Plant Circular RNA Database

Detail information of Zm00001d011713_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d011713_circ_g.2
					
						ID in PlantcircBase
						zma_circ_009754
					
						Alias
						zma_circ_0002871
					
						Organism
						
							Zea mays						
					
						Position
						
							chr8: 159545446-159551404  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d011713						
					
						Parent gene annotation
						
							Myosin family protein with Dil domain
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d011713_circ_g.3 Zm00001d011713_circ_g.4 Zm00001d011713_circ_g.5 						
					
						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
						Zm00001d011713_T011:4
Zm00001d011713_T012:6
Zm00001d011713_T008:5
Zm00001d011713_T016:4
Zm00001d011713_T013:5
Zm00001d011713_T009:6
Zm00001d011713_T004:6
Zm00001d011713_T010:6
Zm00001d011713_T014:4
Zm00001d011713_T007:6
Zm00001d011713_T003:8
Zm00001d011713_T005:6
Zm00001d011713_T006:6
Zm00001d011713_T015:4

General Information
CircRNA Name	Zm00001d011713_circ_g.2
ID in PlantcircBase	zma_circ_009754
Alias	zma_circ_0002871
Organism	Zea mays
Position	chr8: 159545446-159551404 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d011713
Parent gene annotation	Myosin family protein with Dil domain
Parent gene strand	-
Alternative splicing	Zm00001d011713_circ_g.3 Zm00001d011713_circ_g.4 Zm00001d011713_circ_g.5
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	Zm00001d011713_T011:4 Zm00001d011713_T012:6 Zm00001d011713_T008:5 Zm00001d011713_T016:4 Zm00001d011713_T013:5 Zm00001d011713_T009:6 Zm00001d011713_T004:6 Zm00001d011713_T010:6 Zm00001d011713_T014:4 Zm00001d011713_T007:6 Zm00001d011713_T003:8 Zm00001d011713_T005:6 Zm00001d011713_T006:6 Zm00001d011713_T015:4

			
						 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  
						
							ACTTCTTGCTTGAGATTCAGCAACTGCAGCATTAGCTGCTTCATTTTGTTGTCTTTCTGTTAGC
AAAAGGGCCTCATATTCACTTACAGTCCCTTCTAGTcttgttattgtatccagaagactatcag
attttctatttgaaccttcaagcttttttattaattcttcgattctcaattgtgcttctgtaag
taatttta

									
								

					

						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: 1305
Transcript exons: 159545446-159545613,159545726-159545893,159545975-159546
141,159546778-159546878,159550006-159550202,159550355-15
9550522,159550853-159551020,159551237-159551404
CTTGTTATTGTATCCAGAAGACTATCAGATTTTCTATTTGAACCTTCAAGCTTTTTTATTAATT
CTTCGATTCTCAATTGTGCTTCTGTAAGTAATTTTAAGGTGGAAGCATTCTGTTCCTTTTCAGT
TAGCAATGAAGCTTCAGTTACTGTCAAGTTTCCTTCGAGTCTCCTAACCGAGCCCTCAAGTTCT
GCAATATATGCACCGGTATCTTGCACTTCAGTTAGCAATTCCGCAATCTTTTTCTGAGAACCAG
CTAATTCCTTCTTGGTTTCACTGTTTTCATGTCTTTCTGTAGCCAATAAAGAATCTTTATCTGC
TGTACTTTCTTCGAGTATTTTTACTGAATCTTCAAGCAGAACAATTTTGCTATCCGAGCTATCT
ACTTTGTGCCCTAACTCTCGGTTTTTCTCTTGAGATTCAAGCAGCAATTTTGCGGTGTAATCAT
ATCTTTGCTTTGTTGTAAGCAGTAAAGACTCTCTTATAATTCCATCTTTTCCAGTCGTCACTCT
GTCACCCTCGCCACCGTCGCTGTTGAACATGTGCACCAGGAACGACGCATCATCGATGTGCGAG
ACGTTCTTCGTGATCAGGCAGCGTGCATAGGATATCAATTTAAGGTAAGAATGGAACCTCTGCA
AAGAATCTTGAAGAAGCCCATTTCTGGCATCAGCATCTTCAAGCTTCCTTTGCAGCTCTCCTAT
TTCACCCTGAGATTCAGCTAGTTGTTTCATGATTGCATCCTTTTGCTGCCTTTCAGATCTCAAC
GAAGTTTCCAGTGCTGCCATATTTTCTTCATTTCTTTGGACAGTTTCTTGGAAGTGAGCAATGT
CTTTCTCAGCAACTTCAATTTTCATTAGTAAGTCCTTGTTTCTATCCTCAGATTCATTGAGCGA
TTTCTTAGTTGCTTCACTTTCTAGCCTTTCTGTTGTCAATAGAGCATCCTTCTCTCCTAACCTT
TCTTCAAGGCTTTGTATACTAGTCTGAAGCAGGGTGGATTTTTCATCAGTGTCCCCAACTTCTC
TTTGAAGTTCTTCAATCTTTTCTCGCGCTTCATCTAATTCTATCAAATTTGCCTGATGCCGTTG
CTTCTCAAATGTTAGTGAAGATTCCAAATTTTTTGTAGCTTCTTCAAATCTTTGAGCAGCTTCA
TGGAGGAGATCATTTTGTTTCACAGCATCTTCGAGCTTGCTTACCAATGCTTCACTTCTTGCTT
GAGATTCAGCAACTGCAGCATTAGCTGCTTCATTTTGTTGTCTTTCTGTTAGCAAAAGGGCCTC
ATATTCACTTACAGTCCCTTCTAGT
						
					

						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	ACTTCTTGCTTGAGATTCAGCAACTGCAGCATTAGCTGCTTCATTTTGTTGTCTTTCTGTTAGC AAAAGGGCCTCATATTCACTTACAGTCCCTTCTAGTcttgttattgtatccagaagactatcag attttctatttgaaccttcaagcttttttattaattcttcgattctcaattgtgcttctgtaag taatttta
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: 1305 Transcript exons: 159545446-159545613,159545726-159545893,159545975-159546 141,159546778-159546878,159550006-159550202,159550355-15 9550522,159550853-159551020,159551237-159551404 CTTGTTATTGTATCCAGAAGACTATCAGATTTTCTATTTGAACCTTCAAGCTTTTTTATTAATT CTTCGATTCTCAATTGTGCTTCTGTAAGTAATTTTAAGGTGGAAGCATTCTGTTCCTTTTCAGT TAGCAATGAAGCTTCAGTTACTGTCAAGTTTCCTTCGAGTCTCCTAACCGAGCCCTCAAGTTCT GCAATATATGCACCGGTATCTTGCACTTCAGTTAGCAATTCCGCAATCTTTTTCTGAGAACCAG CTAATTCCTTCTTGGTTTCACTGTTTTCATGTCTTTCTGTAGCCAATAAAGAATCTTTATCTGC TGTACTTTCTTCGAGTATTTTTACTGAATCTTCAAGCAGAACAATTTTGCTATCCGAGCTATCT ACTTTGTGCCCTAACTCTCGGTTTTTCTCTTGAGATTCAAGCAGCAATTTTGCGGTGTAATCAT ATCTTTGCTTTGTTGTAAGCAGTAAAGACTCTCTTATAATTCCATCTTTTCCAGTCGTCACTCT GTCACCCTCGCCACCGTCGCTGTTGAACATGTGCACCAGGAACGACGCATCATCGATGTGCGAG ACGTTCTTCGTGATCAGGCAGCGTGCATAGGATATCAATTTAAGGTAAGAATGGAACCTCTGCA AAGAATCTTGAAGAAGCCCATTTCTGGCATCAGCATCTTCAAGCTTCCTTTGCAGCTCTCCTAT TTCACCCTGAGATTCAGCTAGTTGTTTCATGATTGCATCCTTTTGCTGCCTTTCAGATCTCAAC GAAGTTTCCAGTGCTGCCATATTTTCTTCATTTCTTTGGACAGTTTCTTGGAAGTGAGCAATGT CTTTCTCAGCAACTTCAATTTTCATTAGTAAGTCCTTGTTTCTATCCTCAGATTCATTGAGCGA TTTCTTAGTTGCTTCACTTTCTAGCCTTTCTGTTGTCAATAGAGCATCCTTCTCTCCTAACCTT TCTTCAAGGCTTTGTATACTAGTCTGAAGCAGGGTGGATTTTTCATCAGTGTCCCCAACTTCTC TTTGAAGTTCTTCAATCTTTTCTCGCGCTTCATCTAATTCTATCAAATTTGCCTGATGCCGTTG CTTCTCAAATGTTAGTGAAGATTCCAAATTTTTTGTAGCTTCTTCAAATCTTTGAGCAGCTTCA TGGAGGAGATCATTTTGTTTCACAGCATCTTCGAGCTTGCTTACCAATGCTTCACTTCTTGCTT GAGATTCAGCAACTGCAGCATTAGCTGCTTCATTTTGTTGTCTTTCTGTTAGCAAAAGGGCCTC ATATTCACTTACAGTCCCTTCTAGT
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
						0.125859019

Conservation Information
Conserved circRNAs	NA
PMCS	0.125859019

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							159550412-159545448(-)
						
						Potential amino acid sequence
						
							MKIEVAEKDIAHFQETVQRNEENMAALETSLRSERQQKDAIMKQLAESQGEIGELQRKLEDADA
RNGLLQDSLQRLEESTADKDSLLATERHENSETKKELAGSQKKIAELLTEVQDTGAYIAELEGS
VRRLEGNLTVTEASLLTEKEQNASTLKLLTEAQLRIEELIKKLEGSNRKSDSLLDTITRLEGTV
SEYEALLLTERQQNEAANAAVAESQARSEALVSKLEDAVKQNDLLHEAAQRFEEATKNLESSLT
FEKQRHQANLIELDEAREKIEELQREVGDTDEKSTLLQTSIQSLEERLGEKDALLTTERLESEA
TKKSLNESEDRNKDLLMKIEVAEKDIAHFQETVQRNEENMAALETSLRSERQQKDAIMKQLAES
QGEIGELQRKLEDADARNGLLQDSLQRLEESTADKDSLLATERHENSETKKELAGSQKKIAELL
TEVQDTGAYIAELEGSVRRLEGNLTVTEASLLTEKEQNASTLKLLTEAQLRIEELIKKLEGSNR
KSDSLLDTITRLEGTVSEYEALLLTERQQNEAANAAVAESQARSEALVSKLEDAVKQNDLLHEA
AQRFEEATKNLESSLTFEKQRHQANLIELDEAREKIEELQREVGDTDEKSTLLQTSIQSLEERL
GEKDALLTTERLESEATKKSLNESEDRNKDLLMKIEVAEKDIAHFQETVQRNEENMAALETSLR
SERQQKDAIMKQLAESQGEIGELQRKLEDADARNGLLQDSLQRLEESTADKDSLLATERHENSE
TKKELAGSQKKIAELLTEVQDTGAYIAELEGSVRRLEGNLTVTEASLLTEKEQNASTLKLLTEA
QLRIEELIKKLEGSNRKSDSLLDTITRLEGTVSEYEALLLTERQQNEAANAAVAESQARSEALV
SKLEDAVKQNDLLHEAAQRFEEATKNLESSLTFEKQRHQANLIELDEAREKIEELQREVGDTDE
KSTLLQTSIQSLEERLGEKDALLTTERLESEATKKSLNESEDRNKDLLMKIEVAEKDIAHFQET
VQRNEENMAALETSLRSERQQKDAIMKQLAESQGEIGELQRKLEDADARNGLLQDSLQRLEEST
ADKDSLLATERHENSETKKELAGSQKKIAELLTEVQDTGAYIAELEGSVRRLEGNLTVTEASLL
TEKEQNASTLKLLTEAQLRIEELIKKLEGSNRKSDSLLDTIT(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	159550412-159545448(-)
Potential amino acid sequence	MKIEVAEKDIAHFQETVQRNEENMAALETSLRSERQQKDAIMKQLAESQGEIGELQRKLEDADA RNGLLQDSLQRLEESTADKDSLLATERHENSETKKELAGSQKKIAELLTEVQDTGAYIAELEGS VRRLEGNLTVTEASLLTEKEQNASTLKLLTEAQLRIEELIKKLEGSNRKSDSLLDTITRLEGTV SEYEALLLTERQQNEAANAAVAESQARSEALVSKLEDAVKQNDLLHEAAQRFEEATKNLESSLT FEKQRHQANLIELDEAREKIEELQREVGDTDEKSTLLQTSIQSLEERLGEKDALLTTERLESEA TKKSLNESEDRNKDLLMKIEVAEKDIAHFQETVQRNEENMAALETSLRSERQQKDAIMKQLAES QGEIGELQRKLEDADARNGLLQDSLQRLEESTADKDSLLATERHENSETKKELAGSQKKIAELL TEVQDTGAYIAELEGSVRRLEGNLTVTEASLLTEKEQNASTLKLLTEAQLRIEELIKKLEGSNR KSDSLLDTITRLEGTVSEYEALLLTERQQNEAANAAVAESQARSEALVSKLEDAVKQNDLLHEA AQRFEEATKNLESSLTFEKQRHQANLIELDEAREKIEELQREVGDTDEKSTLLQTSIQSLEERL GEKDALLTTERLESEATKKSLNESEDRNKDLLMKIEVAEKDIAHFQETVQRNEENMAALETSLR SERQQKDAIMKQLAESQGEIGELQRKLEDADARNGLLQDSLQRLEESTADKDSLLATERHENSE TKKELAGSQKKIAELLTEVQDTGAYIAELEGSVRRLEGNLTVTEASLLTEKEQNASTLKLLTEA QLRIEELIKKLEGSNRKSDSLLDTITRLEGTVSEYEALLLTERQQNEAANAAVAESQARSEALV SKLEDAVKQNDLLHEAAQRFEEATKNLESSLTFEKQRHQANLIELDEAREKIEELQREVGDTDE KSTLLQTSIQSLEERLGEKDALLTTERLESEATKKSLNESEDRNKDLLMKIEVAEKDIAHFQET VQRNEENMAALETSLRSERQQKDAIMKQLAESQGEIGELQRKLEDADARNGLLQDSLQRLEEST ADKDSLLATERHENSETKKELAGSQKKIAELLTEVQDTGAYIAELEGSVRRLEGNLTVTEASLL TEKEQNASTLKLLTEAQLRIEELIKKLEGSNRKSDSLLDTIT(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d011713_circ_g.2

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