043:2
Zm00001d009562_T026:2
Zm00001d009562_T058:2
Zm00001d009562_T022:2
Zm00001d009562_T009:2
Zm00001d009562_T044:2
Zm00001d009562_T030:2
Zm00001d009562_T031:2
Zm00001d009562_T032:1
Zm00001d009562_T002:2
Zm00001d009562_T015:2
Zm00001d009562_T011:2
Zm00001d009562_T062:2
Zm00001d009562_T004:2
Zm00001d009562_T052:2

					

			
		

General Information
CircRNA Name	Zm00001d009562_circ_g.1
ID in PlantcircBase	zma_circ_009625
Alias	zma_circ_0002994
Organism	Zea mays
Position	chr8: 70202776-70203589 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d009562
Parent gene annotation	Putative homeodomain-like transcription factor superfamily prote in
Parent gene strand	+
Alternative splicing	Zm00001d009562_circ_g.2
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	Zm00001d009562_T079:2 Zm00001d009562_T037:2 Zm00001d009562_T064:2 Zm00001d009562_T051:2 Zm00001d009562_T087:2 Zm00001d009562_T028:2 Zm00001d009562_T018:2 Zm00001d009562_T012:2 Zm00001d009562_T003:2 Zm00001d009562_T033:2 Zm00001d009562_T010:2 Zm00001d009562_T013:2 Zm00001d009562_T060:2 Zm00001d009562_T008:2 Zm00001d009562_T021:2 Zm00001d009562_T057:2 Zm00001d009562_T007:2 Zm00001d009562_T034:2 Zm00001d009562_T006:2 Zm00001d009562_T045:2 Zm00001d009562_T016:2 Zm00001d009562_T027:2 Zm00001d009562_T036:2 Zm00001d009562_T005:2 Zm00001d009562_T067:2 Zm00001d009562_T049:2 Zm00001d009562_T025:2 Zm00001d009562_T066:2 Zm00001d009562_T039:2 Zm00001d009562_T024:2 Zm00001d009562_T082:2 Zm00001d009562_T019:2 Zm00001d009562_T023:2 Zm00001d009562_T063:2 Zm00001d009562_T014:2 Zm00001d009562_T038:2 Zm00001d009562_T020:2 Zm00001d009562_T040:2 Zm00001d009562_T017:3 Zm00001d009562_T029:3 Zm00001d009562_T046:2 Zm00001d009562_T035:2 Zm00001d009562_T001:2 Zm00001d009562_T050:2 Zm00001d009562_T041:2 Zm00001d009562_T069:2 Zm00001d009562_T043:2 Zm00001d009562_T026:2 Zm00001d009562_T058:2 Zm00001d009562_T022:2 Zm00001d009562_T009:2 Zm00001d009562_T044:2 Zm00001d009562_T030:2 Zm00001d009562_T031:2 Zm00001d009562_T032:1 Zm00001d009562_T002:2 Zm00001d009562_T015:2 Zm00001d009562_T011:2 Zm00001d009562_T062:2 Zm00001d009562_T004:2 Zm00001d009562_T052:2

			
						 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  
						
							AGTACCGGCAGAAGCTCTTCTACCTTTTTGGACGGATGGGTATCGGAAATCTTGGGGTGCGAAG
TTGTATTCTGCATCATCTGCCGAAGAAGTCTTGCAGgcatttgaagctttggtagcttcccttg
atactcgtggcatccgcgagtcacatttgcactcaattttgcaaagtatcgagccaaccttcaa
ggaagctg

						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
						
							GCATTTGAAGCTTTGGTAGCTTCCCTTGATACTCGTGGCATCCGCGAGTCACATTTGCACTCAA
TTTTGCAAAGTATCGAGCCAACCTTCAAGGAAGCTGTTGAGAGGAAAAGGTGTGCTAATTTAGA
ACACCCAACTGGACGGACTTCGGAAAATGGAAGTAATGAAAGTCCAAATTGCAACAATGAATTT
GGAAGTCCATGCAGTACCCTTTCTGGTGTTGCTTCTGATAATCTTATGGCACATTCAGATATTT
TCAAGATAGAGGTTGGGCGCAATGAAGCTGAGAAGAATTCTATCTCGAAAAGGGCTTCCGTGTT
TCTGAAATGGATCTGGAGAGAGTGCTACAGTCACCAATCTACATACGCCATGAGATATGGAAAG
AAGCGGTGTCCTGAGTTGATTCACTCTTGTGATTATTGCTACCAGATATACTTAGCTGAAGAAA
GGCACTGTTCTTGCCACAAAACATTCAAACACATTCACAATTTCTTGGAACACTCATCACAATG
TGAAGAAAAACAAAGAACAGATCCCAATTGGAAGATGCAAACTGTGGACCTTTCTGTACCCGTA
GGATTGAGATTGCTAAGGCTGCTCTTAGCTACCATTGAGGTATAGTGACATTTTATGATCATTC
ATTAGTGACATCTATTTTGTTTGTTGCAAAAAATGGTGTTTGTGTGACTTGTTAGATCGCGTGT
TACAGGCCTTAGTACCGGCAGAAGCTCTTCTACCTTTTTGGACGGATGGGTATCGGAAATCTTG
GGGTGCGAAGTTGTATTCTGCATCATCTGCCGAAGAAGTCTTGCAG

Sequences
Splice junction sequence	AGTACCGGCAGAAGCTCTTCTACCTTTTTGGACGGATGGGTATCGGAAATCTTGGGGTGCGAAG TTGTATTCTGCATCATCTGCCGAAGAAGTCTTGCAGgcatttgaagctttggtagcttcccttg atactcgtggcatccgcgagtcacatttgcactcaattttgcaaagtatcgagccaaccttcaa ggaagctg
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	GCATTTGAAGCTTTGGTAGCTTCCCTTGATACTCGTGGCATCCGCGAGTCACATTTGCACTCAA TTTTGCAAAGTATCGAGCCAACCTTCAAGGAAGCTGTTGAGAGGAAAAGGTGTGCTAATTTAGA ACACCCAACTGGACGGACTTCGGAAAATGGAAGTAATGAAAGTCCAAATTGCAACAATGAATTT GGAAGTCCATGCAGTACCCTTTCTGGTGTTGCTTCTGATAATCTTATGGCACATTCAGATATTT TCAAGATAGAGGTTGGGCGCAATGAAGCTGAGAAGAATTCTATCTCGAAAAGGGCTTCCGTGTT TCTGAAATGGATCTGGAGAGAGTGCTACAGTCACCAATCTACATACGCCATGAGATATGGAAAG AAGCGGTGTCCTGAGTTGATTCACTCTTGTGATTATTGCTACCAGATATACTTAGCTGAAGAAA GGCACTGTTCTTGCCACAAAACATTCAAACACATTCACAATTTCTTGGAACACTCATCACAATG TGAAGAAAAACAAAGAACAGATCCCAATTGGAAGATGCAAACTGTGGACCTTTCTGTACCCGTA GGATTGAGATTGCTAAGGCTGCTCTTAGCTACCATTGAGGTATAGTGACATTTTATGATCATTC ATTAGTGACATCTATTTTGTTTGTTGCAAAAAATGGTGTTTGTGTGACTTGTTAGATCGCGTGT TACAGGCCTTAGTACCGGCAGAAGCTCTTCTACCTTTTTGGACGGATGGGTATCGGAAATCTTG GGGTGCGAAGTTGTATTCTGCATCATCTGCCGAAGAAGTCTTGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.244541687

Conservation Information
Conserved circRNAs	NA
PMCS	0.244541687

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							70203014-70203586(+)
70203526-70202791(+)
70202818-70203260(-)
70202781-70203382(-)
						
						Potential amino acid sequence
						
							MAHSDIFKIEVGRNEAEKNSISKRASVFLKWIWRECYSHQSTYAMRYGKKRCPELIHSCDYCYQ
IYLAEERHCSCHKTFKHIHNFLEHSSQCEEKQRTDPNWKMQTVDLSVPVGLRLLRLLLATIEAL
VPAEALLPFWTDGYRKSWGAKLYSASSAEEVLQAFEALVASLDTRGIRESHLHSILQSIEPTFK
EAVERKRCANLEHPTGRTSENGSNESPNCNNEFGSPCSTLSGVASDNLMAHSDIFKIEVGRNEA
EKNSISKRASVFLKWIWRECYSHQSTYAMRYGKKRCPELIHSCDYCYQIYLAEERHCSCHKTFK
HIHNFLEHSSQCEEKQRTDPNWKMQTVDLSVPVGLRLLRLLLATIEALVPAEALLPFWTDGYRK
SWGAKLYSASSAEEVLQAFEALVASLDTRGIRESHLHSILQSIEPTFKEAVERKRCANLEHPTG
RTSENGSNESPNCNNEFGSPCSTLSGVASDNLMAHSDIFKIEVGRNEAEKNSISKRASVFLKWI
WRECYSHQSTYAMRYGKKRCPELIHSCDYCYQIYLAEERHCSCHKTFKHIHNFLEHSSQCEEKQ
RTDPNWKMQTVDLSVPVGLRLLRLLLATIEALVPAEALLPFWTDGYRKSWGAKLYSASSAEEVL
QAFEALVASLDTRGIRESHLHSILQSIEPTFKEAVERKRCANLEHPTGRTSENGSNESPNCNNE
FGSPCSTLSGVASDNLMAHSDIFKIEVGRNEAEKNSISKRASVFLKWIWRECYSHQSTYAMRYG
KKRCPELIHSCDYCYQIYLAEERHCSCHKTFKHIHNFLEHSSQCEEKQRTDPNWKMQTVDLSVP
VGLRLLRLLLATIEALVPAEALLPFWTDGYRKSWGAKLYSASSAEEVLQ(+)
MGIGNLGVRSCILHHLPKKSCRHLKLW*(+)
MPRVSREATKASNACKTSSADDAEYNFAPQDFRYPSVQKGRRASAGTKASMVAKSSLSNLNPTG
TERSTVCIFQLGSVLCFSSHCDECSKKL*(-)
MPARLLRQMMQNTTSHPKISDTHPSKKVEELLPVLRPQW*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	70203014-70203586(+) 70203526-70202791(+) 70202818-70203260(-) 70202781-70203382(-)
Potential amino acid sequence	MAHSDIFKIEVGRNEAEKNSISKRASVFLKWIWRECYSHQSTYAMRYGKKRCPELIHSCDYCYQ IYLAEERHCSCHKTFKHIHNFLEHSSQCEEKQRTDPNWKMQTVDLSVPVGLRLLRLLLATIEAL VPAEALLPFWTDGYRKSWGAKLYSASSAEEVLQAFEALVASLDTRGIRESHLHSILQSIEPTFK EAVERKRCANLEHPTGRTSENGSNESPNCNNEFGSPCSTLSGVASDNLMAHSDIFKIEVGRNEA EKNSISKRASVFLKWIWRECYSHQSTYAMRYGKKRCPELIHSCDYCYQIYLAEERHCSCHKTFK HIHNFLEHSSQCEEKQRTDPNWKMQTVDLSVPVGLRLLRLLLATIEALVPAEALLPFWTDGYRK SWGAKLYSASSAEEVLQAFEALVASLDTRGIRESHLHSILQSIEPTFKEAVERKRCANLEHPTG RTSENGSNESPNCNNEFGSPCSTLSGVASDNLMAHSDIFKIEVGRNEAEKNSISKRASVFLKWI WRECYSHQSTYAMRYGKKRCPELIHSCDYCYQIYLAEERHCSCHKTFKHIHNFLEHSSQCEEKQ RTDPNWKMQTVDLSVPVGLRLLRLLLATIEALVPAEALLPFWTDGYRKSWGAKLYSASSAEEVL QAFEALVASLDTRGIRESHLHSILQSIEPTFKEAVERKRCANLEHPTGRTSENGSNESPNCNNE FGSPCSTLSGVASDNLMAHSDIFKIEVGRNEAEKNSISKRASVFLKWIWRECYSHQSTYAMRYG KKRCPELIHSCDYCYQIYLAEERHCSCHKTFKHIHNFLEHSSQCEEKQRTDPNWKMQTVDLSVP VGLRLLRLLLATIEALVPAEALLPFWTDGYRKSWGAKLYSASSAEEVLQ(+) MGIGNLGVRSCILHHLPKKSCRHLKLW(+) MPRVSREATKASNACKTSSADDAEYNFAPQDFRYPSVQKGRRASAGTKASMVAKSSLSNLNPTG TERSTVCIFQLGSVLCFSSHCDECSKKL(-) MPARLLRQMMQNTTSHPKISDTHPSKKVEELLPVLRPQW*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d009562_circ_g.1

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